STRINGSTRING
gyrB gyrB hrcA hrcA batR batR rpoH-2 rpoH-2 priA priA BARCL_1288 BARCL_1288 rpoD rpoD dnaG dnaG cspA cspA greA greA uvrB uvrB BARCL_0334 BARCL_0334 ompR ompR BARCL_0297 BARCL_0297 ccrM ccrM ctrA ctrA BARCL_0292 BARCL_0292 BARCL_0230 BARCL_0230 rpoH rpoH mutL mutL mutM mutM dnaX dnaX BARCL_0175 BARCL_0175 recR recR dicA dicA fur fur recF recF dnaN dnaN dnaA dnaA mutS mutS nth nth xthA-2 xthA-2 ftsK ftsK BARCL_1305 BARCL_1305 xerC xerC bolA bolA mtrA mtrA BARCL_1344 BARCL_1344 xerD xerD parB parB mutY mutY rosAR rosAR BARCL_0383 BARCL_0383 feuP feuP BARCL_0393 BARCL_0393 BARCL_0397 BARCL_0397 ftcR ftcR rpoZ rpoZ radA radA dnaB dnaB BARCL_0561 BARCL_0561 uvrC uvrC BARCL_0601 BARCL_0601 BARCL_0603 BARCL_0603 lon lon BARCL_0609 BARCL_0609 uvrA uvrA ssb ssb gyrA gyrA parC parC BARCL_0690 BARCL_0690 divK divK parE parE mfd mfd sfsA sfsA lexA lexA cspE cspE dprA dprA topA topA BARCL_0816 BARCL_0816 ihfA ihfA nrdR nrdR BARCL_0849 BARCL_0849 BARCL_0892 BARCL_0892 rpoC rpoC rpoB rpoB nusG nusG recA recA BARCL_0910 BARCL_0910 rpoA rpoA xthA xthA uvrD uvrD BARCL_1016 BARCL_1016 fur-2 fur-2 BARCL_1092 BARCL_1092 sigH sigH BARCL_1161 BARCL_1161 BARCL_1201 BARCL_1201 BARCL_1202 BARCL_1202 BARCL_1203 BARCL_1203 BARCL_1220 BARCL_1220 ruvA ruvA ruvB ruvB BARCL_1248 BARCL_1248 BARCL_1249 BARCL_1249 dnaQ dnaQ polA polA ihfB ihfB BARCL_0034 BARCL_0034
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.
Node Color
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:
gyrBDNA gyrase subunit B; 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. (809 aa)
hrcAHeat-inducible transcription repressor HrcA; Negative regulator of class I heat shock genes (grpE-dnaK- dnaJ and groELS operons). Prevents heat-shock induction of these operons. (357 aa)
batRTranscriptional regulator BatR. (240 aa)
rpoH-2RNA polymerase sigma-32 factor; Belongs to the sigma-70 factor family. (303 aa)
priAPrimosomal replication factor Y; 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. (739 aa)
BARCL_1288Homologs of previously reported genes of unknown function. (225 aa)
rpoDRNA polymerase sigma factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. (669 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (642 aa)
cspACold shock protein. (69 aa)
greATranscription elongation factor GreA; Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreA releases sequences of 2 to 3 nucleotides. (157 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 [...] (810 aa)
BARCL_0334Putative cold shock protein y4cH (fragment); Function proposed based on presence of conserved amino acid motif, structural feature or limited homology. (42 aa)
ompRTranscriptional regulator OmpR. (233 aa)
BARCL_0297Homologs of previously reported genes of unknown function. (91 aa)
ccrMAdenine DNA methyltransferase protein CcrM; Belongs to the N(4)/N(6)-methyltransferase family. (386 aa)
ctrACell cycle transcriptional regulator CtrA. (233 aa)
BARCL_0292Homologs of previously reported genes of unknown function. (215 aa)
BARCL_0230Cell division transmembrane protein; Belongs to the FtsK/SpoIIIE/SftA family. (860 aa)
rpoHRNA polymerase sigma-32 factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is involved in regulation of expression of heat shock genes. (305 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. (612 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. (291 aa)
dnaXDNA polymerase III gamma and tau subunit; 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. (634 aa)
BARCL_0175Conserved protein of unknown function; Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection. (108 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. (201 aa)
dicATranscriptional regulator. (137 aa)
furFerric uptake regulation protein; Belongs to the Fur family. (143 aa)
recFDNA replication and repair 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. (380 aa)
dnaNDNA polymerase III, beta chain; 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 r [...] (373 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. (520 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. (911 aa)
nthEndonuclease III; DNA repair enzyme that has both DNA N-glycosylase activity and AP-lyase activity. The DNA N-glycosylase activity releases various damaged pyrimidines from DNA by cleaving the N-glycosidic bond, leaving an AP (apurinic/apyrimidinic) site. The AP-lyase activity cleaves the phosphodiester bond 3' to the AP site by a beta-elimination, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'- phosphate. (248 aa)
xthA-2Exodeoxyribonuclease III. (272 aa)
ftsKCell division transmembrane protein FtsK. (806 aa)
BARCL_1305SapC-related protein. (272 aa)
xerCIntegrase/recombinase XerC; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (322 aa)
bolATranscriptional regulator BolA; Belongs to the BolA/IbaG family. (92 aa)
mtrATwo-component response regulator. (227 aa)
BARCL_1344Homologs of previously reported genes of unknown function. (347 aa)
xerDIntegrase/recombinase XerD; Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC- XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids. (312 aa)
parBChromosome partitioning protein ParB; Belongs to the ParB family. (302 aa)
mutYA/G-specific adenine glycosylase MutY; Adenine glycosylase active on G-A mispairs. (352 aa)
rosARTranscriptional regulator. (145 aa)
BARCL_0383Homologs of previously reported genes of unknown function. (77 aa)
feuPTwo-component system regulatory protein. (222 aa)
BARCL_0393Two-component response regulator. (228 aa)
BARCL_0397Methyltranferase. (187 aa)
ftcRFlagellar transcriptional regulator ftcR. (229 aa)
rpoZRNA polymerase omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. (132 aa)
radADNA repair protein; 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. (461 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. (499 aa)
BARCL_0561Putative DNA polymerase III chi subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology. (149 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. (643 aa)
BARCL_0601Homologs of previously reported genes of unknown function. (159 aa)
BARCL_0603Two-component system, response regulator. (452 aa)
lonATP-dependent protease LA; ATP-dependent serine protease that mediates the selective degradation of mutant and abnormal proteins as well as certain short- lived regulatory proteins. Required for cellular homeostasis and for survival from DNA damage and developmental changes induced by stress. Degrades polypeptides processively to yield small peptide fragments that are 5 to 10 amino acids long. Binds to DNA in a double-stranded, site-specific manner. (807 aa)
BARCL_0609DNA-binding 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. (92 aa)
uvrAExcinuclease 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. (971 aa)
ssbSingle-strand 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. (162 aa)
gyrADNA gyrase subunit A; 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. (923 aa)
parCTopoisomerase IV subunit A; Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule; Belongs to the type II topoisomerase GyrA/ParC subunit family. ParC type 1 subfamily. (749 aa)
BARCL_0690Homologs of previously reported genes of unknown function; Belongs to the BolA/IbaG family. (77 aa)
divKTwo-component system response regulator. (121 aa)
parETopoisomerase protein; Topoisomerase IV is essential for chromosome segregation. It relaxes supercoiled DNA. Performs the decatenation events required during the replication of a circular DNA molecule; Belongs to the type II topoisomerase family. ParE type 1 subfamily. (692 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. (1166 aa)
sfsASugar fermentation stimulation protein; Belongs to the SfsA family. (236 aa)
lexASOS response regulator lexA protein; Represses a number of genes involved in the response to DNA damage (SOS response). (221 aa)
cspECold shock protein. (193 aa)
dprADNA processing chain A. (383 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 [...] (863 aa)
BARCL_0816Regulatory protein MerR. (167 aa)
ihfAIntegration host factor alpha subunit; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Belongs to the bacterial histone-like protein family. (103 aa)
nrdRConserved protein of unknown function; Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes; Belongs to the NrdR family. (160 aa)
BARCL_0849Response regulator. (120 aa)
BARCL_0892Transcriptional regulator. (128 aa)
rpoCDNA-directed RNA polymerase, beta chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1402 aa)
rpoBDNA-directed RNA polymerase, beta chain; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1382 aa)
nusGTranscription antitermination protein; Participates in transcription elongation, termination and antitermination. (182 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. (347 aa)
BARCL_0910ATPase, AAA family. (438 aa)
rpoADNA-directed RNA polymerase alpha subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (337 aa)
xthAExodeoxyribonuclease III. (260 aa)
uvrDDNA helicase II. (817 aa)
BARCL_1016Homologs of previously reported genes of unknown function. (179 aa)
fur-2Ferric uptake regulation protein; Belongs to the Fur family. (137 aa)
BARCL_1092Sigma factor-dependent DNA-binding response regulator. (460 aa)
sigHRNA polymerase sigma factor, ecr subfamily; Belongs to the sigma-70 factor family. ECF subfamily. (184 aa)
BARCL_1161Two-component system response regulator. (264 aa)
BARCL_1201Homologs of previously reported genes of unknown function. (105 aa)
BARCL_1202Homologs of previously reported genes of unknown function. (290 aa)
BARCL_1203Protein of unknown function; No homology to any previously reported sequences. (666 aa)
BARCL_1220Homologs of previously reported genes of unknown function. (248 aa)
ruvAHolliday junction ATP-dependent 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. (213 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. (364 aa)
BARCL_1248Homologs of previously reported genes of unknown function; Belongs to the UPF0335 family. (85 aa)
BARCL_1249ATP-binding protein of ABC transporter. (607 aa)
dnaQDNA polymerase III epsilon chain; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease. (235 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. (968 aa)
ihfBIntegration host factor beta chain; This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Belongs to the bacterial histone-like protein family. (92 aa)
BARCL_0034Putative ATP-dependent nuclease subunit A; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme; Belongs to the helicase family. UvrD subfamily. (1152 aa)
Your Current Organism:
Bartonella clarridgeiae
NCBI taxonomy Id: 696125
Other names: B. clarridgeiae 73, Bartonella clarridgeiae 73, Bartonella clarridgeiae str. 73, Bartonella clarridgeiae strain 73
Server load: low (24%) [HD]
STRING is a Core Data Resource as designated by Global Biodata Coalition and ELIXIR.