STRINGSTRING
dnaN dnaN recF recF gyrB gyrB gyrA gyrA ssb ssb dnaB dnaB Rv0628c Rv0628c recD recD recB recB recC recC uvrD1 uvrD1 ogt ogt alkA alkA priA priA uvrC uvrC dinX dinX dnaE1 dnaE1 uvrB uvrB uvrA uvrA Rv2119 Rv2119 Rv2191 Rv2191 dnaG dnaG recO recO Rv2413c Rv2413c Rv2478c Rv2478c ruvB ruvB ruvA ruvA ruvC ruvC lexA lexA Rv2734 Rv2734 Rv2735c Rv2735c recX recX Rv2737A Rv2737A recA recA uvrD2 uvrD2 Rv3200c Rv3200c Rv3201c Rv3201c Rv3202c Rv3202c Rv3644c Rv3644c dnaQ dnaQ recR recR dnaZX dnaZX
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:
dnaNDNA polymerase III (beta chain) DnaN (DNA nucleotidyltransferase); 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 ch [...] (402 aa)
recFDNA replication and repair protein RecF (single-strand DNA binding 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 (By similarity). (385 aa)
gyrBDNA gyrase subunit B; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to maintain chromosomes in an underwound state, while in the absence of ATP it relaxes supercoiled dsDNA. . Also catalyzes the interconversion of other topological isomers of dsDNA rings, including catenanes. Gyrase from M.tuberculosis has higher decatenation than supercoiling activity compared to E.coli; as M.tuberculosis only has 1 type II topoisomerase, gyrase has to fulfill the decatenation function of topoisomerase IV as well. At comparable c [...] (675 aa)
gyrADNA gyrase subunit A; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to maintain chromosomes in an underwound state, while in the absence of ATP it relaxes supercoiled dsDNA. Also catalyzes the interconversion of other topological isomers of dsDNA rings, including catenanes. Gyrase from M.tuberculosis has higher decatenation than supercoiling activity compared to E.coli; as M.tuberculosis only has 1 type II topoisomerase, gyrase has to fulfill the decatenation function of topoisomerase IV as well. At comparable con [...] (838 aa)
ssbRv0054, (MTCY21D4.17), len: 164 aa. ssb,single-strand binding protein (see Mizrahi & Andersen 1998), highly similar to others. Belongs to the SSB family. (164 aa)
dnaBProbable replicative DNA helicase DnaB; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity; Belongs to the helicase family. DnaB subfamily. (874 aa)
Rv0628cConserved hypothetical protein; Rv0628c, (MTCY20H10.09c), len: 383 aa. Conserved hypothetical protein, highly similar to Rv0874c|YZ02_MYCTU|Q10536 conserved hypothetical protein from Mycobacterium tuberculosis (386 aa), FASTA scores: opt: 2082, E(): 0, (81.5% identity in 383 aa overlap). Also some similarity to P72543|SPU62616_1 hypothetical protein from Synechococcus, FASTA scores: E(): 2.8e-28, (36.6 identity in 265 aa overlap). This region is a possible MT-complex-specific genomic island (See Becq et al.,2007). (383 aa)
recDRecBCD enzyme subunit RecD; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holo [...] (575 aa)
recBRecBCD enzyme subunit RecB; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holo [...] (1094 aa)
recCRecBCD enzyme subunit RecC; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holo [...] (1097 aa)
uvrD1Probable ATP-dependent DNA helicase II UvrD1; DNA-dependent ATPase, acting on dsDNA with a 3'-ssDNA tail, unwinding with 3'-to 5'-polarity. A minimal tail of 18 nt is required for activity. Also highly efficient on nicked DNA. Involved in the post-incision events of nucleotide excision repair, as well as in nitrosative and oxidative stress response and possibly in persistence in the host. Inhibits RecA-mediated DNA strand exchange; this does not require ATPase activity. When combined with UvrA greatly inhibits RecA- mediated DNA strand exchange; Belongs to the helicase family. UvrD sub [...] (771 aa)
ogtMethylated-DNA--protein-cysteine methyltransferase; Involved in the cellular defense against the biological effects of O6-methylguanine (O6-MeG) and O4-methylthymine (O4-MeT) in DNA. Repairs the methylated nucleobase in DNA by stoichiometrically transferring the methyl group to a cysteine residue in the enzyme. This is a suicide reaction: the enzyme is irreversibly inactivated. (165 aa)
alkAProbable bifunctional transcriptional activator/DNA repair enzyme AlkA; Is involved in the adaptive response to alkylation damage in DNA caused by alkylating agents. Repairs the Sp diastereomer of DNA methylphosphotriester lesions by a direct and irreversible transfer of the methyl group to one of its own cysteine residues. Also catalyzes the hydrolysis of the deoxyribose N-glycosidic bond to excise 3- methyladenine, 3-methylguanine, 7-methylguanine, O2-methylthymine, and O2-methylcytosine from the damaged DNA polymer formed by alkylation lesions (By similarity); In the C-terminal sect [...] (496 aa)
priAPutative primosomal protein N' PriA (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. (655 aa)
uvrCProbable excinuclease ABC (subunit C-nuclease) UvrC; 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. (646 aa)
dinXProbable DNA polymerase IV DinX (pol IV 1) (DNA nucleotidyltransferase (DNA-directed)); 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 (By similarity). (463 aa)
dnaE1Probable DNA polymerase III (alpha chain) DnaE1 (DNA nucleotidyltransferase); 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. The alpha chain is the DNA polymerase (By similarity); Belongs to the DNA polymerase type-C family. DnaE subfamily. (1184 aa)
uvrBProbable excinuclease ABC (subunit B-helicase) UvrB; 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 [...] (698 aa)
uvrAProbable excinuclease ABC (subunit A-DNA-binding ATPase) UvrA; 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. Alone it slightly inhibits RecA-mediated DNA strand exchange, in concert with UvrD1 greatly inhibits RecA-mediated DNA strand exchange. Belongs to the ABC transporter superfamily. UvrA family. (972 aa)
Rv2119Rv2119, (MTCY261.15), len: 278 aa. Conserved hypothetical protein, similar to many. (278 aa)
Rv2191Rv2191, (MTCY190.02), len: 645 aa. Conserved hypothetical protein, similar to SW:DP3A_B ACSU P13267 DNA polymerase III, alpha chain (31.3% identity in 249 aa overlap) and SW:UVRC_ECOLI P07028 excinuclease ABC subunit C (25.7% identity in 230 aa overlap). Also similar to M. tuberculosis Rv3711c (dnaQ DNA polymerase III e chain) and Rv1420 (uvrC excinuclease ABC subunit C). (645 aa)
dnaGProbable DNA primase DnaG; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. Belongs to the DnaG primase family. (639 aa)
recOPossible DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (265 aa)
Rv2413cRv2413c, (MTCY253.07), len: 316 aa. Conserved hypothetical protein, highly similar to O33133|MLCL536.07c|ML0603|Q49756|G466975|B1937_F2_36 hypothetical 39.1 KDA protein from Mycobacterium leprae (389 aa), FASTA scores: opt: 1683, E(): 1.8e-88, (83.9% identity in 316 aa overlap). ML0603 is a putative lipoprotein with an N-terminal signal sequence and appropriately positioned prokaryotic lipoprotein lipid attachment site that is not present in Rv2413c as this seems to be 73 aa shorter. Also some similarity with various proteins from other organisms e.g. Q9RDM2|SCC123.02c putative DNA-bin [...] (316 aa)
Rv2478cRv2478c, (MTV008.34c), len: 161 aa. Conserved hypothetical protein, with weak similarity with many single-strand binding proteins e.g. Q9X8U3|SCH24.29 putative single-strand binding protein from Streptomyces coelicolor (199 aa), FASTA scores: opt: 246, E(): 4.5e-08,(31.5% identity in 162 aa overlap); P46390|SSB_MYCLE|ML2684|MLCB1913.20c single-strand binding protein (SSB) (helix-destabilizing protein) from Mycobacterium leprae (168 aa), FASTA scores: opt: 239, E(): 1e-07, (30.8% identity in 146 aa overlap); P18310|SSBF_ECOLI single-strand binding protein from Escherichia coli (178 aa), [...] (161 aa)
ruvBProbable holliday 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. (344 aa)
ruvAProbable holliday 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. (196 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 (By similarity). (188 aa)
lexARepressor LexA; Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. Has been shown to bind to the 14 bp palindromic sequence 5'-CGAACNNNNGTTCG-3'. 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. (236 aa)
Rv2734Rv2734, (MTCY154.14), len: 284 aa. Conserved hypothetical protein, highly similar to various proteins e.g. Q984J2|MLR7981 ABC transporter ATP-binding protein from Rhizobium loti (Mesorhizobium loti) (286 aa), FASTA scores: opt: 877, E(): 9e-50, (52.45% identity in 246 aa overlap) (N-terminus longer); Q98DH1|MLL4707 hypothetical protein from Rhizobium loti (Mesorhizobium loti) (249 aa),FASTA scores: opt: 829, E(): 1.1e-46, (50.4% identity in 244 aa overlap); AAK65865|SMA2239 conserved hypothetical protein from Rhizobium meliloti (Sinorhizobium meliloti) (259 aa), FASTA scores: opt: 796, [...] (284 aa)
Rv2735cRv2735c, (MTCY154.15c), len: 330 aa. Conserved hypothetical protein, showing some similarity with Q98DH2|MLR4706 hypothetical protein from Rhizobium loti (Mesorhizobium loti) (302 aa), FASTA scores: opt: 140, E(): 0.062, (27.0% identity in 200 aa overlap); and Q9PHA1|XF0043 hypothetical protein from Xylella fastidiosa (293 aa), FASTA scores: opt: 120, E(): 1.2, (30.75% identity in 117 aa overlap). This region is a possible MT-complex-specific genomic island (See Becq et al.,2007). (330 aa)
recXRegulatory protein RecX; Binds to RecA inhibiting ATP hydrolysis and the generation of heteroduplex DNA. It might act as an anti-recombinase to quell inappropriate recombinational repair during normal DNA metabolism. It is essential for cell survival; Belongs to the RecX family. (174 aa)
Rv2737ARv2737A, len: 57 aa. Conserved hypothetical cys-rich protein (possibly gene fragment), similar to central part of AJ243803_1|glgA from Streptomyces coelicolor glgA (181 aa), FASTA scores: opt: 210, E(): 6.1e-09, (59.25% identity in 54 aa overlap). (57 aa)
recARecA protein (recombinase A) [contains: endonuclease PI-MTUI (MTU RecA intein)]; 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. (790 aa)
uvrD2Probable ATP-dependent DNA helicase II UvrD2; DNA-dependent ATPase, stimulated equally by ss- and dsDNA. Has both ATPase and helicase activities, and translocates along ssDNA displacing bound streptavidin. Its essentiality for growth does not depend on its helicase activity. (700 aa)
Rv3200cRv3200c, (MTV014.44c), len: 355 aa. Possible transmembrane cation transporter, similar to many transmembrane proteins and putative potassium channels e.g. Q9XA52|SCGD3.27C putative membrane protein from Streptomyces coelicolor (365 aa), FASTA scores: opt: 1022,E(): 2.6e-53, (49.85% identity in 325 aa overlap); Q9RRZ3|DR2336 putative potassium channel from Deinococcus radiodurans (320 aa), FASTA scores: opt: 436, E(): 1e-18,(30.9% identity in 304 aa overlap); O28600|AF1673 putative potassium channel from Archaeoglobus fulgidus (314 aa),FASTA scores: opt: 363, E(): 2.1e-14, (27.2% identi [...] (355 aa)
Rv3201cRv3201c, (MTV014.45c), len: 1101 aa. Probable ATP-dependent DNA helicase, similar to others e.g. Q9FCK4|2SC3B6.08 from Streptomyces coelicolor (1222 aa),FASTA scores: opt: 1209, E(): 5.4e-63, (38.45% identity in 1199 aa overlap); P71561|PCRA_MYCTU|CRA|IVRD|Rv0949|MT0976|MTCY10D7.25c from Mycobacterium tuberculosis (771 aa), FASTA scores: opt: 403, E(): 6.5e-16, (28.15% identity in 717 aa overlap); Q9FCK5|2SC3B6.07 from Streptomyces coelicolor (1159 aa),FASTA scores: opt: 349, E(): 1.3e-12, (29.2% identity in 1144 aa overlap); Q9L3M1|UVRD from Prochlorococcus sp. (512 aa; fragment), FAS [...] (1101 aa)
Rv3202cPossible ATP-dependent DNA helicase; Rv3202c, (MTCY07D11.24, MTV014.46c), len: 1055 aa. Possible ATP-dependent DNA helicase, showing some similarity to UvrD proteins e.g. Q9FCK5|2SC3B6.07 putative ATP-dependent DNA helicase from Streptomyces coelicolor (1159 aa), FASTA scores: opt: 666, E(): 1e-29, (34.5% identity in 1154 aa overlap); Q9L7T3|UVRD|PA5443 mismatch repair protein MUTU (DNA helicase II) from Pseudomonas aeruginosa (728 aa), FASTA scores: opt: 239, E(): 7.3e-06,(23.8% identity in 677 aa overlap) (no similarity in C-terminal part for this one); etc. C-terminal region similar [...] (1055 aa)
Rv3644cPossible DNA polymerase; Rv3644c, (MTCY15C10.08), len: 401 aa. Possible DNA polymerase, equivalent to O69546|MLCB2548.29c|ML0202 hypothetical 42.7 KDA protein from Mycobacterium leprae (405 aa), FASTA scores: opt: 2180, E(): 6.1e-116, (84.4% identity in 404 aa overlap). Similar (in totality or in first 200 aa) to DNA polymerases III, delta' or gamma subunit, e.g. Q9X906|SCH5.03c putative DNA polymerase from Streptomyces coelicolor (401 aa), FASTA scores: opt: 1022,E(): 1.5e-50, (47.05% identity in 404 aa overlap); Q9RRS5|DR2410 DNA polymerase III, tau/gamma subunit from Deinococcus rad [...] (401 aa)
dnaQRv3711c, (MTV025.059c), len: 329 aa. Probable dnaQ,DNA polymerase III, epsilon subunit, similar to many e.g. Q9RJ41|SCI8.12 from Streptomyces coelicolor (328 aa), FASTA scores: opt: 509, E(): 4.2e-25, (41.6% identity in 315 aa overlap); Q9JYS6|NMB1451 from Neisseria meningitidis (serogroup B) (and Q9JTR5|MA1665 from serogroup A) (470 aa), FASTA scores: opt: 247, E(): 2.6e-08, (33.15% identity in 172 aa overlap); O83649|DP3E_TREPA|DNAQ|TP0643 from Treponema pallidum (215 aa), FASTA scores: opt: 240, E(): 3.7e-08, (29.65% identity in 162 aa overlap); P03007|DP3E_ECOLI|MUTD|B0215 from Esc [...] (329 aa)
recRProbable recombination 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. (203 aa)
dnaZXDNA polymerase III (subunit gamma/tau) DnaZ/X; 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; Belongs to the DnaX/STICHEL family. (578 aa)
Your Current Organism:
Mycobacterium tuberculosis H37Rv
NCBI taxonomy Id: 83332
Other names: M. tuberculosis H37Rv, Mycobacterium sp. H37Rv, Mycobacterium tuberculosis str. H37Rv, Mycobacterium tuberculosis strain H37Rv
Server load: low (14%) [HD]
STRING is a Core Data Resource as designated by Global Biodata Coalition and ELIXIR.