STRINGSTRING
AHM58529.1 AHM58529.1 topA topA AHM58910.1 AHM58910.1 AHM58989.1 AHM58989.1 AHM58991.1 AHM58991.1 AHM59009.1 AHM59009.1 AHM59367.1 AHM59367.1 ruvC ruvC AHM59438.1 AHM59438.1 AHM59481.1 AHM59481.1 mutS2 mutS2 AHM59933.1 AHM59933.1 AHM59991.1 AHM59991.1 AHM60073.1 AHM60073.1 AHM60286.1 AHM60286.1 AHM60360.1 AHM60360.1 recR recR rnhB rnhB uvrB uvrB AHM60976.1 AHM60976.1 radA radA uvrC uvrC ruvB ruvB AHM61226.1 AHM61226.1 mutS mutS polA polA AHM61389.1 AHM61389.1 AHM61460.1 AHM61460.1 AHM61517.1 AHM61517.1 AHM61530.1 AHM61530.1 recG recG AHM61617.1 AHM61617.1 AHM61631.1 AHM61631.1 recX recX AHM61662.1 AHM61662.1 sbcD sbcD recF recF AHM61836.1 AHM61836.1 AHM61854.1 AHM61854.1 mutL mutL recA recA AHM62043.1 AHM62043.1 dnaX dnaX dnaA dnaA AHM62465.1 AHM62465.1 ruvA ruvA AHM62777.1 AHM62777.1 AHM63221.1 AHM63221.1 priA priA dnaG dnaG AHM63410.1 AHM63410.1
Nodes:
Network nodes represent proteins
splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
Node Content
empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
Edges:
Edges represent protein-protein associations
associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
Others
textmining
co-expression
protein homology
Your Input:
AHM58529.1RpoD subfamily RNA polymerase sigma-70 subunit; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (287 aa)
topADNA topoisomerase i; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...] (777 aa)
AHM58910.1COG1466 DNA polymerase III, delta subunit. (355 aa)
AHM58989.1Primary replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (508 aa)
AHM58991.1COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases. (268 aa)
AHM59009.1UPF0133 protein ybaB; Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection. (110 aa)
AHM59367.1COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases. (251 aa)
ruvCHolliday junction resolvase; Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group. (183 aa)
AHM59438.1DNA/RNA helicase; COG0210 Superfamily I DNA and RNA helicases. (742 aa)
AHM59481.1DNA polymerase III subunit beta; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...] (374 aa)
mutS2Smr protein/MutS2; Endonuclease that is involved in the suppression of homologous recombination and may therefore have a key role in the control of bacterial genetic diversity; Belongs to the DNA mismatch repair MutS family. MutS2 subfamily. (799 aa)
AHM59933.1COG0514 Superfamily II DNA helicase. (727 aa)
AHM59991.1Exonuclease; COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases. (419 aa)
AHM60073.1COG0847 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases. (235 aa)
AHM60286.1DNA topoisomerase III; COG0550 Topoisomerase IA. (720 aa)
AHM60360.1HRDC domain-containing protein; COG0507 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member. (833 aa)
recRRecombination protein RecR; May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO. (207 aa)
rnhBRibonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (193 aa)
uvrBExcinuclease ABC subunit B; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate [...] (676 aa)
AHM60976.1COG0514 Superfamily II DNA helicase. (686 aa)
radADNA repair protein RadA; DNA-dependent ATPase involved in processing of recombination intermediates, plays a role in repairing DNA breaks. Stimulates the branch migration of RecA-mediated strand transfer reactions, allowing the 3' invading strand to extend heteroduplex DNA faster. Binds ssDNA in the presence of ADP but not other nucleotides, has ATPase activity that is stimulated by ssDNA and various branched DNA structures, but inhibited by SSB. Does not have RecA's homology-searching function. (460 aa)
uvrCExcinuclease ABC subunit C; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision. (623 aa)
ruvBHolliday junction DNA helicase RuvB; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. (345 aa)
AHM61226.1single-stranded-DNA-specific exonuclease RecJ; COG0608 Single-stranded DNA-specific exonuclease. (550 aa)
mutSDNA mismatch repair protein MutS; This protein is involved in the repair of mismatches in DNA. It is possible that it carries out the mismatch recognition step. This protein has a weak ATPase activity. (875 aa)
polADNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family. (960 aa)
AHM61389.1Hypothetical protein; COG3298 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB. (243 aa)
AHM61460.1Snf2-related protein; COG0553 Superfamily II DNA/RNA helicases, SNF2 family. (985 aa)
AHM61517.1Excinuclease ABC subunit A; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate. (967 aa)
AHM61530.1Single-stranded DNA binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (159 aa)
recGATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y- DNA); Belongs to the helicase family. RecG subfamily. (699 aa)
AHM61617.1Hypothetical protein. (2127 aa)
AHM61631.1Excinuclease ABC subunit A; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate. (963 aa)
recXRegulatory protein RecX; Modulates RecA activity; Belongs to the RecX family. (165 aa)
AHM61662.1SMC domain-containing protein; COG0419 ATPase involved in DNA repair. (1028 aa)
sbcDNuclease SbcCD subunit D; SbcCD cleaves DNA hairpin structures. These structures can inhibit DNA replication and are intermediates in certain DNA recombination reactions. The complex acts as a 3'->5' double strand exonuclease that can open hairpins. It also has a 5' single-strand endonuclease activity; Belongs to the SbcD family. (410 aa)
recFrecF protein; The RecF protein is involved in DNA metabolism; it is required for DNA replication and normal SOS inducibility. RecF binds preferentially to single-stranded, linear DNA. It also seems to bind ATP; Belongs to the RecF family. (376 aa)
AHM61836.1COG2812 DNA polymerase III, gamma/tau subunits. (403 aa)
AHM61854.1Hypothetical protein. (150 aa)
mutLDNA mismatch repair protein MutL; This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a 'molecular matchmaker', a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex. (629 aa)
recAReca protein; Can catalyze the hydrolysis of ATP in the presence of single- stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage; Belongs to the RecA family. (342 aa)
AHM62043.1DNA polymerase III subunits gamma and tau. (158 aa)
dnaXDNA polymerase III subunits tau/gamma; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (388 aa)
dnaAChromosomal replication initiator protein dnaa; Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box): 5'- TTATC[CA]A[CA]A-3'. DnaA binds to ATP and to acidic phospholipids. Belongs to the DnaA family. (443 aa)
AHM62465.1COG0514 Superfamily II DNA helicase. (640 aa)
ruvAHolliday junction DNA helicase; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. (197 aa)
AHM62777.1DNA mismatch repair protein MutS domain-containing protein; COG0249 Mismatch repair ATPase (MutS family); Belongs to the DNA mismatch repair MutS family. (616 aa)
AHM63221.1COG0514 Superfamily II DNA helicase. (1608 aa)
priAPrimosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (840 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (638 aa)
AHM63410.1COG2176 DNA polymerase III, alpha subunit (gram-positive type). (1413 aa)
Your Current Organism:
Flammeovirgaceae bacterium 311
NCBI taxonomy Id: 1257021
Other names: F. bacterium 311
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