STRINGSTRING
recD2 recD2 ruvC ruvC ruvA ruvA ruvB ruvB Cthe_0247 Cthe_0247 Cthe_0261 Cthe_0261 uvrB uvrB uvrA uvrA Cthe_0329 Cthe_0329 Cthe_0406 Cthe_0406 Cthe_0407 Cthe_0407 Cthe_0458 Cthe_0458 Cthe_0772 Cthe_0772 lexA lexA mutL mutL mutS mutS Cthe_0814 Cthe_0814 polA polA mutS2 mutS2 ligA ligA recA recA recO recO Cthe_1123 Cthe_1123 Cthe_1191 Cthe_1191 Cthe_1230 Cthe_1230 recG recG nth nth Cthe_1346 Cthe_1346 Cthe_1486 Cthe_1486 Cthe_1554 Cthe_1554 Cthe_1646 Cthe_1646 Cthe_1648 Cthe_1648 Cthe_1650 Cthe_1650 Cthe_1738 Cthe_1738 Cthe_1747 Cthe_1747 disA disA radA radA Cthe_1854 Cthe_1854 Cthe_1958 Cthe_1958 addA addA addB addB Cthe_2068 Cthe_2068 dinB dinB Cthe_2132 Cthe_2132 recR recR Cthe_2208 Cthe_2208 Cthe_2315 Cthe_2315 recF recF mfd mfd uvrC uvrC Cthe_2752 Cthe_2752 Cthe_3108 Cthe_3108 Cthe_3109 Cthe_3109 recD2-2 recD2-2
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:
recD2Helicase, RecD/TraA family; DNA-dependent ATPase and ATP-dependent 5'-3' DNA helicase. Has no activity on blunt DNA or DNA with 3'-overhangs, requires at least 10 bases of 5'-ssDNA for helicase activity; Belongs to the RecD family. RecD-like subfamily. (746 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. (162 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. (202 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. (330 aa)
Cthe_0247KEGG: swo:Swol_2027 MutS-like mismatch repair protein, ATPase; PFAM: DNA mismatch repair protein MutS domain protein; SMART: DNA mismatch repair protein MutS domain protein. (601 aa)
Cthe_0261TIGRFAM: HAD-superfamily hydrolase, subfamily IA, variant 1; KEGG: bfs:BF0931 putative haloacid dehalogenase-like hydrolase; PFAM: Haloacid dehalogenase domain protein hydrolase. (217 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 [...] (660 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. (942 aa)
Cthe_0329PFAM: Domain of unknown function DUF1848; KEGG: cbb:CLD_2592 hypothetical protein. (278 aa)
Cthe_0406KEGG: hmo:HM1_0506 hypothetical protein. (245 aa)
Cthe_0407KEGG: aoe:Clos_0640 radical SAM domain-containing protein. (435 aa)
Cthe_0458TIGRFAM: exodeoxyribonuclease III Xth; exodeoxyribonuclease III; KEGG: aoe:Clos_2318 exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase. (251 aa)
Cthe_0772PFAM: Peptidoglycan-binding lysin domain; KEGG: cce:Ccel_1692 peptidoglycan-binding LysM. (95 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. (213 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. (755 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. (870 aa)
Cthe_0814DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (570 aa)
polADNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity. (894 aa)
mutS2MutS2 family protein; 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. (793 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. (663 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. (349 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (251 aa)
Cthe_1123PFAM: Domain of unknown function DUF1848; KEGG: cbb:CLD_2592 hypothetical protein. (278 aa)
Cthe_1191KEGG: amt:Amet_2940 HAD family hydrolase; TIGRFAM: HAD-superfamily hydrolase, subfamily IA, variant 1; PFAM: Haloacid dehalogenase domain protein hydrolase. (214 aa)
Cthe_1230TIGRFAM: competence protein ComEA helix-hairpin-helix repeat protein; PFAM: Soluble ligand binding domain; helix-hairpin-helix motif; KEGG: cce:Ccel_1371 competence protein ComEA helix-hairpin-helix repeat protein; SMART: Helix-hairpin-helix DNA-binding class 1. (296 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. (694 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. (213 aa)
Cthe_1346KEGG: amt:Amet_2351 single-stranded-DNA-specific exonuclease RecJ; TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1. (827 aa)
Cthe_1486PFAM: NUDIX hydrolase; KEGG: dhd:Dhaf_2293 mutator MutT protein. (131 aa)
Cthe_1554KEGG: afn:Acfer_0164 methylated-DNA/protein-cysteinemethyltransferase; TIGRFAM: methylated-DNA/protein-cysteine methyltransferase; PFAM: Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding. (175 aa)
Cthe_1646PFAM: VRR-NUC domain-containing protein; KEGG: hmo:HM1_2894 hypothetical protein. (100 aa)
Cthe_1648KEGG: hmo:HM1_2897 hypothetical protein. (141 aa)
Cthe_1650PFAM: DNA-directed DNA polymerase; 3'-5' exonuclease; KEGG: hmo:HM1_2898 DNA polymerase I; SMART: DNA-directed DNA polymerase; 3'-5' exonuclease. (640 aa)
Cthe_1738PFAM: VRR-NUC domain-containing protein; KEGG: lsl:LSL_0755 hypothetical protein. (121 aa)
Cthe_1747DNA mismatch endonuclease Vsr; May nick specific sequences that contain T:G mispairs resulting from m5C-deamination. (138 aa)
disADNA integrity scanning, DisA, linker region; Participates in a DNA-damage check-point that is active prior to asymmetric division when DNA is damaged. DisA forms globular foci that rapidly scan along the chromosomes during sporulation, searching for lesions. When a lesion is present, DisA pauses at the lesion site. This triggers a cellular response that culminates in a temporary block in sporulation initiation. (360 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. (454 aa)
Cthe_1854KEGG: apv:Apar_0739 methylated-DNA/protein-cysteinemethyltransferase; TIGRFAM: methylated-DNA/protein-cysteine methyltransferase; PFAM: Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding. (106 aa)
Cthe_1958KEGG: cce:Ccel_0352 UV-endonuclease UvdE; TIGRFAM: UV-endonuclease UvdE; PFAM: UV-endonuclease UvdE. (321 aa)
addARecombination helicase AddA; The heterodimer acts as both an ATP-dependent DNA helicase and an ATP-dependent, dual-direction single-stranded exonuclease. Recognizes the chi site generating a DNA molecule suitable for the initiation of homologous recombination. The AddA nuclease domain is required for chi fragment generation; this subunit has the helicase and 3' -> 5' nuclease activities; Belongs to the helicase family. AddA subfamily. (1251 aa)
addBATP-dependent nuclease subunit B; The heterodimer acts as both an ATP-dependent DNA helicase and an ATP-dependent, dual-direction single-stranded exonuclease. Recognizes the chi site generating a DNA molecule suitable for the initiation of homologous recombination. The AddB nuclease domain is not required for chi fragment generation; this subunit has 5' -> 3' nuclease activity. (1146 aa)
Cthe_2068DNA-(apurinic or apyrimidinic site) lyase; PFAM: 8-oxoguanine DNA glycosylase domain-containing protein; KEGG: cce:Ccel_3329 8-oxoguanine DNA glycosylase domain protein; SMART: HhH-GPD family protein. (295 aa)
dinBDNA-directed DNA polymerase; 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)
Cthe_2132Hypothetical protein; KEGG: amt:Amet_0237 abortive infection protein, putative. (432 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. (199 aa)
Cthe_2208Transcriptional repressor, LexA family; PFAM: LexA DNA-binding domain protein; KEGG: cac:CAC1832 LexA repressor. (195 aa)
Cthe_2315DNA mismatch endonuclease Vsr; May nick specific sequences that contain T:G mispairs resulting from m5C-deamination. (144 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. (369 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. (1178 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. (625 aa)
Cthe_2752SMART: beta-lactamase domain protein; KEGG: ctc:CTC01364 hypothetical protein. (443 aa)
Cthe_3108KEGG: cce:Ccel_2416 phage SPO1 DNA polymerase-related protein; TIGRFAM: phage SPO1 DNA polymerase-related protein; PFAM: Uracil-DNA glycosylase superfamily. (189 aa)
Cthe_3109PFAM: Uracil-DNA glycosylase superfamily; KEGG: cce:Ccel_2415 uracil-DNA glycosylase superfamily. (192 aa)
recD2-2Helicase, RecD/TraA family; DNA-dependent ATPase and ATP-dependent 5'-3' DNA helicase. Has no activity on blunt DNA or DNA with 3'-overhangs, requires at least 10 bases of 5'-ssDNA for helicase activity; Belongs to the RecD family. RecD-like subfamily. (710 aa)
Your Current Organism:
Hungateiclostridium thermocellum
NCBI taxonomy Id: 203119
Other names: Clostridium thermocellum ATCC 27405, H. thermocellum ATCC 27405, Hungateiclostridium thermocellum ATCC 27405, Ruminiclostridium thermocellum ATCC 27405
Server load: low (18%) [HD]
STRING is a Core Data Resource as designated by Global Biodata Coalition and ELIXIR.