NZ_LT635476_1
583985-584064
Orphan
NA
Consensus_repeat
Method
GAGAACCCATTTATGCTCAAGTT
CRISPRCasFinder
1 spacers
>1.1|584008|34|NZ_LT635476|CRISPRCasFinder
AATAAAAAGAAAACAGGACAAGTAGCTAGCCCTG
Detail
CRISPR arrays
Neighbor Proteins Overview
HMMScan for Signature genes
rpsblast for functional proteins
Protein sequences
The CRISPR arrays of NZ_LT635476_1
>merge|NZ_LT635476|1|583985-584064|CRISPRCasFinder
GAGAACCCATTTATGCTCAAGTTAATAAAAAGAAAACAGGACAAGTAGCTAGCCCTGAAGAACCCATTTATGCTCAAGTT
>NZ_LT635476|1|1|583985-584064|CRISPRCasFinder
GAGAACCCATTTATGCTCAAGTT AATAAAAAGAAAACAGGACAAGTAGCTAGCCCTG
AAGAACCCATTTATGCTCAAGTT
Protein
Signature genes
Signature genes Name
Protein_function
NZ_LT635476.1|WP_089086791.1|589131_589815_+|23S-rRNA-(guanosine(2251)-2'-O)-methyltransferase-RlmB
unknown
unknown
gnl|CDD|129290
NZ_LT635476.1|WP_089086783.1|571296_572217_+|cag-pathogenicity-island-type-IV-secretion-system-protein-CagN
unknown
unknown
unknown
NZ_LT635476.1|WP_089087379.1|579542_580166_-|cag-pathogenicity-island-type-IV-secretion-system-protein-CagD
unknown
unknown
gnl|CDD|293175
NZ_LT635476.1|WP_089086788.1|585130_585505_+|hypothetical-protein
unknown
unknown
gnl|CDD|350195
NZ_LT635476.1|WP_089086789.1|585633_586401_-|glutamate-racemase
unknown
unknown
gnl|CDD|272885
NZ_LT635476.1|WP_000814269.1|575774_576581_-|type-IV-secretion-system-chaperone-CagF
unknown
unknown
unknown
NZ_LT635476.1|WP_089086793.1|590789_591611_+|hypothetical-protein
unknown
unknown
unknown
NZ_LT635476.1|WP_001029404.1|592595_593534_-|acetyl-CoA-carboxylase-carboxyl-transferase-subunit-alpha
unknown
unknown
gnl|CDD|273113
NZ_LT635476.1|WP_089086784.1|573007_574153_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagI
unknown
unknown
unknown
NZ_LT635476.1|WP_001004721.1|586440_587757_-|transcription-termination-factor-Rho
unknown
unknown
gnl|CDD|236490
NZ_LT635476.1|WP_089086785.1|576582_579534_-|cag-pathogenicity-island-type-IV-secretion-system-ATPase-CagE
unknown
unknown
gnl|CDD|273346
NZ_LT635476.1|WP_089086792.1|589827_590793_+|sialidase
unknown
unknown
unknown
NZ_LT635476.1|WP_025449159.1|574163_575276_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagH
unknown
unknown
unknown
NZ_LT635476.1|WP_000715278.1|588021_588225_+|50S-ribosomal-protein-L31
unknown
unknown
gnl|CDD|376487
NZ_LT635476.1|WP_000855886.1|575291_575720_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagG
unknown
unknown
unknown
NZ_LT635476.1|WP_000428893.1|580658_580886_-|hypothetical-protein
unknown
unknown
unknown
NZ_LT635476.1|WP_089086794.1|591681_592119_-|hypothetical-protein
unknown
unknown
unknown
NZ_LT635476.1|WP_000855256.1|572297_573011_-|cag-pathogenicity-island-VirB5-family-T4SS-associated-adhesin-CagL
unknown
unknown
unknown
NZ_LT635476.1|WP_089086790.1|588248_589118_+|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
unknown
unknown
gnl|CDD|223390
NZ_LT635476.1|WP_089086786.1|580167_580515_-|sodium:calcium-antiporter
unknown
unknown
gnl|CDD|374896
Protein
Cas_name
Cas_description
E-value
Identity
Coverage
Protein
Function_ID
Function_description
E-value
NZ_LT635476.1|WP_001004721.1|586440_587757_-|transcription-termination-factor-Rho
gnl|CDD|236490
PRK09376, rho, transcription termination factor Rho; Provisional.
0
NZ_LT635476.1|WP_089086785.1|576582_579534_-|cag-pathogenicity-island-type-IV-secretion-system-ATPase-CagE
gnl|CDD|273346
TIGR00929, CAG_pathogenicity_island_protein_23, type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
0
NZ_LT635476.1|WP_089087379.1|579542_580166_-|cag-pathogenicity-island-type-IV-secretion-system-protein-CagD
gnl|CDD|293175
pfam16567, CagD, Pathogenicity island component CagD. CagD is a tightly conserved family of proteins found in the pathogenic strains of Helicobacter species. It is one of some 30 proteins, produced from the genomic insert termed the pathogenicity island, required for the type IV secretion system - T4SS - that delivers CagA oncoprotein toxin into the host cell. CagD is a covalent dimer in which each monomer folds as a single domain composed of five beta-strands and three alpha-helices. CagD partially associates with the inner membrane, where it may be exposed to the periplasmic space; this may indicate that CagD is released into the supernatant during host cell infection in order then to bind to the host cell surface, or to be incorporated into the pilus structure.
2.1214e-123
NZ_LT635476.1|WP_000715278.1|588021_588225_+|50S-ribosomal-protein-L31
gnl|CDD|376487
pfam01197, Ribosomal_L31, Ribosomal protein L31.
1.40477e-32
NZ_LT635476.1|WP_089086788.1|585130_585505_+|hypothetical-protein
gnl|CDD|350195
cd18808, SF1_C_Upf1, C-terminal helicase domain of Upf1-like family helicases. The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
1.43029e-33
NZ_LT635476.1|WP_089086789.1|585633_586401_-|glutamate-racemase
gnl|CDD|272885
TIGR00067, Glutamate_racemase, glutamate racemase. This family consists of glutamate racemase, a protein required for making the UDP-N-acetylmuramoyl-pentapeptide used as a precursor in bacterial peptidoglycan biosynthesis. The most closely related proteins differing in function are aspartate racemases. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan].
5.05764e-126
NZ_LT635476.1|WP_089086790.1|588248_589118_+|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
gnl|CDD|223390
COG0313, COG0313, Predicted methyltransferases [General function prediction only].
1.15289e-113
NZ_LT635476.1|WP_001029404.1|592595_593534_-|acetyl-CoA-carboxylase-carboxyl-transferase-subunit-alpha
gnl|CDD|273113
TIGR00513, accA, acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta. [Fatty acid and phospholipid metabolism, Biosynthesis].
0
NZ_LT635476.1|WP_089086791.1|589131_589815_+|23S-rRNA-(guanosine(2251)-2'-O)-methyltransferase-RlmB
gnl|CDD|129290
TIGR00186, Uncharacterized_tRNA/rRNA_methyltransferase_MG252, rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases [Protein synthesis, tRNA and rRNA base modification].
7.49757e-88
NZ_LT635476.1|WP_089086786.1|580167_580515_-|sodium:calcium-antiporter
gnl|CDD|374896
pfam16943, T4SS_CagC, Cag pathogenicity island, type IV secretory system. T4SS_CagC is a family of putative pathogenicity island, type IV, conjugal DNA-protein transfer, secretory system proteins from Gram-negative bacteria.
6.0415e-33
>NZ_LT635476.1|WP_000428893.1|580658_580886_-|hypothetical-protein
MENKSIGQIFKESLKKSFFSGLWSCLKWSFILTLISLGLFLLVFRFQPETIKKYIKDPKDLQFYDDLRKKNGWDK
>NZ_LT635476.1|WP_089086786.1|580167_580515_-|sodium:calcium-antiporter
MKFFTRITDSYKKVVVTLGLAITANPLMAVNSPATGITETKTLVVQIISVLAIVGGCALGVKGIADIWKISDDIKRGQATVFAYAQPIAMLAVAGGIIYLSTKFGFNIGESGGAS
>NZ_LT635476.1|WP_089087379.1|579542_580166_-|cag-pathogenicity-island-type-IV-secretion-system-protein-CagD
MINNNSNKKLRGFFLKVLLSLVVFSSYGSANDDKEAKKEVLEKEKNTPNGPVYTNLDFDSFKATIKNLKDKKVTFKEVNPDIIKDEVFDFVIVNRVLKKIKDLKHYDPIIEKIFDEKGKEMGLNVELQINPEVKDFFTFKSISTTNKQRCFLSLRGETREILCDDKLYNVLLAVFNSYDPNDLLKHISTIESLKKIFYTITCEAVYL
>NZ_LT635476.1|WP_089086785.1|576582_579534_-|cag-pathogenicity-island-type-IV-secretion-system-ATPase-CagE
MFVASKQADEQKKLVIEQEVQKRQFQKIEELKADMQKGINPFFKVLFDGGNRLFGFPETFIYSSIFILFVTIVLSVILFQAYEPVLIVAIVIVLVALGFKKDYRLYQRMERAMKFKKPFLFKGVKNKAFMSIFSMKPSKEMANDIHLNPNREDRLVSAANSYLANNYECFLDDGVILTNNYSLLGTIKLGGIDFLTTSKKDLIELHASIYSVFRNFVTPEFKFYFHTIKKKIVIDETNRDYGLIFSNDFMRAYNEKQKRESFYDISFYLTIEQDLLDTLNEPVMNKKHFADNNFEEFQRIIRAKLENFKDRIELIEELLSKYHPTRLKEYTKDGIIYSKQCEFYNFLVGMNEAPFICNRKDLYLKEKMHGGVKEVYFANKHGKILNDDLSEKYFSAIEISEYAPKSQSDLFDKINALDSEFIFMHAYSPKNSQVLKDKLAFTSRRIIISGGSKEQGMTLGCLSELVGNGDITLGSYGNSLVLFADSFEKMKQSVKECVSSLNAKGFLANAATFSMENYFFAKHCSFITLPFIFDVTSNNFADFIAMRAMSFDGNQENNAWGNSVMTLKSEINSPFYLNFHMPTDFGSASAGHTLILGSTGSGKTVFMSMTLNAMGQFAYNFPANVSKDKQKLTMVYMDKDYGAYGNIVAMGGEYVKIELGTDTGLNPFAWAACVQKTDATMEQKQTAISVVKELVKNLATKSDEKDENGNSVSFSLADSNTLAAAVTNLITGDMNLDYPITQLINAFGKDHNDPNGLVARLAPFCKSTNGEFQWLFDNKATDRLDFSKTIIGVDGSSFLDNNDVSPFICFYLFARIQEAMDGRRFVLDIDEAWKYLGDPKVAYFVRDMLKTARKRNAIVRLATQSITDLLACPIADTIREQCPTKIFLRNDGGNLSDYQRLANVTEKEFEIITKGLDRKILYKQDGSPSVIASFNLRGIPKEYLKILSTDTVFVKEIDKIIQNHSIIDKYQALRQMYQQIKEY
>NZ_LT635476.1|WP_000814269.1|575774_576581_-|type-IV-secretion-system-chaperone-CagF
MKQSLREQKLLKILENDVLTILDSFSNYLFELREELDFIEEEMEGEITEQNLTALYDFSNFLEDHVNVFYENVLNIDDVKTEHLYSGLIDSLNANLHFVKSFLSNQDLDFRFFKEINEGQDPQKTLSRLIPLQSGKNDASSFKANNSFVSLVYVYAYFMLETIRQSYRILRLLEKPINNNISEDMQSDIENFFVQANFLEYYVQNKIYPTNHAYDFTHLIMDSIIPNWIQTDMSVEAKKKELFEKYFQNIDEVTNKMLDQENQNKNSD
>NZ_LT635476.1|WP_000855886.1|575291_575720_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagG
MKTNFYKIKLLFAWCLIIGMFNAPLNADQNTDIKDISPEDMALNSVGLVSRDQLKIEIPKETLEQKVAILNDYNDKNVNIKFDDISLGSFQPNDNLGINAMWGIQNLLMSQMMSDYGPNNSFMYGYAPTYSDSSFLPPILGY
>NZ_LT635476.1|WP_025449159.1|574163_575276_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagH
MAGTQAIYESSSAGFLSQVSSIISSTSGVAGPFAGIVAGAMTAAIIPIVVGFTNPQMTAIMTQYNQSIAEAVSVPMKAANQQYNQLYQGFNDQSMAVGNNILNISKLTGEFNAQGNTQGAQISAVNSQIASILASNTTPKNPSAIEAYATNQIAVPSVPTTVEMMSGILGNITSAAPKYALALQEQLRSQASNSSMNDTADSLDSCTALGALVGSSKVFFSCMQISMTPMSVSMPTVYAKYQALATNALTSGVNPMTTPACPIGDKVLAVYCYAEKVAEILREYYIEFVKNNTNLLQNASQMILGQSGLATSTYDTQAISNISSLYNYNIVANKSFLKSHLTYLDYIKDKLKGQKDSYLTERVQTKIIVK
>NZ_LT635476.1|WP_089086784.1|573007_574153_-|cag-pathogenicity-island-type-IV-secretion-system-translocation-protein-CagI
MKCFLSIFSFLTFCGLSLDGAGAVITLEPALKAIQADAQAKQKTAQAELKAIEAQSSAKEKAIQAQIEGELRTQLATMSAMLKGANGVINGVNGMTGGFFAGSDILLGVMEGYSSALSALGGNVKIIVEKQKINTQTEIQNMQIALQKNNEIIKLKMNQQNALLEALKNSFEPSVTLKTQMEMLSQALGSSSDNAKYIAYNTIGIKAFEETLEGFETWLKEAMKKATLIDYNSLTGQALFQSAIYAPALSFFSSMGTPFGIIETFTLAPTKCPYLDGLKISACLMGQVIQNYRMIVALIQNKLSDADFQNIAYLNGINEEIKTLKGSVDLNALIEAAILNAENHLNYIENLEKKADLWEEQLKLERETTARNIANSKVIVK
>NZ_LT635476.1|WP_000855256.1|572297_573011_-|cag-pathogenicity-island-VirB5-family-T4SS-associated-adhesin-CagL
MKTLVKNTIFSFLLLSVLMAEDITSGLKQLDSTYQETNQQVLKNLDEIFSTTSPSANDKMGEEDALNIKKAAMALRGDLALLKANFEANELFFISEDVIFKTYMSSPELLLTYMKINPLDQKTAEQQCGISDKILVLYCEGKLKIEQEKQNIRERLETSLKAYQSNIGGTASLIIASQTLVESLKNKNFIKGIRKLMLAHNKVFLNYLEELDALERSLEQSKRQYLQERQSSKIIVK
>NZ_LT635476.1|WP_089086783.1|571296_572217_+|cag-pathogenicity-island-type-IV-secretion-system-protein-CagN
MKSIFKKLGSVALYSLVIYGGLNAINTALLPSEYKELVALGFKKIKTLYQRHDDKEITKEEKEFATNALREKLRNDRARVEQIQKNIEAFEKKNNSSVQKKAAKHRGLQELNETNANPLNDNPNGNSSTETKSNKDDNFDEMINKVNEAFVKPATPLVPDEWRTPEIEIVINKCIISSNDYDGLRKCLIKDIKDQKILAPLLEKIQEIETENNKFSRQHLNGLKLALNNNNNRTFLIASCAICEKRKKEMEQENNYQDTTNASEFGTTDTKENEAKDATFSNNRSKSELPNSVINQIEQSIAHGKK
>NZ_LT635476.1|WP_089086788.1|585130_585505_+|hypothetical-protein
MIELLEQIDRALNQRKIRKTIGIITPYDAQKRRLRSEVEKCGFKNFDEIKIDTVDAFQGEEADIIIYSTVKTCGNLSFLLDSKRLNVAISRAKENLIFVGKKSFFENLRSDKNNIFSAILQVCR
>NZ_LT635476.1|WP_089086789.1|585633_586401_-|glutamate-racemase
MKIGVFDSGVGGFSVLKSLLKARLFDEIIYYGDSARVPYGTKDPTTIKQFGLEALDFFKPHQIELLIVACNTASALALEEMQKHSKIPIVGVIEPSILAIKRQVENKNAPILVLGTKATIQSNAYDNALKQQGYLNVSHLATSLFVPLIEESILEGELLETCMRYYFAPLKILPEVIILGCTHFPLIAQKIESYFMGHFALPTPPLLIHSGDAIVEYLQQKYALKNNACAFPKVEFHASGDVIWLEKQAKEWLKL
>NZ_LT635476.1|WP_001004721.1|586440_587757_-|transcription-termination-factor-Rho
MNENAPTHKSSHKVKTHTPVSGYHIEDLRTYPTEKLLEIANKLKVENPQEFKRQDLMFEILKTQVTQGGYILFTGILEIMPDGYGFLRGFDGSFSDGHNDTYVSPSQIRRFALRNGDIVTGQVRSPKDQEKYYALLKVEAINYSPSDEIRNRPLFDNLTPLFPDEQIKLEYESTKVTGRMLDLFSPVGKGQRALIVAPPRTGKTELMKELAQGITSNHPEVELIILLVDERPEEVTDMQRSVKGQVFSSTFDLPANNHIRIAELVLERAKRRVEMGKDVVVLLDSITRLARAYNAVTPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATALIETGSRMDEVIFEEFKGTGNSEIVLARNIADRRIYPAFDILKSGTRKDNILLGKDRLTKVWVLRNVMQQMDDIEALSFVYSKMQQTKDNEEFLKLMNEK
>NZ_LT635476.1|WP_000715278.1|588021_588225_+|50S-ribosomal-protein-L31
MKKGIHPEYIPCKVTCVTSGKEIEVLSTKPEMRIDISSFCHPFYTGSDKIADTAGRVEKFKQRYNLK
>NZ_LT635476.1|WP_089086790.1|588248_589118_+|16S-rRNA-(cytidine(1402)-2'-O)-methyltransferase
MLYFLPTPIGNLADITLRTLEVLERCEVFLCEDTRVSKRLLHLLAKNPIISHSFPNIAAKKREFIAFHSHNDQEFLNQIEPSFFDKEIAVMSDAGMPSLSDPGMSLAAYALKHNIQYDVLPGANALTTAFCASGFLEGRFFYAGFLPHKSKERRLRIIKILNALAYLEEKTPVVFYESPHRLLETLRDLNDLAQGMHLFAAKELTKLHQQYYLGEISQIMTQLQKSNIQGEWVLVLLNEKKIEPSMGLSALLELDLPPKIKAKMEAAMTQKNAKELYCQRLLEEKKQCD
>NZ_LT635476.1|WP_089086791.1|589131_589815_+|23S-rRNA-(guanosine(2251)-2'-O)-methyltransferase-RlmB
MQAVVYGKQVITHLLNSHHEKLQEIYLSKEIDKKLFFALKKACPNIIKVDNKKAQSLAKGGNHQGVLAKVELPLAASLKEIKKAQKLLVLCGITDVGNIGGIFRSAYCLGMDGVILDFAREFAYEGIVRSSLGLMYDLPFSVMPNTLDLINELKTSGFLCLGASMQGSSQAENLSLKKCALFLGSEHEGLSKKILAKMDAILSVKMRRDFDSLNVSVAAGILMDKIN
>NZ_LT635476.1|WP_089086792.1|589827_590793_+|sialidase
MEQNKKSLENLDLSDVQNISKDISGAALEELSLKNLDKNLQILKEVGATEICKATKIASKNIHSILEKRYESLSRVHARGFIQILEREYKIDLSAWVKEFDKVCVFKEGVGEEQKQETSPEETAKKLLKVELDYSINQANTSLSKKSSKWKPFVIVLGVVVIILVVVIIQNSSSLKEEREQESAIKSGTKNSSFNEVSPTEEKKLEPTPKLEEKPKEQDKQGKEAIKENPNTIYIIPKRDIWVEVIDLDEKKNSFQKVFKKSYPLEAKNHRLLLRFGHGHLILKNNHQEQDYNDSKTRRFLYDPNKGLTLINEAQYKVLQQ
>NZ_LT635476.1|WP_089086793.1|590789_591611_+|hypothetical-protein
MNKLFLAFIVGGMLLNADALNDKIENLMGERSYHMNKLFLERLFKNRKDFYEMGRLDSLKLLNTLKENGLLSFNFDKPSVLKITFKASSNPLEFAKSINNSLNMMGYSYVLPIKMQSSSGENVFSYELKTEYVLDPNILIETMKRHGFDFMDIRRVSLKEWEYDFALQKIKLPNARALVLSSDPVEFKEASGKYWLSVNQNAYLKISSNNPLWQPKIIFYDENLKIIQIIAKENRQQEIALNLLNGVRFIHITDAKNPIILKNGISVVFDAMP
>NZ_LT635476.1|WP_089086794.1|591681_592119_-|hypothetical-protein
MFIHEKIKSRFSRNWSLRNRGRHFASSSVYFFSLLVITAVNRSSAVAWLLMPEHLIGWFLISFSGEFVADMAFGKKSKIFKTRFGISIVSGVSLLLGALPAHLFFVWFGFINWWAVFFIEAGADLLVGCVIQKIFFGKYWVDRYY
>NZ_LT635476.1|WP_001029404.1|592595_593534_-|acetyl-CoA-carboxylase-carboxyl-transferase-subunit-alpha
MAIYLDFENHIKEIQNEIELALIRGDEDAKEILEKRLDKEVKTIYSNLTDFQKLQLARHPDRPYAMDYIDLILKDKYEVFGDRHYNDDKAIVCFIGKIDNVPVVVIGEEKGRGTKNKLLRNFGMPNPCGYRKALKMAKFAEKFNLPILMLVDTAGAYPGIGAEERGQSEAIAKNLQEFASLKVPTISVIIGEGGSGGALAIAVADKLAMMEYSIFSVISPEGCAAILWDDPSKTEVAIKAMKITPRDLKEAGLIDDIILEPSKGAHRDKFSAANTIKEYFLDALRTIQQDPHFLDNRYQKLMSLGSFVEGMN