STRINGSTRING
dnaN dnaN recF recF gyrB gyrB gyrA gyrA Pcar_0006 Pcar_0006 Pcar_0008 Pcar_0008 dinG dinG uvrA uvrA mfd mfd uvrB uvrB hemN hemN rnhA rnhA dbpA dbpA dnaX dnaX topA topA uvrC uvrC polA polA ssb ssb Pcar_0791 Pcar_0791 Pcar_0793 Pcar_0793 Pcar_0910 Pcar_0910 sbcD-1 sbcD-1 dnaE-1 dnaE-1 mutL mutL sbcD-2 sbcD-2 sbcC-2 sbcC-2 holA holA ihfB-1 ihfB-1 mutS-1 mutS-1 holC holC xseB xseB xseA xseA hup hup holB holB lexA lexA Pcar_1740 Pcar_1740 dnaE-2 dnaE-2 Pcar_1785 Pcar_1785 Pcar_1791 Pcar_1791 mutM mutM recJ recJ dnaB dnaB Pcar_2051 Pcar_2051 ligA ligA Pcar_2264 Pcar_2264 Pcar_2273 Pcar_2273 recN recN Pcar_2335 Pcar_2335 ruvC ruvC ruvA ruvA ruvB ruvB recQ recQ Pcar_2613 Pcar_2613 dnaG dnaG mutS-2 mutS-2 pcrA pcrA Pcar_2864 Pcar_2864 Pcar_2914 Pcar_2914 rep rep dinB dinB
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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
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empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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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:
dnaNDNA polymerase III, beta subunit; 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 [...] (372 aa)
recFDNA replication and repair protein RecF; 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. (363 aa)
gyrBDNA gyrase, B subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (795 aa)
gyrADNA gyrase, A subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (835 aa)
Pcar_0006Hypothetical protein. (283 aa)
Pcar_0008Metal-dependent hydrolase. (244 aa)
dinGATP-dependent DNA helicase DinG. (851 aa)
uvrAExcinuclease ABC, A subunit; 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. (937 aa)
mfdTranscription-repair coupling factor; Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site; In the C-terminal section; belongs to the helicase family. RecG subfamily. (1161 aa)
uvrBExcinuclease ABC, B subunit; 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 [...] (667 aa)
hemNOxygen-independent coproporphyrinogen III oxidase; Probably acts as a heme chaperone, transferring heme to an unknown acceptor. Binds one molecule of heme per monomer, possibly covalently. Binds 1 [4Fe-4S] cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine. Belongs to the anaerobic coproporphyrinogen-III oxidase family. (393 aa)
rnhARibonuclease HI; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (152 aa)
dbpAATP-dependent RNA helicase DbpA; DEAD-box RNA helicase involved in various cellular processes at low temperature, including ribosome biogenesis, mRNA degradation and translation initiation. (583 aa)
dnaXDNA polymerase III, gamma and tau subunits; 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. (582 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 [...] (841 aa)
uvrCExcinuclease ABC, C subunit; 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. (612 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. (891 aa)
ssbSingle-strand-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. (157 aa)
Pcar_0791ATP/GTP-binding transposition helper; Belongs to the DnaA family. (255 aa)
Pcar_0793Hypothetical protein. (646 aa)
Pcar_0910Hypothetical protein. (183 aa)
sbcD-1DNA repair exonuclease SbcCD, D subunit, putative. (370 aa)
dnaE-1DNA polymerase III, alpha subunit. (1156 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. (628 aa)
sbcD-2DNA repair exonuclease SbcCD, D subunit, putative. (421 aa)
sbcC-2DNA repair exonuclease SbcCD, C subunit, putative. (814 aa)
holADNA polymerase III, delta subunit. (330 aa)
ihfB-1Integration host factor, beta subunit; Belongs to the bacterial histone-like protein family. (92 aa)
mutS-1DNA mismatch repair ATPase MutS-1; 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. (870 aa)
holCDNA polymerase III, chi subunit. (138 aa)
xseBExodeoxyribonuclease VII, small subunit; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseB family. (74 aa)
xseAExodeoxyribonuclease VII, large subunit; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseA family. (401 aa)
hupHistone-like protein; Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions. (90 aa)
holBDNA polymerase III, delta-prime subunit. (321 aa)
lexATranscriptional repressor, LexA family; Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair. (202 aa)
Pcar_1740DNA polymerase IV. (393 aa)
dnaE-2DNA polymerase III, alpha subunit. (1015 aa)
Pcar_1785Transposase of ISPca5, Y1_Tnp domain-containing. (264 aa)
Pcar_1791Transposase of ISPca5, Y1_Tnp domain-containing. (323 aa)
mutMformamidopyrimidine-DNA glycosylase; Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized purines, such as 7,8-dihydro-8-oxoguanine (8-oxoG). Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. (271 aa)
recJSingle-stranded DNA-specific exonuclease RecJ. (574 aa)
dnaBReplicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins. Belongs to the helicase family. DnaB subfamily. (456 aa)
Pcar_2051Helicase, putative. (637 aa)
ligADNA ligase, NAD-dependent; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA. (671 aa)
Pcar_2264Transposase of ISPca5, Y1_Tnp domain-containing. (323 aa)
Pcar_2273Ribonuclease HI. (167 aa)
recNDNA repair ATPase RecN; May be involved in recombinational repair of damaged DNA. (560 aa)
Pcar_2335Protein of unknown function DUF28. (248 aa)
ruvCCrossover junction endodeoxyribonuclease RuvC; 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. (161 aa)
ruvAHolliday junction DNA helicase RuvA; 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)
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. (341 aa)
recQATP-dependent DNA helicase RecQ. (596 aa)
Pcar_26133'-to-5' exonuclease, putative. (222 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (604 aa)
mutS-2DNA mismatch repair ATPase MutS-2; 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. (788 aa)
pcrAATP-dependent DNA helicase PcrA. (737 aa)
Pcar_2864Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (480 aa)
Pcar_2914Helicase, putative. (658 aa)
repATP-dependent DNA helicase Rep. (678 aa)
dinBDNA polymerase IV; Poorly processive, error-prone DNA polymerase involved in untargeted mutagenesis. Copies undamaged DNA at stalled replication forks, which arise in vivo from mismatched or misaligned primer ends. These misaligned primers can be extended by PolIV. Exhibits no 3'-5' exonuclease (proofreading) activity. May be involved in translesional synthesis, in conjunction with the beta clamp from PolIII. (399 aa)
Your Current Organism:
Pelobacter carbinolicus
NCBI taxonomy Id: 338963
Other names: P. carbinolicus DSM 2380, Pelobacter carbinolicus DSM 2380, Pelobacter carbinolicus Gra Bd 1, Pelobacter carbinolicus str. DSM 2380, Pelobacter carbinolicus strain DSM 2380
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