STRINGSTRING
dnaN dnaN recF recF gyrB gyrB XM1_0082 XM1_0082 XM1_0088 XM1_0088 recA recA dnaX dnaX recQ recQ polA polA nth nth XM1_0431 XM1_0431 mutL mutL dnaQ dnaQ XM1_0867 XM1_0867 XM1_0878 XM1_0878 mutS mutS XM1_1242 XM1_1242 XM1_1270 XM1_1270 ada ada XM1_1272 XM1_1272 mutY mutY ligA ligA recN recN uvrB uvrB uvrC uvrC holC holC XM1_2049 XM1_2049 XM1_2262 XM1_2262 ssb ssb lexA lexA radA radA uvrA uvrA XM1_3204 XM1_3204 gyrA gyrA ssb-2 ssb-2 xthA xthA dnaE dnaE parC parC sfsA sfsA XM1_3964 XM1_3964 parE parE fieF fieF rnhA rnhA dnaE-2 dnaE-2 imuB imuB imuA imuA uvrD uvrD topA topA XM1_4743 XM1_4743 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
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textmining
co-expression
protein homology
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dnaNDNA 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 [...] (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; Belongs to the RecF family. (392 aa)
gyrBProtein of unknown function; 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. (816 aa)
XM1_0082Conserved protein of unknown function（contain Ribonuclease H-like domain） Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme. (180 aa)
XM1_0088Conserved protein of unknown function（related 3'-5' exonuclease fragment); Homologs of previously reported genes of unknown function. (118 aa)
recADNA strand exchange and recombination protein with protease and nuclease activity; 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. (359 aa)
dnaXDNA polymerase III, gamma/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. (600 aa)
recQATP-dependent DNA helicase RecQ; Function of homologous gene experimentally demonstrated in an other organism; enzyme. (608 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. (925 aa)
nthDNA glycosylase and apyrimidinic (AP) lyase (endonuclease 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. (211 aa)
XM1_0431Putative ATP-dependent helicase/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. (1154 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. (602 aa)
dnaQDNA polymerase III subunit epsilon; 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. (230 aa)
XM1_0867Putative Exodeoxyribonuclease III; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme. (263 aa)
XM1_0878Putative DNA polymerase III, delta subunit (holA); Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme. (340 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. (884 aa)
XM1_1242Regulatory protein RecX (fragment); Modulates RecA activity; Belongs to the RecX family. (140 aa)
XM1_1270Putative DNA-3-methyladenine glycosidase II（DNA glycosylase,109-291） Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme. (297 aa)
adaFused DNA-binding transcriptional dual regulator; Function of homologous gene experimentally demonstrated in an other organism; regulator. (359 aa)
XM1_1272Protein of unknown function; No homology to any previously reported sequences. (76 aa)
mutYAdenine DNA glycosylase; Adenine glycosylase active on G-A mispairs. (362 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; Belongs to the NAD-dependent DNA ligase family. LigA subfamily. (694 aa)
recNDNA repair protein RecN(DNA recombination/repair protein RecN,1-552); May be involved in recombinational repair of damaged DNA. (553 aa)
uvrBUvrABC system protein 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 and [...] (703 aa)
uvrCExcinuclease UvrABC, endonuclease subunit(UvrABC system, subunit C,20-598); 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. (624 aa)
holCDNA polymerase III subunit chi; Function of strongly homologous gene; enzyme. (151 aa)
XM1_2049Superfamily I DNA/RNA helicase; Function of strongly homologous gene; enzyme. (637 aa)
XM1_2262Exported protein of unknown function; No homology to any previously reported sequences. (761 aa)
ssbSingle-stranded DNA-binding protein; Function of strongly homologous gene; cell process. (176 aa)
lexAPutative transcriptional repressor of the SOS regulon; 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. (235 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)
uvrAATPase and DNA damage recognition protein of nucleotide excision repair excinuclease UvrABC; 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. (947 aa)
XM1_3204DNA polymerase III, delta prime subunit; Function of strongly homologous gene; enzyme. (363 aa)
gyrADNA gyrase (type II topoisomerase), 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 [...] (895 aa)
ssb-2Single-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. (168 aa)
xthAExonuclease III; Function of strongly homologous gene; enzyme. (258 aa)
dnaEDNA polymerase III subunit alpha; Function of homologous gene experimentally demonstrated in an other organism; enzyme. (1154 aa)
parCDNA topoisomerase 4 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. (740 aa)
sfsASugar fermentation stimulation protein homolog; Function of homologous gene experimentally demonstrated in an other organism; regulator; Belongs to the SfsA family. (236 aa)
XM1_3964DNA polymerase III; Function of strongly homologous gene; enzyme. (676 aa)
parEDNA topoisomerase 4 subunit B; 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. (663 aa)
fieFCation-efflux pump FieF; Function of strongly homologous gene; transporter; Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family. (300 aa)
rnhARibonuclease HI, degrades RNA of DNA-RNA hybrids; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (156 aa)
dnaE-2Error-prone DNA polymerase dnaE; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1030 aa)
imuBDamage-inducible mutagenesis protein (ImuB-like); Function of strongly homologous gene; putative enzyme. (494 aa)
imuADamage-inducible mutagenesis protein (ImuA-like); Function of strongly homologous gene; enzyme. (251 aa)
uvrDDNA-dependent ATPase I and helicase II; Function of strongly homologous gene; enzyme. (760 aa)
topADNA topoisomerase 1; 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 [...] (902 aa)
XM1_4743Putative DNA polymerase III, epsilon subunit; Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; putative enzyme. (215 aa)
dinBDNA polymerase IV (damage-inducible protein P); 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. (375 aa)
Your Current Organism:
Magnetospirillum sp. XM1
NCBI taxonomy Id: 1663591
Other names: M. sp. XM-1, Magnetospirillum sp. XM-1
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