| NC_005303.2|WP_011161005.1|748972_749977_+|ABC-transporter-permease |
gnl|CDD|224098 |
COG1177, PotC, ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism].
|
1.13304e-68 |
| NC_005303.2|WP_011161015.1|761964_762189_+|cold-shock-domain-containing-protein |
gnl|CDD|278729 |
pfam00313, CSD, 'Cold-shock' DNA-binding domain.
|
2.38111e-20 |
| NC_005303.2|WP_011161002.1|744429_746226_-|ATP-dependent-Zn-protease |
gnl|CDD|273520 |
TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides].
|
2.28105e-100 |
| NC_005303.2|WP_011161009.1|754206_755922_+|DAK2-domain-containing-protein |
gnl|CDD|274671 |
TIGR03599, YloV, DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.
|
0 |
| NC_005303.2|WP_011161011.1|758196_759327_+|ATPase-AAA |
gnl|CDD|366772 |
pfam01719, Rep_2, Plasmid replication protein. This family consists of various bacterial plasmid replication (Rep) proteins. These proteins are essential for replication of plasmids, the Rep proteins are topoisomerases that nick the positive stand at the plus origin of replication and also at the single-strand conversion sequence.
|
6.52533e-10 |
| NC_005303.2|WP_011161008.1|752868_753312_-|ATP-dependent-26S-proteasome-regulatory-subunit |
gnl|CDD|365803 |
pfam00004, AAA, ATPase family associated with various cellular activities (AAA). AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
|
4.24543e-24 |
| NC_005303.2|WP_041624865.1|756674_757613_-|DNA-binding-protein |
gnl|CDD|222853 |
PHA02517, PHA02517, putative transposase OrfB; Reviewed.
|
1.34715e-30 |
| NC_005303.2|WP_011160998.1|741366_741657_-|HU-family-DNA-binding-protein |
gnl|CDD|259852 |
cd00591, HU_IHF, DNA sequence specific (IHF) and non-specific (HU) domains. This family includes integration host factor (IHF) and HU, also called type II DNA-binding proteins (DNABII), which are small dimeric proteins that specifically bind the DNA minor groove, inducing large bends in the DNA and serving as architectural factors in a variety of cellular processes such as recombination, initiation of replication/transcription and gene regulation. IHF binds DNA in a sequence specific manner while HU displays little or no sequence preference. IHF homologs are usually heterodimers, while HU homologs are typically homodimers (except HU heterodimers from E. coli and other enterobacteria). HU is highly basic and contributes to chromosomal compaction and maintenance of negative supercoiling, thus often referred to as histone-like protein. IHF is an essential cofactor in phage lambda site-specific recombination, having an architectural role during assembly of specialized nucleoprotein structures (snups). Bacillus phage SPO1-encoded transcription factor 1 (TF1) is another related type II DNA-binding protein. Like IHF, TF1 binds DNA specifically and bends DNA sharply.
|
2.56235e-18 |
| NC_005303.2|WP_011161017.1|763874_765068_-|replication-initiation-protein |
gnl|CDD|226138 |
COG3611, DnaB, Replication initiation/membrane attachment protein [DNA replication, recombination, and repair].
|
6.18627e-28 |
| NC_005303.2|WP_011161003.1|746887_748141_+|spermidine/putrescine-import-ATP-binding-protein-PotA |
gnl|CDD|226361 |
COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism].
|
2.48446e-99 |
| NC_005303.2|WP_011161004.1|748134_748983_+|ABC-transporter-permease |
gnl|CDD|224097 |
COG1176, PotB, ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism].
|
4.26009e-50 |
| NC_005303.2|WP_011161016.1|762973_763792_-|DNA-replication-protein |
gnl|CDD|236353 |
PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
|
3.33531e-37 |
| NC_005303.2|WP_011160999.1|741786_742131_-|single-stranded-DNA-binding-protein |
gnl|CDD|239942 |
cd04496, SSB_OBF, SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart at forks that have stalled at sites of DNA damage. It also plays a role in the assembly of primosome during replication initiation at the bacteriophage phiX174 origin. PriB physically interacts with SSB and binds ssDNA with high affinity.
|
1.45277e-26 |
| NC_005303.2|WP_011161006.1|749973_751200_+|spermidine/putrescine-ABC-transporter-substrate-binding-protein |
gnl|CDD|270381 |
cd13663, PBP2_PotD_PotF_like_2, The periplasmic substrate-binding component of an uncharacterized active transport system closely related to spermidine and putrescine transporters; contains the type 2 periplasmic binding fold. This group represents the periplasmic substrate-binding domain that serves as a primary polyamine receptor of an uncharacterized ABC-type transport system from gram-negative bacteria. Polyamine transport plays an essential role in the regulation of intracellular polyamine levels which are known to be elevated in rapidly proliferating cells and tumors. Natural polyamines are putrescine, spermindine, and spermine. They are polycations that play multiple roles in cell growth, survival and proliferation, as well as plant stress and disease resistance. They can interact with negatively charged molecules, such as nucleic acids, to modulate their functions. Members of this family belong to the type 2 periplasmic-binding fold superfamily. PBP2 is comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.
|
5.47869e-108 |
| NC_005303.2|WP_011161000.1|742393_742996_-|sigma-70-family-RNA-polymerase-sigma-factor |
gnl|CDD|274357 |
TIGR02937, RNA_polymerase_sigma_factor, RNA polymerase sigma factor, sigma-70 family. This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
|
9.29522e-16 |
