CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NZ_CP028799	Acinetobacter junii strain WCHAJ59 plasmid p2_010059, complete sequence	0 crisprs	NA	0	0
NZ_CP028798	Acinetobacter junii strain WCHAJ59 plasmid p1_010059, complete sequence	0 crisprs	NA	0	1
NZ_CP028800	Acinetobacter junii strain WCHAJ59 chromosome, complete genome	2 crisprs	TnsE_C,csa3,RT,cas3,DEDDh,WYL,PrimPol	1	4

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

20432 : 29346

Salmonella_phage(16.67%)

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000678311.1\|20432_20999_-	recombinase family protein	A0A1B0V7I5	Salmonella_phage	4.1e-25	50.0
WP_079878061.1\|21491_21641_+	DUF4113 domain-containing protein	A0A0P0IVV3	Acinetobacter_phage	2.5e-06	46.9
WP_005130374.1\|21801_22089_-	type II toxin-antitoxin system RelE/ParE family toxin	A0A2H4JBF4	uncultured_Caudovirales_phage	9.0e-21	53.8
WP_005130375.1\|22078_22327_-	type II toxin-antitoxin system Phd/YefM family antitoxin	NA	NA	NA	NA
WP_005130376.1\|22329_22755_-	hypothetical protein	NA	NA	NA	NA
WP_005130377.1\|23021_23261_-	hypothetical protein	NA	NA	NA	NA
WP_005130378.1\|23257_23887_-	AAA family ATPase	A0A222YXS3	Escherichia_phage	1.3e-59	53.8
WP_004843977.1\|24337_25252_+	replication initiation protein	A0A218MNI2	uncultured_virus	9.2e-51	38.5
WP_087540686.1\|25800_29346_+	hypothetical protein	Q6UAU7	Klebsiella_phage	8.6e-12	21.0

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

2. NZ_CP028800

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP028800_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP028800_1

423899-424192

Unclear

Consensus_repeat	Method
TGGTGGTGAAGATCGTCCACGTCG	CRT

4 spacers

The CRISPR arrays of NZ_CP028800_1

>merge|NZ_CP028800|1|423899-424192|CRT
AGGTGGTGATGATCGTCCACGTCGTAGCTTCGATGATAAACCACGTGGTGAACGTCCATCATTTGGTGGTGAAGATCGTCCACGTCGCGAATTCAATTCTGATCGTCCACGTCGTGAAGGTGGTTTTGAAGACCGTCCACGTCGTAACTTTGATGATAAACCACGTGGTGAACGTCCATCGTTTGGTGGTGAAGATCGTCCACGTCGCGAATTCAATTCTGATCGTCCACGCCGCGAAGGTGGTTTTGATGATCGTCCAAAGCGTACATTTGGTGGTGAAGATCGCCCACGTCG

>NZ_CP028800|1|1|423899-424192|CRT
AGGTGGTGATGATCGTCCACGTCG	TAGCTTCGATGATAAACCACGTGGTGAACGTCCATCATT
TGGTGGTGAAGATCGTCCACGTCG	CGAATTCAATTCTGATCGTCCACGTCGTGAAGG
TGGTTTTGAAGACCGTCCACGTCG	TAACTTTGATGATAAACCACGTGGTGAACGTCCATCGTT
TGGTGGTGAAGATCGTCCACGTCG	CGAATTCAATTCTGATCGTCCACGCCGCGAAGGTGGTTTTGATGATCGTCCAAAGCGTACATT
TGGTGGTGAAGATCGCCCACGTCG

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP028800.2\|WP_087539559.1\|421323_422154_+\|inositol-monophosphatase	unknown	unknown	gnl\|CDD\|238817
NZ_CP028800.2\|WP_153569569.1\|427287_427872_+\|ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|377516
NZ_CP028800.2\|WP_087539563.1\|416118_416907_-\|shikimate-dehydrogenase	unknown	unknown	gnl\|CDD\|234703
NZ_CP028800.2\|WP_087539561.1\|417323_418265_-\|oxygen-dependent-coproporphyrinogen-oxidase	unknown	unknown	gnl\|CDD\|235413
NZ_CP028800.2\|WP_004964376.1\|430037_431051_-\|magnesium-and-cobalt-transport-protein-CorA	unknown	unknown	gnl\|CDD\|213369
NZ_CP028800.2\|WP_004964385.1\|427883_428171_+\|STAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|379202
NZ_CP028800.2\|WP_004909422.1\|426545_427220_+\|outer-membrane-lipid-asymmetry-maintenance-protein-MlaD	unknown	unknown	gnl\|CDD\|275223
NZ_CP028800.2\|WP_087539565.1\|413746_416068_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP028800.2\|WP_004964372.1\|431201_431786_+\|TIGR00730-family-Rossman-fold-protein	unknown	unknown	gnl\|CDD\|129813
NZ_CP028800.2\|WP_004760601.1\|410348_410618_-\|PspC-domain-containing-protein	unknown	unknown	gnl\|CDD\|377200
NZ_CP028800.2\|WP_087539651.1\|410961_411630_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP028800.2\|WP_004964378.1\|429484_430036_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP028800.2\|WP_004909426.1\|424954_425773_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213228
NZ_CP028800.2\|WP_004909424.1\|425769_426546_+\|lipid-asymmetry-maintenance-ABC-transporter-permease-subunit-MlaE	unknown	unknown	gnl\|CDD\|223838
NZ_CP028800.2\|WP_005003123.1\|428306_429461_+\|IS4-family-transposase	unknown	unknown	gnl\|CDD\|372999
NZ_CP028800.2\|WP_005403269.1\|418396_418999_-\|GTP-cyclohydrolase-II	unknown	unknown	gnl\|CDD\|234745
NZ_CP028800.2\|WP_087539567.1\|409174_410284_+\|HPP-family-protein	unknown	unknown	gnl\|CDD\|225979
NZ_CP028800.2\|WP_004909436.1\|419305_421201_+\|1-deoxy-D-xylulose-5-phosphate-synthase	unknown	unknown	gnl\|CDD\|235470
NZ_CP028800.2\|WP_004964390.1\|424643_424859_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP028800.2\|WP_004909455.1\|411683_413507_-\|acyl-CoA-dehydrogenase-C-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|185635

Protein	Function_ID	Function_description	E-value
NZ_CP028800.2\|WP_087539559.1\|421323_422154_+\|inositol-monophosphatase	gnl\|CDD\|238817	cd01639, IMPase, IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be recycled into inositol lipids; in eukaryotes IMPase plays a vital role in intracellular signaling. IMPase is one of the proposed targets of Li+ therapy in manic-depressive illness. This family contains some bacterial members of the inositol monophosphatase family classified as SuhB-like. E. coli SuhB has been suggested to participate in posstranscriptional control of gene expression, and its inositol monophosphatase activity doesn't appear to be sufficient for its cellular function. It has been proposed, that SuhB plays a role in the biosynthesis of phosphatidylinositol in mycobacteria.	8.72953e-113
NZ_CP028800.2\|WP_153569569.1\|427287_427872_+\|ABC-transporter-substrate-binding-protein	gnl\|CDD\|377516	pfam05494, MlaC, MlaC protein. MlaC is a component of the Mla pathway, an ABC transport system that functions to maintain the asymmetry of the outer membrane. This family of proteins is involved in toluene tolerance, which is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation. Many proteins are involved in these processes.	5.93844e-42
NZ_CP028800.2\|WP_087539563.1\|416118_416907_-\|shikimate-dehydrogenase	gnl\|CDD\|234703	PRK00258, aroE, shikimate 5-dehydrogenase; Reviewed.	2.00957e-112
NZ_CP028800.2\|WP_087539561.1\|417323_418265_-\|oxygen-dependent-coproporphyrinogen-oxidase	gnl\|CDD\|235413	PRK05330, PRK05330, oxygen-dependent coproporphyrinogen oxidase.	0
NZ_CP028800.2\|WP_004964376.1\|430037_431051_-\|magnesium-and-cobalt-transport-protein-CorA	gnl\|CDD\|213369	cd12835, EcCorA-like_1, Escherichia coli Mg2+ transporter CorA_like subgroup. A bacterial subgroup of the Escherichia coli CorA-Salmonella typhimurium ZntB_like (EcCorA_ZntB-like) family of the MIT superfamily of essential membrane proteins involved in transporting divalent cations (uptake or efflux) across membranes. This subgroup includes the Mg2+ transporters Escherichia coli CorA and Salmonella typhimurium CorA (which can also transport Co2+, and Ni2+). Structures of the intracellular domain of Vibrio parahaemolyticus and Salmonella typhimurium ZntB form funnel-shaped homopentamers, the tip of the funnel is formed from two C-terminal transmembrane (TM) helices from each monomer, and the large opening of the funnel from the N-terminal cytoplasmic domains. The GMN signature motif of the MIT superfamily occurs just after TM1, mutation within this motif is known to abolish Mg2+ transport through Salmonella typhimurium CorA, and Mrs2p. Natural variants such as GVN and GIN, such as occur in some ZntB family proteins, may be associated with the transport of different divalent cations, such as zinc and cadmium. The functional diversity of MIT transporters may also be due to minor structural differences regulating gating, substrate selection, and transport.	2.99883e-129
NZ_CP028800.2\|WP_004964385.1\|427883_428171_+\|STAS-domain-containing-protein	gnl\|CDD\|379202	pfam13466, STAS_2, STAS domain. The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of Sulphate transporters and bacterial antisigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.	0.000182003
NZ_CP028800.2\|WP_004909422.1\|426545_427220_+\|outer-membrane-lipid-asymmetry-maintenance-protein-MlaD	gnl\|CDD\|275223	TIGR04430, OM_asym_MlaD, outer membrane lipid asymmetry maintenance protein MlaD. Members of this protein family are the MlaD (maintenance of Lipid Asymmetry D) protein of an ABC transport system that seems to remove phospholipid from the outer leaflet of the Gram-negative bacterial outer membrane (OM), leaving only lipopolysaccharide in the outer leaflet. The Mla locus has long been associated with toluene tolerance, consistent with the proposed role in retrograde transport of phospholipid and therefore with maintaining the integrity of the OM as a protective barrier.	1.99373e-46
NZ_CP028800.2\|WP_004964372.1\|431201_431786_+\|TIGR00730-family-Rossman-fold-protein	gnl\|CDD\|129813	TIGR00730, LOG_family_protein_YJL055W, TIGR00730 family protein. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions. [Hypothetical proteins, Conserved].	2.53297e-65
NZ_CP028800.2\|WP_004760601.1\|410348_410618_-\|PspC-domain-containing-protein	gnl\|CDD\|377200	pfam04024, PspC, PspC domain. This family includes Phage shock protein C (PspC) that is thought to be a transcriptional regulator. The presumed domain is 60 amino acid residues in length.	9.59509e-21
NZ_CP028800.2\|WP_005003123.1\|428306_429461_+\|IS4-family-transposase	gnl\|CDD\|372999	pfam14294, DUF4372, Domain of unknown function (DUF4372). This domain family is found in bacteria, and is approximately 80 amino acids in length. The family is found in association with pfam01609. There is a single completely conserved residue G that may be functionally important.	5.05183e-25
NZ_CP028800.2\|WP_004909426.1\|424954_425773_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213228	cd03261, ABC_Org_Solvent_Resistant, ATP-binding cassette transport system involved in resistant to organic solvents. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.	1.56278e-139
NZ_CP028800.2\|WP_004909424.1\|425769_426546_+\|lipid-asymmetry-maintenance-ABC-transporter-permease-subunit-MlaE	gnl\|CDD\|223838	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism].	2.23346e-82
NZ_CP028800.2\|WP_005403269.1\|418396_418999_-\|GTP-cyclohydrolase-II	gnl\|CDD\|234745	PRK00393, ribA, GTP cyclohydrolase II RibA.	6.1108e-125
NZ_CP028800.2\|WP_087539567.1\|409174_410284_+\|HPP-family-protein	gnl\|CDD\|225979	COG3448, COG3448, CBS-domain-containing membrane protein [Signal transduction mechanisms].	3.7128e-99
NZ_CP028800.2\|WP_004909436.1\|419305_421201_+\|1-deoxy-D-xylulose-5-phosphate-synthase	gnl\|CDD\|235470	PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase; Provisional.	0
NZ_CP028800.2\|WP_004909455.1\|411683_413507_-\|acyl-CoA-dehydrogenase-C-terminal-domain-containing-protein	gnl\|CDD\|185635	PTZ00456, PTZ00456, acyl-CoA dehydrogenase; Provisional.	0

>NZ_CP028800.2|WP_087539559.1|421323_422154_+|inositol-monophosphatase
MEPMVVMAARAAQTVGQELLKAHQNRHKLNLQVEEKGIDGPVTRVDRYLEQLTIDTLRKSYKNHSFLGEEFGMQEGKGHDADWCWVIDPLDGTQNFINGFPHFCISIAVQHKGVTQHGVIYDPVRDELFSASRGRGAVMNQRRIRANVKDTLDKTFLAVGHPYRAQRNGEIVSYAEQHFASLLAVTKSGAQIRRAGSAALDLAYVAAGRFDGFFELGLKPWDIAAGELIVKEAGGVVVDARGGNDSMENGQVIACSMKMLKPLMQAVVPAWSEAAK
>NZ_CP028800.2|WP_004909436.1|419305_421201_+|1-deoxy-D-xylulose-5-phosphate-synthase
MLYTEIPTQRPVTPLLDEIDHPEQLRQLEQSQLPQVADELRQYILYAAGQSGGHFGANLGVIELTVALHYCFNTPDDRLVWDVGHQAYPHKVLTGRRERITTIRSKGGLAAFPARDESDFDTFGVGHSSTAISAGLGMALARRYQQKPCEVVAIIGDGAMTAGMAFEAMNDAVAHNADLIVVLNDNDMSISCSTGGFAKHLAAIWETGQLVNVNEQGEAYVQPHPKWTYNSRLHQSATDAADNLFKAIGFDYFGPFDGHNVEQLAQVFHALKKRKGPRLVHVYTKKGKGFAPAEADPITYHAITKITPTASAPVKKSPPKYSDVFGQWLCDEAAQDARLLAITPAMCEGSGMVKFAQQYPERFFDVAIAEQHAVTLAAGMACEGLKPVVAIYSTFLQRGYDQLIHDVALQNLDVTFGIDRAGLVGEDGPTHAGAYDYAYMRTVPNMVIMAPKDENECRQMLHTAYHYKGPTAVRYPRGAGTGVEIQQQMTALEIGKAEIVAEFNLDADQQISILAFGSRVAASVEAAQQFANKHAIGVRVVNMRFVKPLDEQMIRTLAERTQLFVTVEEHAVMAGAGSAVNEFLAQAKIVKPILNLGLPDEFLHQATHQQMLADCGLDAHGILASIERAWF
>NZ_CP028800.2|WP_005403269.1|418396_418999_-|GTP-cyclohydrolase-II
MPIEFIATSKLPTAFGDFNISVFQDPKTGEEHVALSKGLETPPNTPVLVRIHSECLTGDAFASLKCDCGPQLQATQRLINEAGQGVILYLRQEGRGIGLTNKIRAYALQDQGHDTVDANLLLNLPADARRYDMCSIMLDHLQVKEVKLITNNPLKLKALTDLGINVVERVPLTVGKNPFNEQYLKTKRERMDHLYQKDDF
>NZ_CP028800.2|WP_087539561.1|417323_418265_-|oxygen-dependent-coproporphyrinogen-oxidase
MQHPTSADIQRVREFLLDLQTRICAGLEQQERADGGTAEFIIDDWERTEGGGGRSRVLQNGEVIEKGGVMFSHINISKLPASATERHPQIAGAKAQALGVSLVIHPKNPNIPTSHANVRLFVAEPEGQDPVWWFGGGFDLTPFYPDDQDIQNWHQTAYDLCKPFGENVYAEHKQWCDDYFYLKHRDEQRGVGGLFFDDLNQWDFETCFKYIQAVGNGYLEAILPIFEKHREQPYTEAQREFQLYRRGRYVEYNLVYDRGTLFGLQTGGRIESILVSLPNLAGWSYRPEWDADSQEKRLTDYYLKPRDWLGLTK
>NZ_CP028800.2|WP_087539563.1|416118_416907_-|shikimate-dehydrogenase
MTKQFAVIGNPIEQSRSPELHHAFAAKTGVDLNYKKILAPLDGFESAVKAFFDQNGVGMNVTVPFKEQAFALCDQLTERAKIAKAVNTLWMQDGQLYGDNTDGQGLVAAIQALNWNLTNSRILILGAGGATRGVIYPLVQAGAKQIVIANRTLARAEQLVEDLKTAVPDTKLHAICLDQLTGEFDIVINATSASLTGEALQLPQTLIFHHAYEMAYGKPSSFLDQALIRQVPSTDGFGMLVGQAIEAFSIWNGVKPELKDFL
>NZ_CP028800.2|WP_087539565.1|413746_416068_+|hypothetical-protein
MRLKYLTLCLFGLSISGCSQHVIKTNSSSSSLEQKAINSINAMYEYPSYDYRGKFNIHVDLDQHKAEADQQKDVLDAALKQKVDQYLREQKVNLDAKQKQALYKALAEQPKGLGNSKFDKFARVMANILNDMQFEYDGSVHYRQKMGSFNLTARYEKPTLLVQAKVPMVLDLNNYKFYINYFALMPYLVNKENQNNLAYLDFSKYQGLFKQVDYKKFAEYIKASSAIYYRLADPNSIQTLSVSSADQAAGVVEKIRLKTTIEELVLQANLYSKVNEKYLMQSILKFDEQNLEKLISEQDKTDTASKAEQSGTLLNSKAAADDASVVSQELYRLVNQHFGVEELEDEYTEEADATKVAAEDVAQEAEDITEEADAVAESATATEQVLTAEQCTALQNAAKTNFGDIQYCQTMYDVDVLGEQKTPLGFLSYIEKLVAVEKEFVQYDQNQFIDDQGFKALWLKHQADIQKALPPVEKRNPFVMDVGLDAQGRAVKLDYDLNYALPELKSSFNIKADMLVTNYGKATPIDQAQLKQAKTWAEASKGSILEQAIGSFSEKLGQTGIQERSAQPYTLSLDDQLKVIAEQRYDATQSYEQTYKAVFIAKLVESNPILAKRYTSQELQEVASVYAYWFSDEEVYSPEGKALKQIESLQKKHHLEQEDQFDDKLGQAVNRLVTDAMRGDQDRQQWKKLKAQYKQPQQLFAKQYQIQFEQTNGISSEEKILLEQTANVLGQVYIDARKNQLSDKSLKALKIEHNEFIDYEIFKDVYQKMISTK
>NZ_CP028800.2|WP_004909455.1|411683_413507_-|acyl-CoA-dehydrogenase-C-terminal-domain-containing-protein
MPAYKAPLRDIRFLMNEVFDYPAHYQTLTSGQNADADTVDMILEGAADYCENVLSPINQSGDEEGCTFNNGEVTTPKGFKEAYDQFVMGGWQGLSYPEEFGGQGLPMSLNLIKSEMMGTANWSFTMYPGLSTGCMNTIMQFGTDEQKNTYMPKLVEGTWSGTMCLTEPQCGTDLGQVKTKAEAAADGTYKISGTKIFISAGEHDLTENIIHIVLARLPDSPAGTRGISLFIVPKFIPTADGGVGERNTVSCGSIEHKMGIRASATAVLNFDNATGYLIGEINKGLHAMFTFMNTARIGTAVQGIAHAELSFQGALPYAKDRMSMRALSGKKEPERVADAIIHHADVRRMLLTQKAVAEGGRAMIYHAAKLADKMADALASGDQAAYEAADDKLGFYTPILKGFLTELGLEAANHGIQVYGGHGFIKEWGMEQIARDARISTLYEGTTGVQALDLLGRKVLLSSKGKVVRDYTAEILKFCAAHARNKYLRRFAWDLTKLCAQWNTLTVRIMLAARKDRDIVSSASNDFLMFSGYVMMAYFWAQQAVIASEKLEAGNGAETPEFYKAKIKVADFYFDRLLPRAQGHAESMVSTSRTLTSLAPEHFSFDY
>NZ_CP028800.2|WP_087539651.1|410961_411630_+|hypothetical-protein
MQFRLFLQPLSVGTLLVLGLTACDGHHPEPAISHSQTQPKPVEAAVSTVLVDDQAVSSEGVALTKVAGQATIPHVASKHIEKPSPQDLIYAGRYHARIPCSDPFAGCVNNENEAEYIINLLDDGSVFWTNTSFGRLGTDSSQNIAKIEQTCKQVHWHVHKDQNEIMIRCDAADVNLYYQINANQDLVMNLDKIWNGDHGQNRKFFNEYPFPKKAYVFEKVKS
>NZ_CP028800.2|WP_004760601.1|410348_410618_-|PspC-domain-containing-protein
MANSGLYRSNQQSMIAGVMGGIAERFGWNANLLRLIFVIISIMSAAFPGILVYLIMWLVIPKRQANRVEHVQGYNQPVKTVYEDQGIKR
>NZ_CP028800.2|WP_087539567.1|409174_410284_+|HPP-family-protein
MNLTQLDWINLLKPNYKVLPVKERVFSGFGALCGLAISSLISWYVLGGMNAWYIAPMGASSVLLFAVPNSPLAQPWNVVVGNTLAGFIGVACTQLLPDLTTAFSVAVGLAIFMMMTTDSLHPPSGAVAITAVLGGEAVHKLGFHFILYPVLLNSVLLLVFAVFFNRLIGRNYPTMPHLNERSKDPTPTQKVSIQPKDIEYALEQHTELLDISQYDLEKIILEAQEHANERLNHSFVCQDIMSRDVIKLYENDDIHQALDKFKSVNLMSLPVVNDQEQLVGTLALYEVVEWFKGATDPRNSWQHYVKQIMSRRVVKVDPLQPIQDLVPYFVEKSFNYIPVVEELRLIGIISRADMIAALHQQIKQQSSVF
>NZ_CP028800.2|WP_004964390.1|424643_424859_+|hypothetical-protein
MNNIKQNNSFVAQAWSFVCNEGLPCLFVILMLCNGLFFAYALFDENNSDSFNANNTMHVASESASKNNYIN
>NZ_CP028800.2|WP_004909426.1|424954_425773_+|ABC-transporter-ATP-binding-protein
MNNKTPRDTEALIEVKHLSFNRGERVIYDDVCLKIRRGQITAIMGPSGTGKTTLLRLIGGQLTPDRGEVLIDGKNIAAMSRPELFTARARMGMLFQSGALFTDMSVYENVAFPIRAHTKLPEHIIAELVALKLESVGLRGAEQLMPSELSGGMNRRVALARAIALDPELIMYDEPFAGQDPIVKGVLTRLIRSLREALDLTTIIVSHDVAETLSIADYIYVVAEGKIQGEGTPEQLENHASPFVRQFLTGSAEGPVEYQFTHQAYLDNEVRP
>NZ_CP028800.2|WP_004909424.1|425769_426546_+|lipid-asymmetry-maintenance-ABC-transporter-permease-subunit-MlaE
MNTIAWLGRLVIERVKGIGAASLMLIQILFSMPSKGGFQRFIYQMYRVGVMSLLIISVSGLFIGLVLGLQGYSILVNVGSEAMLGTMVSLTLLRELAPVVAALLFAGRAGSALTAEIGSMKQSEQLASMEMIGVDPLKQIVSPRLWAGIVSLPMLTVIFAAIGIVGGKLVGVDFLGVDEGSFWGGMQSSVQFGHDVVNGIIKSVVFALICTWVAVYQGYACDPTPEGIATSMTRTVVYSSLCVLGFDFVLTAVMFGGI
>NZ_CP028800.2|WP_004909422.1|426545_427220_+|outer-membrane-lipid-asymmetry-maintenance-protein-MlaD
MKSRTSELAVGIFVIIFGIALFFLAMKVSGLVGTNLRDSYSMTAQFDNVNGLKPRAKVTMSGVTIGRVESITLDPITRLATVKFELDGKLTSFNAEQLKEVQKNALEELRYSSDYQQADAAKQKEMEQQLIGNMTSITSLDEDAYIMVATNGLLGEKYLKVVPGGGVNYLKRGDVVSNTQGTMDLEDLISKFITGGAGKSTSSSSTESSASQPATDDAEPSFVE
>NZ_CP028800.2|WP_153569569.1|427287_427872_+|ABC-transporter-substrate-binding-protein
MLASAAFAAPKETPPDFVKRVADGLITRLKADKPKLQNNPALVRTIIRQNLDPYVDSQAFTRIVLGTYANNQYTNAAQRAQFEKNFREVIIENYGGAFAKYTNESYTMRPFKSTNSKNPVVTLDFMHNGEKIPVSFQLTDKGDQWKVRNINVSGIDLGLQFRNQFAATVQRNGGNIDKAIATFKPDADAAVNKK
>NZ_CP028800.2|WP_004964385.1|427883_428171_+|STAS-domain-containing-protein
MIQYIDQQLVVPKTIDFENAEQVYQSGLAYIQQHQSFPLVVDLAQLENGNTLSLAVLVQWLRQTPESKGLHFKNVSEKMLKIIQACHLQDDLKLI
>NZ_CP028800.2|WP_005003123.1|428306_429461_+|IS4-family-transposase
MSHQNTVFHQLLKPILRQDFERLAKLHHSGQKLRSATRWDQFVAILMSQLSCRQSLRDIQSNLESQQEKLYHLGAKRIARSTLARLNEEQPASLYQQLFTQLLQRCENSKTAHKFRFKNPLYSLDASHIDLSLSLCAWAKVHESKASIKLSVGLNHSNTIPEFVALGDGIENDMVQGRAFKFPAGSIIVFDKGYVDYQWFAQLTLQNVSFVTRLRPKTVYQVKSSRSVLETKGIIADECIELSSAHAKKRGAPELLRRIEFYDTDKKRTFEFLSNNFHLAASTIAAIYKDRWKIELFFKAIKQNLKLKSFLGRSRNAIQTQIWIALIAYLLVNFAKHMAQEGWSVQRLLRIIQVNLFERKLLRSLFVPDKKWRKQEEPQLRFFL
>NZ_CP028800.2|WP_004964378.1|429484_430036_-|hypothetical-protein
MKGLFLCIGITLSIPTTFACAPLSPNDVFIARVKSVQKINSINHTKFKLQHPDFAFKNLLSKIISPRPKEWMSDFPVKTIKTNDLIMGLAYPSNHNAPQKYQIVSLALLHCKENTISIDLPIAPFTAWNRRIKGCNNESSIRLLDGFLEHDESFYLKKTTSKISNLRSSFFSLSQIIPIKKRA
>NZ_CP028800.2|WP_004964376.1|430037_431051_-|magnesium-and-cobalt-transport-protein-CorA
MLEAFYATERGSLEDATINGSFDLHPELVWIDLIAPSQEEQQWVLDAYERNLPTLKSLEDISSSARFYRDDDGILHISTYFLTKNKNYQVDGDTDDSSHMLAMVQTVAFILHKDRLFTMRGEKLVAFRAFRARARRNDYDMDYKDPTWILLGLLEAKLDELADILEDIHKDLERYSTEVLNNHHREKILDLDDMITRLAQQEDMLGKAQLCLIDLRRVLTFLSRPRALGSHIYDADIRELSEDVRSLVEHDAFLFQKVRFLLDTTSGFINTEQNDTIRRFSILPSMLAPPMLIASIYGMNTDELPFAHGSLSFLIVAGILMAFLVLPMVYFRWKKWI
>NZ_CP028800.2|WP_004964372.1|431201_431786_+|TIGR00730-family-Rossman-fold-protein
MNSICVFCGSSLGNDVVYEQITQATGQIIAEQGLTLVYGGGRSGLMGVVANSALEAGGKVIGVIPEALVDRELAHAELSELYVVKDMHERKTKMAELADGFIALPGGAGTLEEIFEQWTWNQLGIHQKPCAFLNINGFYDDLIKMLQTSVEHGFSQARFVDTLIVSDNIHDILAAFQKYQPAVPKWTSRNEIQA

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Crispr_ID: NZ_CP028800_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP028800_2

1612481-1612632

Orphan

Consensus_repeat	Method
CTTACAAGAATGATCATCACCAAATAGGGCAACAACACCACCATGTTCGGCTGTA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP028800_2

>merge|NZ_CP028800|2|1612481-1612632|CRISPRCasFinder
CTTACAAGAATGATCATCACCAAATAGGGCAACAACACCACCATGTTCGGCTGTAACCCATCATCACATGTTCAGACTGGTGCGGAACAGTAGAAGACTTACAAGAATGATCATCACCAAATAGGGCAACAACACCACCATGTTCGGCTGTA

>NZ_CP028800|2|1|1612481-1612632|CRISPRCasFinder
CTTACAAGAATGATCATCACCAAATAGGGCAACAACACCACCATGTTCGGCTGTA	ACCCATCATCACATGTTCAGACTGGTGCGGAACAGTAGAAGA
CTTACAAGAATGATCATCACCAAATAGGGCAACAACACCACCATGTTCGGCTGTA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP028800.2\|WP_087540099.1\|1619660_1620833_-\|isovaleryl-CoA-dehydrogenase	unknown	unknown	gnl\|CDD\|173845
NZ_CP028800.2\|WP_087540108.1\|1602823_1603939_-\|muconate-cycloisomerase	unknown	unknown	gnl\|CDD\|162905
NZ_CP028800.2\|WP_087540109.1\|1598398_1599415_-\|ring-hydroxylating-dioxygenase-ferredoxin-reductase-family-protein	unknown	unknown	gnl\|CDD\|99805
NZ_CP028800.2\|WP_087540100.1\|1618034_1619636_-\|methylcrotonoyl-CoA-carboxylase	unknown	unknown	gnl\|CDD\|178415
NZ_CP028800.2\|WP_004911176.1\|1601456_1602377_-\|catechol-1,2-dioxygenase	unknown	unknown	gnl\|CDD\|274134
NZ_CP028800.2\|WP_087540097.1\|1621704_1623420_+\|AMP-binding-protein	unknown	unknown	gnl\|CDD\|236236
NZ_CP028800.2\|WP_164978092.1\|1621002_1621596_+\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NZ_CP028800.2\|WP_039047310.1\|1599485_1599986_-\|benzoate-1,2-dioxygenase-small-subunit	unknown	unknown	gnl\|CDD\|132276
NZ_CP028800.2\|WP_004961867.1\|1623463_1624165_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NZ_CP028800.2\|WP_005080679.1\|1614319_1615222_-\|hydroxymethylglutaryl-CoA-lyase	unknown	unknown	gnl\|CDD\|163676
NZ_CP028800.2\|WP_087540112.1\|1596338_1597556_-\|benzoate/H(+)-symporter-BenE	unknown	unknown	gnl\|CDD\|129923
NZ_CP028800.2\|WP_004954312.1\|1599997_1601374_-\|benzoate-1,2-dioxygenase-large-subunit	unknown	unknown	gnl\|CDD\|132273
NZ_CP028800.2\|WP_087540106.1\|1604050_1604983_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176136
NZ_CP028800.2\|WP_087540105.1\|1606515_1608711_+\|OsmC-domain/YcaO-domain-containing-protein	unknown	unknown	gnl\|CDD\|132588
NZ_CP028800.2\|WP_004911173.1\|1602520_1602811_-\|muconolactone-Delta-isomerase	unknown	unknown	gnl\|CDD\|213786
NZ_CP028800.2\|WP_087540140.1\|1624448_1625735_+\|DcaP-like-protein	unknown	unknown	unknown
NZ_CP028800.2\|WP_087540102.1\|1617221_1618025_-\|enoyl-CoA-hydratase/isomerase-family-protein	unknown	unknown	gnl\|CDD\|235664
NZ_CP028800.2\|WP_087540111.1\|1597595_1598381_-\|1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate-dehydrogenase	unknown	unknown	gnl\|CDD\|183772
NZ_CP028800.2\|WP_087540103.1\|1615218_1617210_-\|acetyl/propionyl/methylcrotonyl-CoA-carboxylase-subunit-alpha	unknown	unknown	gnl\|CDD\|227111
NZ_CP028800.2\|WP_087540142.1\|1613263_1614220_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176114

Protein	Function_ID	Function_description	E-value
NZ_CP028800.2\|WP_087540099.1\|1619660_1620833_-\|isovaleryl-CoA-dehydrogenase	gnl\|CDD\|173845	cd01156, IVD, Isovaleryl-CoA dehydrogenase. Isovaleryl-CoA dehydrogenase (IVD) is an is an acyl-CoA dehydrogenase, which catalyzes the third step in leucine catabolism, the conversion of isovaleryl-CoA (3-methylbutyryl-CoA) into 3-methylcrotonyl-CoA. IVD is a homotetramer and has the greatest affinity for small branched chain substrates.	0
NZ_CP028800.2\|WP_087540108.1\|1602823_1603939_-\|muconate-cycloisomerase	gnl\|CDD\|162905	TIGR02534, Muconate_cycloisomerase_1-2, muconate and chloromuconate cycloisomerases. This model encompasses muconate cycloisomerase (EC 5.5.1.1) and chloromuconate cycloisomerase (EC 5.5.1.7), enzymes that often overlap in specificity. It excludes more distantly related proteins such as mandelate racemase (5.1.2.2).	0
NZ_CP028800.2\|WP_087540109.1\|1598398_1599415_-\|ring-hydroxylating-dioxygenase-ferredoxin-reductase-family-protein	gnl\|CDD\|99805	cd06209, BenDO_FAD_NAD, Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.	9.77217e-134
NZ_CP028800.2\|WP_087540100.1\|1618034_1619636_-\|methylcrotonoyl-CoA-carboxylase	gnl\|CDD\|178415	PLN02820, PLN02820, 3-methylcrotonyl-CoA carboxylase, beta chain.	0
NZ_CP028800.2\|WP_004911176.1\|1601456_1602377_-\|catechol-1,2-dioxygenase	gnl\|CDD\|274134	TIGR02439, Catechol_12-dioxygenase_1, catechol 1,2-dioxygenase, proteobacterial. Members of this family known so far are catechol 1,2-dioxygenases of the Proteobacteria. They are distinct from catechol 1,2-dioxygenases and chlorocatechol 1,2-dioxygenases of the Actinobacteria, which are quite similar to each other and resolved by separate models. This enzyme catalyzes intradiol cleavage in which catechol + O2 becomes cis,cis-muconate. Catechol is an intermediate in the catabolism of many different aromatic compounds, as is the alternative intermediate protocatechuate. In Acinetobacter lwoffii, two isozymes are present with abilities, differing somewhat, to act on catechol analogs 3-methylcatechol, 4-methylcatechol, 4-methoxycatechol, and 4-chlorocatechol. [Energy metabolism, Other].	5.70847e-178
NZ_CP028800.2\|WP_087540097.1\|1621704_1623420_+\|AMP-binding-protein	gnl\|CDD\|236236	PRK08315, PRK08315, AMP-binding domain protein; Validated.	0
NZ_CP028800.2\|WP_164978092.1\|1621002_1621596_+\|TetR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	9.33128e-16
NZ_CP028800.2\|WP_039047310.1\|1599485_1599986_-\|benzoate-1,2-dioxygenase-small-subunit	gnl\|CDD\|132276	TIGR03232, benzo_1_2_benB, benzoate 1,2-dioxygenase, small subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family should all act on benzoate, but several have additional known activities on various benozate analogs. Some members actually may be named more suitably according to such alternate an activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).	6.72471e-105
NZ_CP028800.2\|WP_004961867.1\|1623463_1624165_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	8.50328e-19
NZ_CP028800.2\|WP_005080679.1\|1614319_1615222_-\|hydroxymethylglutaryl-CoA-lyase	gnl\|CDD\|163676	cd07938, DRE_TIM_HMGL, 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain. 3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".	8.14293e-163
NZ_CP028800.2\|WP_087540112.1\|1596338_1597556_-\|benzoate/H(+)-symporter-BenE	gnl\|CDD\|129923	TIGR00843, Benzoate_membrane_transport_protein, benzoate transporter. The benzoate transporter family contains only a single characterised member, the benzoate transporter of Acinetobacter calcoaceticus, which functions as a benzoate/proton symporter. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids].	2.01749e-174
NZ_CP028800.2\|WP_004954312.1\|1599997_1601374_-\|benzoate-1,2-dioxygenase-large-subunit	gnl\|CDD\|132273	TIGR03229, benzo_1_2_benA, benzoate 1,2-dioxygenase, large subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family all act on benzoate, but may have additional activities on various benozate analogs. This model describes the large subunit. Between the trusted and noise cutoffs are similar enzymes, likely to act on benzoate but perhaps best identified according to some other activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13). [Energy metabolism, Other].	0
NZ_CP028800.2\|WP_087540106.1\|1604050_1604983_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|176136	cd08445, PBP2_BenM_CatM_CatR, The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold. This CD includes the C-terminal of LysR-type transcription regulators, BenM, CatM, and CatR, which are involved in the benzoate catabolism. The BenM and CatM are paralogs with overlapping functions. BenM responds synergistically to two effectors, benzoate and cis,cis-muconate, to activate expression of the benABCDE operon which is involved in benzoate catabolism, while CatM responses only to muconate. BenM and CatM share high protein sequence identity and bind to the operator-promoter regions that have similar DNA sequences. In Pseudomonas species, phenolic compounds are converted by different enzymes to central intermediates, such as protocatechuate and catechols. Generally, unsubstituted compounds, such as benzoate, are metabolized by an ortho-cleavage pathway. The catBCA operon encodes three enzymes of the ortho-pathway required for benzoate catabolism: muconate lactonizing enzyme I, muconolactone isomerase, and catechol 1,2-dioxygenase. CatR normally responds to benzoate and cis,cis-muconate, an inducer molecule, to activate transcription of the catBCA operon, whose gene products convert benzoate to catechol. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the substrate-binding domains from ionotropic glutamate receptors, LysR-like transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.	4.95348e-95
NZ_CP028800.2\|WP_087540105.1\|1606515_1608711_+\|OsmC-domain/YcaO-domain-containing-protein	gnl\|CDD\|132588	TIGR03549, TIGR03549, YcaO domain protein. This family consists of remarkably well-conserved proteins from gamma and beta Proteobacteria, heavily skewed towards organisms of marine environments. Its gene neighborhood is not conserved. This family has an OsmC-like N-terminal domain. It shares a YcaO domain, frequently associated with ATP-dependent cyclodehydration for peptide modification. The function is unknown. Fifteen of the first sixteen members of this family are from selenouridine-positive genomes, but this correlation may not be meaningful.	0
NZ_CP028800.2\|WP_004911173.1\|1602520_1602811_-\|muconolactone-Delta-isomerase	gnl\|CDD\|213786	TIGR03221, muco_delta, muconolactone delta-isomerase. Members of this protein family are muconolactone delta-isomerase (EC 5.3.3.4), the CatC protein of the ortho cleavage pathway for metabolizing aromatic compounds by way of catechol. [Energy metabolism, Other].	1.40423e-56
NZ_CP028800.2\|WP_087540102.1\|1617221_1618025_-\|enoyl-CoA-hydratase/isomerase-family-protein	gnl\|CDD\|235664	PRK05995, PRK05995, enoyl-CoA hydratase; Provisional.	9.3568e-124
NZ_CP028800.2\|WP_087540111.1\|1597595_1598381_-\|1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate-dehydrogenase	gnl\|CDD\|183772	PRK12823, benD, 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional.	1.44587e-173
NZ_CP028800.2\|WP_087540103.1\|1615218_1617210_-\|acetyl/propionyl/methylcrotonyl-CoA-carboxylase-subunit-alpha	gnl\|CDD\|227111	COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism].	0
NZ_CP028800.2\|WP_087540142.1\|1613263_1614220_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|176114	cd08422, PBP2_CrgA_like, The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain. This CD includes the substrate binding domain of LysR-type transcriptional regulator (LTTR) CrgA and its related homologs. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis further showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene and activates the expression of the mdaB gene which coding for an NADPH-quinone reductase and that its action is increased by MBL (alpha-methylene-gamma-butyrolactone), an inducer of NADPH-quinone oxidoreductase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	2.11772e-70

>NZ_CP028800.2|WP_087540105.1|1606515_1608711_+|OsmC-domain/YcaO-domain-containing-protein
MEIKVNYLDNLRQEAKFDDFTVIADQPIRYKGDGSAPGPFDYFLASSALCAAYFVKVYCAARDIPTDNIRLSQNNIVDPENRYKQIFKIQVELPADISEKDRQGILRSIDRCTVKKVIQTGPEFVIEEVESIDADAQALLMPNLASESTTYIQGKDLPLEETIANMSAILAGLGMKIEIASWRNIVPNVWSLHIRDAQSPMCFTNGKGSTKESALASALGEFIERLNCNFFYNDQFWGEEIANAEFVHYPDEKWFKPGPNGELPKEILDEYCLEIYDPEKELLGTHLYDTNSGNIERGICSLPFVRQSDGETVYFPSNLIENLYLSNGMSAGNTLEEAQVQCLSEIFERAVKREIIEGEIALPDVPEEVLAKYPSIVAGIQGLEEQGFPVLVKDASLGGQFPVMCVTLMNPRTGGVFASFGAHPSFEVALERSLTELLQGRSFEGLNDLPQPTFQSEAVTEPNNFVEHFIDSSGLVSWRFFSSKSDYDFVEWDFTNEGENSNADEAAELFGILEEMGKEVYMAVYEHLGATACRILVPDYSEIYLVEDLIWDNTNKALAFREDILNIHRLDDARLEALVERLEECELDDYTEITTLIGIEFDDNTVWGQLTLLELKLLIYIALKQFEEAKDLVEQFLQYNTNTVERGLFYQCMNVVLEVILDDEMELQDYEKNFRRMFGDERMDAVIGSVEGNVRFYGLTPTSMKLEGLDRHLRLIESYKKLHAARAKAVS
>NZ_CP028800.2|WP_087540106.1|1604050_1604983_+|LysR-family-transcriptional-regulator
MELRFLRYFVAVVEEQSFTKAAERLFIAQPPLSRQIQNLENELGVQLFERGSRPLQTTTAGQFLYQHALKLLSNAEEVKSMTKRIGLIERTLTIGFVGSLLFGLLPRIIYLYRQQHPHLNIQLIELSTTEQLQALKEGRIDVGFGRLRISDPAVKRVLLRKERLVVAAHSSHPIAQRVEGVHLADLVDEKLFVYPNTPKPNFSSQLLNIFAEHSLVPKNVRELREIQLALGLVAAGEGLCVIPASADTIRFPHLLYIPILDSGAVSPIFITARAMDNSEDIQSLYDTIYQVYDLEGIEYKRTTFQWAQTE
>NZ_CP028800.2|WP_087540108.1|1602823_1603939_-|muconate-cycloisomerase
MYKTIETILVDIPTIRPHKLSVTTMQTQTLVLVKITTTDGFVGWGEATTIGGLNYGEESPESVKANIDTYFAPLLLSIKSSINVAQTLKLIRKTINGNRFAKCAIQTALLDIQAKQLNLPLSEVLGGRLRDRLPVLWTLASGDTEKDIAEAKKMIELKRHNIFKLKIGSNPVQHDVDHVIAIKKALGPEISIRVDVNRAWSELECIQGIQQLQDGGIDLIEQPCAIEQTQVLARLTQRFDVAIMADEALTGPDSAYRLAKQHASDVFAVKVEQSGGLIEACEVAKIAKLAGIDLYGGTMLEGPIGSIASAHAFSTFDSLAFGTELFGPLLLTQDILKTPLRYENFELVVPNTAGLGIDIDEDKIEQLRRKA
>NZ_CP028800.2|WP_004911173.1|1602520_1602811_-|muconolactone-Delta-isomerase
MLFQVRMDVHLPVEMPAEQANQIKAVEKAYSQDLQRQGKWRHIWRITGQYSNISIFDVESNEELHNILQGLPLYPYMDIEVMALNRHPSSIREDDR
>NZ_CP028800.2|WP_004911176.1|1601456_1602377_-|catechol-1,2-dioxygenase
MNRQDIDALVKKMNVDTATGAVDQRVQSIVVRLLGDLFQAIEDLDIQASEVWKGLEYFTDAGQANELGLLAAGLGLEHYLDLRADEADAKAGVSGGTPRTIEGPLYVAGAPESVGFARMDDGSESDKIDTLIIEGTVTDTDGNIIEGAKVEMWHANSLGNYSFFDKSQSDFNLRRTILSDVNGKYVALTTMPVGYGCPPEGTTQFVLNKLGRHGNRPSHVHYFVSAPGFRKLTTQFNIEGDKYLWDDFAFATRDGLVATAVDVTDEAEIQRRGLDKPFKHITFNIELVKEAASAPSTEVDRRRASA
>NZ_CP028800.2|WP_004954312.1|1599997_1601374_-|benzoate-1,2-dioxygenase-large-subunit
MPKIPVINTTHLDRIDELLVDNEETGEYKLHRSVFTDQAMFDLEMKYIFEGNWVYLAHESQIPKNNDFYTTYIGRQPIIIARNRNGELNAMINACSHRGAQLCRHKRGNKATYTCPFHGWTFNNSGKLLKVKDPTDAGYSDCFNQDGSHDLKKVAKFESYKGFLFGSLNPDVPSLKEFLGETTKIIDMIVGQSEQGLEVLRGSSTYTYEGNWKLTAENGADGYHVSAVHWNYAATTQHRKETEAGDNIRAMSAGSWGKQGGGSYGFEHGHMLLWTQWANPEDRPNYPKADEYTEKFGAAMSKWMIERSRNLCLYPNVYLMDQFGSQIRVLRPLSVNKTEVTIYCIAPVGEEPEARARRIRQYEDFFNASGMATPDDLEEFRACQAGYAGLELEWNDMCRGSKHWIHGPDDAANEIGLKPKLSGIKTEDEGLYLAQHQYWLKSMKNAIATEKKLAESQI
>NZ_CP028800.2|WP_039047310.1|1599485_1599986_-|benzoate-1,2-dioxygenase-small-subunit
MNTTTQATLENIAQFLYREARFLDDEQWDEWLSCYSPEASFWMPAWDDDDQLTEDPQSEISLIYYPNRQGLEDRVFRIKTERSSATMPDTRTSHNISNIEVLERDGDKVTVRFNWNTLSFRYKTNYSYFGMSRYVIDFSNEQPKIISKYVVLKNDYINQVIDIYHL
>NZ_CP028800.2|WP_087540109.1|1598398_1599415_-|ring-hydroxylating-dioxygenase-ferredoxin-reductase-family-protein
MSNHNVALQFEDGVTRFITVTQGETLSDAAYRQKINIPLDCRDGACGTCRAFCESGSYNMPEETYIEDALTPEEAEQGYILACQCRPTSDAVFQIQASSDVCKTEIHSFQGTLSRVENLSDSTITFDIQLDDGQPEIHFLAGQYVNVGIPGTSETRSYSFSSKPGNRLTGFVVRNVPNGQMSEFLSKNAKAGDKMHFTGPFGSFYLRPVTKPVLMLAGGTGIAPFMSMLQVLEEKGSDHPIRLVFGVTNDFDLVAIEKLDELQSKYPWFEYRTVVAHPESQHERKGYVTGHIENDWLNNGDVDVYLCGPVPMVEAVRSWLDQEGIKPANFLFEKFSAN
>NZ_CP028800.2|WP_087540111.1|1597595_1598381_-|1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate-dehydrogenase
MIFQDRFKNKIVIVTGAAQGIGRSVAIRVAAENGYVVLADRSELVDEVASEIRSTGGHAITVQADLERYDGAQAVVDKAIQEFGRVDVLINNVGGAIWMKPFDEFSEEQIIKEINRSLFPTLWCCRAVLPEMLKHQYGVIVNVSSIATRGINRIPYSAAKGGVNALTASLAFEHAKNGIRVNAIATGGTDAPPRKVPRNSTPLSEDEKVWMQQVVDQTKERSLMGRYGTIDEQVNAILFLASEESSYMTGSVIAVGGGDQG
>NZ_CP028800.2|WP_087540112.1|1596338_1597556_-|benzoate/H(+)-symporter-BenE
MTNLLTSLKNDWSISATIAGFLAVLISYSGPLIIFFQAAQKANISTEMMISWIWGISIGAAVAGIYLSIRYKTPVITAWSAPGTALLVSLFPNISLNEVVAAYITSAIVIFIVGATGYFDKLLKWIPQGIAAGMMAGILFQFGLGLFVATDSMPLIVFSMLLCYLLAKRYSPRYTMLWVLLCGVSLSLIWGKMNPVEMQFSFAIPHFIYPEWTWHSTFNLALPLILVSLTGQFLPGMAIMKLSGYDTPAKPIITASSIASLAVACVGGITIVLAAITAALCMGKDAHELKEKRYIAGVANGIFYILGGLFAGSIVMLFSLLPKELIAALAGLALLGAIGTNVMIAMKDDHQRDAALITFLATVSGMHFLGLSSVFWGICIGVIAQILLNPHAHPNTVMTQSSSEK
>NZ_CP028800.2|WP_087540142.1|1613263_1614220_+|LysR-family-transcriptional-regulator
MRKNLDGGLLHAMHAFLKVIDSGSFTAAAEQMDLTTAQVSRLISELESRLGVKLMQRSTRQHALTDIGALYAERCRQVLSIIDEAESEATGTATKPKGRLRILSMASFGHYYISPVMAKFCQSYPDLTVEYRTSQNTPDLLGKGIDVSLYLTESLTDSRFVSRRIGTIFSVLCASPAYLEKHGIPNSPEDLYNHACLRLVNPSITPEWHLINEKGGFHEISTSGQIVADTPELLLDVVQQDMGIALLPMFSVIEAVRAGRLCHVLPDWRSPDIGVYTLLPSRDYVDAKTRAWLDWVEQYISPKIKSDTSYFYQLTHTE
>NZ_CP028800.2|WP_005080679.1|1614319_1615222_-|hydroxymethylglutaryl-CoA-lyase
MSDYVKIVEVGPRDGLQNEKQALSIEQRLSFINDLIDAGLKSIEVGSCVSAKWVPQMAQSDELFKLLPQRDELNLSLLTPNLKGFEAALAVGCKEVAVFTAASESFTRKNINCSIDESLERFSEIFQAAQANNVRVRGYVSCMVDCPYEGAIDPKQVVNVVKRLHDMGCYEISLGETIGTATPDRVQKVWQACLAELDSKILAGHFHNTYGMAIANIYQSLQQGIRVFDSSLAGLGGCPYAKGSSGNVATEDLYYLLSHIGYETGIHLEKLMLASQNINQTLNRKNLSNYANTYLQQSCA
>NZ_CP028800.2|WP_087540103.1|1615218_1617210_-|acetyl/propionyl/methylcrotonyl-CoA-carboxylase-subunit-alpha
MFEKILIANRGEIACRVIRTAKKLGIATVAVYSDADAHAQHVKLADEAIYIGQSPATQSYLQVDRIIQAAIDTGSQAIHPGYGFLSENDQFALACQQHNICFIGPPVDAILAMGLKATSKALMEKAGVPLTPGYHGTNQDAEFLKQQADRIGYPVLIKASAGGGGKGMSLVERSEDFLHSLASCKREAKSSFGNDDVLIERYVIQPRHIEVQVFGDTHGNYVHLFERDCSVQRRHQKVLEEAPAPQMPSEKLDAMRQAAIDAARAVNYVGAGTVEFIVEQDGTAYFMEMNTRLQVEHPVTEMITGEDLVEWQLRVAYGEPLPKLQHELQIHGHALEARIYAEEPEKGFLPAIGKIDYLRYPTQNQYVRVDSGIVEGDEITTFYDPMIAKLIVWGKNREAALIQMQHALSQFHVDGLGNNIAFLEKIVRCDSFKQAKLDTNLIQREEQFLFSPANIKPEFVVATAFIEFLSQMQSNQSTQKQLWLAQPLWRINVSYQHSIKLNYLNQNIQIKFSAAEQGFNSEFNGQQYHITGQLTDQHSANIQIGGIQQKLAFNRGVQGITLFNAGQSYKFSYLRQDYNQTDGQSEQGHLKAPMPGVVTQLLVGANHTVKKDDVLLTLEAMKMEYTIRAPKDGVILDAYFQVGDQVKAGDELVDFQAAEEEVA
>NZ_CP028800.2|WP_087540102.1|1617221_1618025_-|enoyl-CoA-hydratase/isomerase-family-protein
MSYQFLQVEQHDQVAYVWLNRPELHNAFNTTVIEELHTCFKQIAIRDDIRVVVLAGRGKSFSAGADLNWMKQAGQASAEENEADALKLAKMLEALATLNQPTIARVHGIAFGGGIGLASACDICIASTDAKFATSEVRLGLAPSTISPYVIRAIGARQASRYFLTAERISAHEAKQIGLAHEIADAEDLDKKVQEIIDALLLGGPHAQAASKQLIQMVSNQSMNDELLRQTAQHIAQVRQGSEAKEGLTAFLNKQAPAWTSNSNNNN
>NZ_CP028800.2|WP_087540100.1|1618034_1619636_-|methylcrotonoyl-CoA-carboxylase
MNQLQSKINVRSEDFKTNQQAMQTLVNDLTQVAQNIALGGGENARQKHLARGKLLPRERIDQLIDVGTAFLEIGQLAAYKVYEDDIPAAGVIAGIGQVNGVTCMIVANDATVKGGTYYPLTVKKHLRAQEIAEQNHLPCIYLVDSGGAYLPMQDQVFPDRDHFGRIFYNQARMSSQGIAQIAVVMGSCTAGGAYVPAMSDETIIVRNQGTIFLGGPPLVKAATGEVVSSEDLGGGDVHTRLSGVADHLAENDEHAIAIARNIVANLNKKSNELNKQIDEPLFDAKELYGVVPTDARKLFDVREVIARIVDGSRFDEFKARFGSTLITGFASLYGMPVGIIANNGILFSESAQKGAHFIELCTQRNIPLLFIQNITGFMVGRQYENEGIAKHGAKLVMAVATANVPKLTLIIGGSFGAGNYGMCGRAYSPRFLWTWPNSRISVMGGEQAASVLSTLKRDQIEQKGTEWSAQEEDEFKQPIRDQYERQGHPYYASARLWDDGVIDPAQTRQVLGLSLAAALNAPIQPTKFGVFRM
>NZ_CP028800.2|WP_087540099.1|1619660_1620833_-|isovaleryl-CoA-dehydrogenase
MNLRSLNFGLDETLIALQDSVAAFCAKEIAPIAQQVDQDNKFPSHLWKKFGDMGLLGLTVSEEYGGTNLGYLAHIIVMQEISRASAAIALSYGAHSNLCINQINRNGNEQQKQKYLPKLISGEYVGALAMSEPNAGSDVVSMKLRAEQKDDHFVLNGSKMWITNGGDADVLVVYAKTDPHAGAKGMTAFLIEKDMKGFSHGHHLDKLGMRGSNTYPLFFDNVEVPVENVLGGVGNGAKVLMSGLDYERAVLSAGPLGIMDACMDVVIPYLHQREQFGQALGEFQLMQGKLADMYSTWLACKALVYAVGTACDKADHDRSLRKDAASAILYAAEKATWMAGEAIQTLGGNGYINEFPTGRLWRDAKLYEIGAGTSEIRRMLIGRELFNETK
>NZ_CP028800.2|WP_164978092.1|1621002_1621596_+|TetR-family-transcriptional-regulator
MQERMEQNRKSILSSARKLISEGGFKDAQIQTIAEQAGVSSGLVYRYFDNKSQVLIEVLSEAINTELLVIDAITESDLTAEQKLHKAVTTFVKRALNSPQLAYSLMFEPVDSLVEHERFRVKQLIKQSIIKILADGNASGEFVLEDLNTTALCVVGAMTFVVVEPLDPAQNTKFDQQHKDYFSKQIADFCVDAVRKK
>NZ_CP028800.2|WP_087540097.1|1621704_1623420_+|AMP-binding-protein
MQQQRLSYASGPSTQPLLGMTIGEKFDQACQQYADQEAIVSSHQNRRLTYKQLQNEVKAFACSLLKLGLKKGDRLGIWSPNCVEWTITQFAAFKAGIILVNLNPAYKSHELEYVLNKVSCKGLIIASQFKTTDYQELLTRIAPEIVFCTDKIIHSERLPFLKFVIKIDEKQHTGIHRFSDLVVPPTQEQFDQLQLATQQLQFDETINIQFTSGTTGNPKGTMLTHHNILNNGYFVGEGIRLTPQDKVCISVPLFHCFGMVMGNLACITHGSTMVYPSAVFNPLETLKTIHNERCTAAYGVPTMFIATLEHEQFNEFDLSSLRTGIMAGSPCPREIMQRVIDRMHMSEITICYGMTETSPVSLQSSVSDTIDKRVSTVGHVHPHVEIKIVDPEGQLVPQGTLGELCVRGYSVMAGYWGEEEKTREVIDAAGWMHTGDIAEMDAEGFVKIKGRIKDVVIRGGENLFPKEIEDFLYTHPAICDVQVIGLPDTRYGEELCACIILHEHHQTDEDNIRSFCKEHISHNKVPRYVKFFNEFPMTASGKAQKFKLQEIMRAELNLTGNVFDLMIFYIA
>NZ_CP028800.2|WP_004961867.1|1623463_1624165_+|class-I-SAM-dependent-methyltransferase
MAKDFNSPKIVEEYDQHIRKLIPGYEIIHQQVDAILQSVLQPIAHILIVGCGTGYELEYLLNRHPNWKFTALDPSLAMLEKAEIRVKQMGKSAQVQFVHGDHFALTEGAGFDAALSILVAHFIADEQKTDFYSSIHRCLKNSGLLLTYDLMPCSNPQHLQALRYLCMAQGLTELQCQKMLDRMENDFFTISFSEYQQRLQGIGFEDVHSYSQILIYQGLIAKKAEIAEFAQAS
>NZ_CP028800.2|WP_087540140.1|1624448_1625735_+|DcaP-like-protein
MKRFILTVQQSVLALSVLTAMSGSYAGSENAEIEQLRQEVKELRAMLQNYVQQTPPAQPTTQVMVAQTSEPVQTTTPKLSLTKSGAEVNLYGYLRADASYQAKGASTMYNNISGVPLEGTAEEAQQKDRLHSTASVSRIGLNFKTPTAMGDVGGKLEMDFFGSASRDQFRIRHAYLTFDKWLLGQTWSTFIAPEYYPETIDAATYVGGALQRSPLVRYSDNITANTSFALAVEDPKYTASSDPDNEMRLPAFVGRVNHKFANGSMLSGRSFVAEKKTSQDEEWAWGVGIGGKYQLTPKTFLKADYNHIKGDGRFLMWTNSSYVIDDQKHIQSNEFDSISTGITHQFNTQFRSTLGYGYMKAKDNNAFARINKDNTAQNKELWQGWINGMYNPYKPITLGMEYVYGERETFDGRTGTDNRINMMASYDF

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP028800_1	1.2\|423986\|33\|NZ_CP028800\|CRT	423986-424018	33	NZ_CP030363	Salinibacter ruber strain SP73 plasmid pSR118, complete sequence	70669-70701	8	0.758

1. spacer 1.2|423986|33|NZ_CP028800|CRT matches to NZ_CP030363 (Salinibacter ruber strain SP73 plasmid pSR118, complete sequence) position: , mismatch: 8, identity: 0.758

cgaattcaattctgatcgtccacg------tcgtgaagg	CRISPR spacer
cgaattccattctgatcgaccacggccatctcg------	Protospacer
******* ********** *****      ***

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

74400 : 141449

Staphylococcus_phage(18.18%)

integrase,tRNA,transposase

attL 94398:94412|attR 104270:104284

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_100223103.1\|74400_75539_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	7.9e-84	59.0
WP_086353526.1\|75550_75997_-	hypothetical protein	NA	NA	NA	NA
WP_034129309.1\|76085_76298_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_034129308.1\|76335_77304_-	hypothetical protein	NA	NA	NA	NA
WP_086353522.1\|77306_79316_-	hypothetical protein	NA	NA	NA	NA
WP_053142598.1\|79323_80238_-	hypothetical protein	NA	NA	NA	NA
WP_034129305.1\|80380_81802_-	hypothetical protein	NA	NA	NA	NA
WP_086353521.1\|81919_83536_-	hypothetical protein	NA	NA	NA	NA
WP_086353520.1\|83510_85052_-	TniQ family protein	NA	NA	NA	NA
WP_087540316.1\|85065_86712_-	AAA family ATPase	NA	NA	NA	NA
WP_086353518.1\|86712_88800_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_087540314.1\|88783_89617_-	TnsA endonuclease N-terminal domain-containing protein	NA	NA	NA	NA
WP_087540312.1\|89885_90338_-	GIY-YIG nuclease family protein	NA	NA	NA	NA
WP_171488063.1\|91647_94689_+	N-6 DNA methylase	NA	NA	NA	NA
94398:94412	attL	NA	NA	NA	NA
WP_005403460.1\|94688_95402_+	hypothetical protein	NA	NA	NA	NA
WP_087540310.1\|95405_96977_-	hypothetical protein	NA	NA	NA	NA
WP_005403458.1\|96976_98494_-	TniQ family protein	NA	NA	NA	NA
WP_005403457.1\|98494_100162_-	AAA family ATPase	NA	NA	NA	NA
WP_087540308.1\|100189_102331_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_039908674.1\|102314_103121_-\|transposase	heteromeric transposase endonuclease subunit TnsA	NA	NA	NA	NA
WP_087540306.1\|103275_105114_-	glutamine--fructose-6-phosphate transaminase (isomerizing)	A7IW18	Paramecium_bursaria_Chlorella_virus	6.2e-131	43.1
104270:104284	attR	NA	NA	NA	NA
WP_087540304.1\|105126_106491_-	bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU	A0A0N7G7I9	Chrysochromulina_ericina_virus	9.9e-33	38.1
WP_004910111.1\|106513_107035_-	phosphatidylglycerophosphatase A	NA	NA	NA	NA
WP_087540302.1\|107012_107930_-	thiamine-phosphate kinase	NA	NA	NA	NA
WP_004679125.1\|107945_108395_-	transcription antitermination factor NusB	NA	NA	NA	NA
WP_004637206.1\|108398_108869_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.1e-31	52.0
WP_004951142.1\|108880_110002_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.8e-56	35.7
WP_171488064.1\|110376_111681_-	hypothetical protein	NA	NA	NA	NA
WP_087540298.1\|111742_112963_+	phosphoserine phosphatase SerB	NA	NA	NA	NA
WP_004951151.1\|113370_113706_+	hypothetical protein	NA	NA	NA	NA
WP_004910100.1\|113856_114336_+	hypothetical protein	NA	NA	NA	NA
WP_004910099.1\|114383_114824_-\|tRNA	D-tyrosyl-tRNA(Tyr) deacylase	NA	NA	NA	NA
WP_004951160.1\|114973_116176_+	nicotinate phosphoribosyltransferase	A0A2L0UZQ6	Agrobacterium_phage	9.9e-45	33.3
WP_004951163.1\|116576_117425_+	hypothetical protein	NA	NA	NA	NA
WP_042893013.1\|117421_118273_+	phosphatidylserine decarboxylase	NA	NA	NA	NA
WP_061393132.1\|118381_118939_+	hypothetical protein	NA	NA	NA	NA
WP_087540294.1\|119327_120215_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_087540292.1\|120310_120763_+	PACE efflux transporter	NA	NA	NA	NA
WP_087540290.1\|120867_121332_-	DUF2147 domain-containing protein	NA	NA	NA	NA
WP_004910079.1\|121454_122813_-	phosphate regulon sensor histidine kinase PhoR	W8CYF6	Bacillus_phage	2.0e-30	32.1
WP_004679100.1\|122821_123532_-	phosphate regulon transcriptional regulator PhoB	W8CYM9	Bacillus_phage	8.8e-33	36.2
WP_004910075.1\|123782_124460_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_004910072.1\|124923_125751_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_087540288.1\|125804_127172_-	MATE family efflux transporter	NA	NA	NA	NA
WP_087540286.1\|127273_128428_-	pyridoxal phosphate-dependent aminotransferase	NA	NA	NA	NA
WP_004910063.1\|128747_129188_+	hypothetical protein	NA	NA	NA	NA
WP_004910060.1\|129315_130623_-	DUF445 domain-containing protein	NA	NA	NA	NA
WP_042892962.1\|130638_131196_-	hypothetical protein	NA	NA	NA	NA
WP_087540284.1\|131230_131770_-	DUF924 domain-containing protein	A0A1V0SIY0	Klosneuvirus	6.4e-20	35.2
WP_087540282.1\|131964_133542_+	glutamate--cysteine ligase	NA	NA	NA	NA
WP_004910048.1\|133563_134070_+	disulfide bond formation protein B	NA	NA	NA	NA
WP_087540280.1\|134226_137553_+	type VI secretion system tip protein VgrG	A0A2H4JCD4	uncultured_Caudovirales_phage	0.0e+00	77.3
WP_001988464.1\|138106_139132_-\|transposase	IS30-like element ISAba125 family transposase	A0A2K9V2S9	Faecalibacterium_phage	5.7e-25	30.1
WP_015056391.1\|139424_139709_+	hypothetical protein	NA	NA	NA	NA
WP_015056392.1\|139919_141449_-\|transposase	IS91 family transposase	NA	NA	NA	NA

DBSCAN-SWA_2

842820 : 894606

Escherichia_phage(18.18%)

tRNA,transposase,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004908319.1\|842820_843834_-\|tRNA	tryptophan--tRNA ligase	NA	NA	NA	NA
WP_004963560.1\|843997_844921_+	DUF808 domain-containing protein	NA	NA	NA	NA
WP_087540163.1\|844958_845849_+	neutral zinc metallopeptidase	A0A1I9SA48	Rhodococcus_phage	4.0e-35	37.4
WP_004963555.1\|846093_847593_+	cation:proton antiporter	A0A2H4J178	uncultured_Caudovirales_phage	2.3e-19	33.2
WP_004956015.1\|848383_848821_-	universal stress protein	NA	NA	NA	NA
WP_004963548.1\|849032_849659_-	CatB-related O-acetyltransferase	M1HS53	Paramecium_bursaria_Chlorella_virus	1.1e-07	31.7
WP_004878279.1\|849727_850204_-	transcription elongation factor GreA	NA	NA	NA	NA
WP_004908293.1\|850296_853530_-	carbamoyl-phosphate synthase large subunit	NA	NA	NA	NA
WP_004956022.1\|853544_854684_-	glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit	NA	NA	NA	NA
WP_004963543.1\|855044_855653_+	hypothetical protein	NA	NA	NA	NA
WP_004908285.1\|855699_856236_-	DOMON-like domain-containing protein	NA	NA	NA	NA
WP_004963538.1\|856243_856567_-	ribosome assembly RNA-binding protein YhbY	NA	NA	NA	NA
WP_004908277.1\|856798_857449_+	23S rRNA (uridine(2552)-2'-O)-methyltransferase RlmE	NA	NA	NA	NA
WP_004963534.1\|857585_859481_+	ATP-dependent metallopeptidase FtsH/Yme1/Tma family protein	M4QMW8	Micromonas_pusilla_virus	3.4e-108	46.6
WP_004963531.1\|859660_860518_+	dihydropteroate synthase	NA	NA	NA	NA
WP_087540165.1\|860637_862251_+	VWA domain-containing protein	NA	NA	NA	NA
WP_171053778.1\|862386_862677_+	hypothetical protein	NA	NA	NA	NA
WP_087540166.1\|862705_864310_-	peptidase S15	NA	NA	NA	NA
WP_087540168.1\|864420_865365_-	DMT family transporter	NA	NA	NA	NA
WP_005402212.1\|865747_866317_+	nicotinamide mononucleotide transporter	V5KSH6	Escherichia_phage	9.8e-11	28.4
WP_087540169.1\|866351_867488_-	glycerophosphodiester phosphodiesterase	NA	NA	NA	NA
WP_087540171.1\|867640_869254_-	phosphoethanolamine transferase	NA	NA	NA	NA
WP_087540172.1\|869572_872677_+	multidrug efflux RND transporter permease subunit	NA	NA	NA	NA
WP_108565324.1\|872880_873971_-\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_087540986.1\|874165_875503_+	magnesium transporter	NA	NA	NA	NA
WP_005402216.1\|875581_876166_+	DUF4112 domain-containing protein	NA	NA	NA	NA
WP_004908232.1\|876240_877146_-\|protease	protease HtpX	NA	NA	NA	NA
WP_087540985.1\|877360_878221_-	lytic transglycosylase domain-containing protein	A0A0H3V0Q1	Geobacillus_virus	1.7e-35	54.7
WP_004908226.1\|878713_879619_+\|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	A0A0U2S5Z2	Escherichia_phage	6.2e-92	64.6
WP_004676693.1\|879816_880200_+	SCP2 sterol-binding domain-containing protein	NA	NA	NA	NA
WP_004963495.1\|880254_881364_-	transglycosylase SLT domain-containing protein	NA	NA	NA	NA
WP_004963492.1\|882007_882250_+	hypothetical protein	NA	NA	NA	NA
WP_017397315.1\|884974_885256_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_004963483.1\|885291_885861_+	Hsp20/alpha crystallin family protein	NA	NA	NA	NA
WP_087540988.1\|885955_888805_+	heat shock survival AAA family ATPase ClpK	K4FB40	Cronobacter_phage	1.0e-127	40.9
WP_004963478.1\|889365_889686_-\|transposase	transposase	A0A218MNC9	uncultured_virus	2.3e-17	52.1
WP_108565325.1\|889718_890006_-\|transposase	transposase	NA	NA	NA	NA
WP_042892646.1\|890038_890386_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_169045440.1\|890445_890553_+	hypothetical protein	NA	NA	NA	NA
WP_042892644.1\|890528_890777_+	diguanylate cyclase	NA	NA	NA	NA
WP_087540991.1\|890788_891277_+	phosphate-starvation-inducible PsiE family protein	NA	NA	NA	NA
WP_087540989.1\|891263_892124_+\|protease	M48 family metalloprotease	NA	NA	NA	NA
WP_004963463.1\|892143_893295_+	trypsin-like peptidase domain-containing protein	A0A1B1IT49	uncultured_Mediterranean_phage	3.7e-25	30.2
WP_004912080.1\|893859_894606_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	5.1e-15	35.9

DBSCAN-SWA_3

898743 : 991103

Enterobacteria_phage(20.0%)

integrase,transposase,protease

attL 903439:903455|attR 954068:954084

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_087540844.1\|898743_901503_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_080592511.1\|902948_903266_+	GreA/GreB family elongation factor	NA	NA	NA	NA
903439:903455	attL	NA	NA	NA	NA
WP_087540846.1\|904251_904512_+	hypothetical protein	NA	NA	NA	NA
WP_087540848.1\|904530_905112_+	hypothetical protein	NA	NA	NA	NA
WP_004650268.1\|905123_905504_+	hypothetical protein	NA	NA	NA	NA
WP_087540850.1\|905623_905926_+	hypothetical protein	NA	NA	NA	NA
WP_087540852.1\|905986_907033_+	DUF932 domain-containing protein	A0A0H4INH5	Stenotrophomonas_phage	2.0e-57	37.1
WP_087540854.1\|907176_908220_+	YqaJ viral recombinase family protein	A0A139ZPJ9	Marinitoga_camini_virus	1.2e-41	42.5
WP_087540856.1\|908362_909295_+	hydrolase or metal-binding protein	NA	NA	NA	NA
WP_087540858.1\|909385_910513_-	hypothetical protein	NA	NA	NA	NA
WP_087540860.1\|910503_911718_-	inovirus-type Gp2 protein	NA	NA	NA	NA
WP_087540862.1\|912189_912456_-	AlpA family phage regulatory protein	NA	NA	NA	NA
WP_137415198.1\|912585_913806_-	hypothetical protein	NA	NA	NA	NA
WP_087540866.1\|914726_915383_+	DUF4433 domain-containing protein	NA	NA	NA	NA
WP_087540868.1\|915382_916462_+	macro domain-containing protein	B0FIJ9	Escherichia_phage	4.2e-18	38.6
WP_108565300.1\|916623_917556_+\|transposase	IS5 family transposase	Q1MVF0	Enterobacteria_phage	1.8e-57	40.5
WP_087541046.1\|917656_918694_-	murein L,D-transpeptidase	NA	NA	NA	NA
WP_005313773.1\|918878_919808_-\|transposase	IS5 family transposase	Q1MVF0	Enterobacteria_phage	4.2e-51	37.9
WP_108565301.1\|919985_945323_+	hypothetical protein	NA	NA	NA	NA
WP_087540897.1\|947111_949247_+	type I secretion system permease/ATPase	W8CYL7	Bacillus_phage	3.9e-28	26.7
WP_087540899.1\|949243_950683_+	HlyD family type I secretion periplasmic adaptor subunit	NA	NA	NA	NA
WP_087540901.1\|950811_951429_-	CAP domain-containing protein	NA	NA	NA	NA
WP_108565302.1\|951633_952605_-\|transposase	IS481 family transposase	NA	NA	NA	NA
WP_087541033.1\|952638_953919_-\|integrase	site-specific integrase	A0A077KET4	Ralstonia_phage	2.6e-75	38.7
WP_087541032.1\|954574_955864_+	dicarboxylate/amino acid:cation symporter	NA	NA	NA	NA
954068:954084	attR	NA	NA	NA	NA
WP_057692912.1\|955875_956805_-\|transposase	IS5 family transposase	Q1MVF0	Enterobacteria_phage	2.5e-51	37.9
WP_087540950.1\|957030_957921_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_087540952.1\|958056_959472_+	aspartate ammonia-lyase	NA	NA	NA	NA
WP_004956101.1\|959857_960484_+	MarC family protein	NA	NA	NA	NA
WP_087540954.1\|960684_961206_+	acyl-CoA thioesterase	NA	NA	NA	NA
WP_004912781.1\|961327_961540_-	hypothetical protein	NA	NA	NA	NA
WP_087540956.1\|962014_963016_+	GTP-binding protein	NA	NA	NA	NA
WP_087540958.1\|963096_963627_+	YaeQ family protein	NA	NA	NA	NA
WP_004912770.1\|963659_964001_+	FKBP-type peptidyl-prolyl cis-trans isomerase	NA	NA	NA	NA
WP_087540962.1\|964389_964785_+	hypothetical protein	NA	NA	NA	NA
WP_108565303.1\|965007_967005_+	poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB	NA	NA	NA	NA
WP_087540960.1\|967018_968275_+	poly-beta-1,6 N-acetyl-D-glucosamine synthase	NA	NA	NA	NA
WP_004956118.1\|968307_968724_+	poly-beta-1,6-N-acetyl-D-glucosamine biosynthesis protein PgaD	NA	NA	NA	NA
WP_004912080.1\|970850_971597_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	5.1e-15	35.9
WP_004956122.1\|972212_973061_+	bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase FolD	A0A249XZQ2	Enterococcus_phage	2.8e-25	34.8
WP_004956126.1\|973116_973791_+	methyltransferase	NA	NA	NA	NA
WP_087540766.1\|974300_974723_-	hypothetical protein	NA	NA	NA	NA
WP_087540767.1\|974987_976502_+	glycerol kinase GlpK	NA	NA	NA	NA
WP_004963376.1\|976548_977307_+	DeoR family transcriptional regulator	A0A077SK06	Escherichia_phage	1.4e-20	29.1
WP_004963374.1\|977561_979082_+	glycerol-3-phosphate dehydrogenase	NA	NA	NA	NA
WP_004963370.1\|979167_980997_-	phosphoenolpyruvate carboxykinase (GTP)	NA	NA	NA	NA
WP_004963368.1\|981392_982331_+	NAD(+)/NADH kinase	NA	NA	NA	NA
WP_004963365.1\|982311_983082_+	metallophosphoesterase	NA	NA	NA	NA
WP_000065579.1\|983257_983548_+	co-chaperone GroES	A0A221S4G8	uncultured_virus	2.3e-16	51.1
WP_001274625.1\|983605_985240_+	chaperonin GroEL	A0A219YK78	uncultured_virus	8.1e-175	60.9
WP_004963361.1\|985501_986137_+	hypothetical protein	NA	NA	NA	NA
WP_004963359.1\|986203_986578_-	diacylglycerol kinase	NA	NA	NA	NA
WP_004963357.1\|986770_987838_+	4-phosphoerythronate dehydrogenase	A0A1J0F959	Only_Syngen_Nebraska_virus	1.8e-10	26.8
WP_087540769.1\|987834_988818_+	EF-P lysine aminoacylase GenX	A0A1V0SFI4	Hokovirus	7.1e-25	27.7
WP_004912676.1\|988823_989951_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_004912673.1\|990156_990321_-	hypothetical protein	NA	NA	NA	NA
WP_004912671.1\|990485_991103_-\|protease	rhomboid family intramembrane serine protease	NA	NA	NA	NA

DBSCAN-SWA_4

1379293 : 1430685

Shigella_phage(20.0%)

tRNA,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_087540997.1\|1379293_1380458_+\|transposase	IS3 family transposase	U5P429	Shigella_phage	9.0e-51	39.3
WP_004962465.1\|1380872_1381436_-	hypothetical protein	NA	NA	NA	NA
WP_039048314.1\|1381580_1382270_-	DUF3820 family protein	A0A059VJT9	Pseudomonas_phage	1.1e-35	39.1
WP_004962461.1\|1382518_1383751_+	alpha/beta hydrolase	NA	NA	NA	NA
WP_087540995.1\|1383809_1384598_-	DUF695 domain-containing protein	NA	NA	NA	NA
WP_004915215.1\|1384792_1386046_+	serine hydroxymethyltransferase	A0A240F3L3	Aeromonas_phage	6.8e-97	51.5
WP_004915219.1\|1386094_1386343_-	YfhL family 4Fe-4S dicluster ferredoxin	A0A1B1IWY9	uncultured_Mediterranean_phage	1.2e-18	48.9
WP_042892633.1\|1386346_1387714_-\|tRNA	tRNA 5-hydroxyuridine modification protein YegQ	Q6DW11	Phage_TP	3.9e-130	64.8
WP_005003123.1\|1387866_1389021_-\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_004953900.1\|1389136_1389565_-	hypothetical protein	NA	NA	NA	NA
WP_087541003.1\|1389777_1390236_-	hypothetical protein	NA	NA	NA	NA
WP_004953903.1\|1390483_1391572_+	peptide chain release factor 1	A0A0S4KWG0	Pseudomonas_phage	6.7e-08	50.0
WP_042893660.1\|1391571_1392390_+	peptide chain release factor N(5)-glutamine methyltransferase	NA	NA	NA	NA
WP_042893662.1\|1392386_1393019_-	FMN-binding negative transcriptional regulator	NA	NA	NA	NA
WP_042893664.1\|1393031_1394093_-	AraC family transcriptional regulator	NA	NA	NA	NA
WP_004953914.1\|1394235_1395006_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA
WP_042893666.1\|1395162_1395846_+	superoxide dismutase	Q56AR7	Bacillus_thuringiensis_phage	6.9e-51	50.0
WP_080632252.1\|1395904_1396933_+\|transposase	transposase	NA	NA	NA	NA
WP_042893821.1\|1397007_1397580_-	flavin reductase family protein	NA	NA	NA	NA
WP_100223103.1\|1398106_1399244_+\|transposase	IS3 family transposase	U5P429	Shigella_phage	7.9e-84	59.0
WP_153569912.1\|1399557_1400286_+	ThiF family adenylyltransferase	NA	NA	NA	NA
WP_042892714.1\|1400343_1401642_+	AarF/ABC1/UbiB kinase family protein	A0A0R6PEF3	Moraxella_phage	8.3e-106	47.7
WP_004911755.1\|1401668_1402049_+	dihydroneopterin aldolase	NA	NA	NA	NA
WP_004911752.1\|1402005_1402440_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	NA	NA	NA	NA
WP_042892711.1\|1402473_1403025_+	DUF2799 domain-containing protein	NA	NA	NA	NA
WP_042892707.1\|1403165_1403630_+	hypothetical protein	NA	NA	NA	NA
WP_042892706.1\|1403693_1404329_-	2-polyprenyl-3-methyl-6-methoxy-1,4-benzoquinone monooxygenase	NA	NA	NA	NA
WP_004962381.1\|1404332_1405655_-	MFS transporter	NA	NA	NA	NA
WP_087540832.1\|1405817_1408532_+	BamA/TamA family outer membrane protein	NA	NA	NA	NA
WP_087540830.1\|1408578_1413084_+	translocation/assembly module TamB domain-containing protein	NA	NA	NA	NA
WP_087540828.1\|1413215_1413665_+	DUF4124 domain-containing protein	NA	NA	NA	NA
WP_004911726.1\|1413767_1414127_+	hypothetical protein	NA	NA	NA	NA
WP_039048066.1\|1414386_1417026_+	bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase	NA	NA	NA	NA
WP_087540826.1\|1417099_1417825_+	hypothetical protein	NA	NA	NA	NA
WP_087540824.1\|1417884_1419342_-	DASS family sodium-coupled anion symporter	NA	NA	NA	NA
WP_004962361.1\|1419595_1420579_+	ion transporter	NA	NA	NA	NA
WP_080632252.1\|1420691_1421720_-\|transposase	transposase	NA	NA	NA	NA
WP_087541030.1\|1421774_1422386_+	LysE family translocator	NA	NA	NA	NA
WP_087541029.1\|1422447_1423059_+	DUF2238 domain-containing protein	NA	NA	NA	NA
WP_004953971.1\|1423079_1424294_-	MFS transporter	NA	NA	NA	NA
WP_005402501.1\|1424540_1425461_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_042892691.1\|1425534_1425990_-	DUF441 domain-containing protein	NA	NA	NA	NA
WP_004912080.1\|1426201_1426948_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	5.1e-15	35.9
WP_004911677.1\|1427095_1427956_-	hypothetical protein	NA	NA	NA	NA
WP_004953978.1\|1428403_1428964_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_004911671.1\|1429082_1429862_-	ferredoxin--NADP reductase	NA	NA	NA	NA
WP_042890955.1\|1429962_1430685_+\|tRNA	tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP028798

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP028800

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection