STRINGSTRING
Rcas_0361 Rcas_0361 Rcas_0055 Rcas_0055 mutS2 mutS2 mutL mutL Rcas_0248 Rcas_0248 ruvC ruvC ligA ligA lexA lexA Rcas_1107 Rcas_1107 ruvA ruvA Rcas_1325 Rcas_1325 Rcas_1387 Rcas_1387 Rcas_1443 Rcas_1443 mfd mfd polA polA recO recO Rcas_1691 Rcas_1691 radA radA Rcas_2083 Rcas_2083 Rcas_2141 Rcas_2141 Rcas_2166 Rcas_2166 recF recF recR recR Rcas_2319 Rcas_2319 nfi nfi Rcas_2728 Rcas_2728 nth nth Rcas_2917 Rcas_2917 recA recA uvrC uvrC Rcas_2984 Rcas_2984 ruvB ruvB Rcas_3332 Rcas_3332 Rcas_3401 Rcas_3401 Rcas_3449 Rcas_3449 uvrB uvrB mutS mutS mutM mutM Rcas_3931 Rcas_3931 Rcas_4076 Rcas_4076 Rcas_4237 Rcas_4237 Rcas_4244 Rcas_4244 Rcas_4251 Rcas_4251 Rcas_4312 Rcas_4312 Rcas_4389 Rcas_4389 uvrA-2 uvrA-2 Rcas_0511 Rcas_0511 nfo nfo uvrA uvrA recG recG Rcas_0692 Rcas_0692
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:
Rcas_0361DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (601 aa)
Rcas_0055PFAM: Radical SAM domain protein; KEGG: rrs:RoseRS_3317 radical SAM domain protein. (355 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. (826 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. (605 aa)
Rcas_0248PFAM: Uracil-DNA glycosylase superfamily; KEGG: rrs:RoseRS_0318 uracil-DNA glycosylase superfamily. (192 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. (168 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. (718 aa)
lexASOS-response transcriptional repressor, LexA; 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. (218 aa)
Rcas_1107SMART: AAA ATPase; KEGG: mhu:Mhun_2627 hypothetical protein. (571 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)
Rcas_1325TIGRFAM: methylated-DNA--protein-cysteine methyltransferase; PFAM: methylguanine DNA methyltransferase ribonuclease domain protein; Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding; KEGG: rrs:RoseRS_3679 methylated-DNA--protein-cysteine methyltransferase. (175 aa)
Rcas_1387DNA mismatch endonuclease vsr; May nick specific sequences that contain T:G mispairs resulting from m5C-deamination. (136 aa)
Rcas_1443KEGG: rrs:RoseRS_2176 hypothetical protein. (810 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. (1246 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. (972 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (266 aa)
Rcas_1691TIGRFAM: competence protein ComEA helix-hairpin-helix repeat protein; KEGG: rrs:RoseRS_1429 helix-hairpin-helix motif. (222 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. (464 aa)
Rcas_2083KEGG: rrs:RoseRS_1491 hypothetical protein. (403 aa)
Rcas_2141PFAM: protein of unknown function DUF1006; KEGG: rrs:RoseRS_3033 protein of unknown function DUF1006. (406 aa)
Rcas_2166PFAM: Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB; KEGG: rrs:RoseRS_1467 radical SAM domain protein. (386 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. (394 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. (205 aa)
Rcas_2319KEGG: rrs:RoseRS_1694 UV damage repair endonuclease-like protein. (312 aa)
nfiDeoxyribonuclease V; DNA repair enzyme involved in the repair of deaminated bases. Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA. (222 aa)
Rcas_2728KEGG: rrs:RoseRS_4066 hypothetical protein. (157 aa)
nthDNA-(apurinic or apyrimidinic site) lyase; 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. (219 aa)
Rcas_2917HhH-GPD family protein; PFAM: helix-hairpin-helix motif; HhH-GPD family protein; KEGG: rrs:RoseRS_3189 HhH-GPD family protein. (317 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. (353 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. (665 aa)
Rcas_2984Helicase superfamily 1 and 2 ATP-binding; PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; Helicase superfamily 1 and 2 ATP-binding; SMART: DEAD-like helicases; KEGG: rrs:RoseRS_2921 DEAD/DEAH box helicase domain protein. (862 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. (347 aa)
Rcas_3332PFAM: HhH-GPD family protein; KEGG: rrs:RoseRS_1010 HhH-GPD family protein. (297 aa)
Rcas_3401Hypothetical protein. (95 aa)
Rcas_3449PFAM: ATP dependent DNA ligase domain protein; ATP dependent DNA ligase; KEGG: rrs:RoseRS_1583 ATP dependent DNA ligase. (544 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 [...] (670 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. (1088 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. (283 aa)
Rcas_3931TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase RecJ domain protein; phosphoesterase DHHA1; KEGG: rrs:RoseRS_2008 single-stranded-DNA-specific exonuclease RecJ. (572 aa)
Rcas_4076TIGRFAM: phage SPO1 DNA polymerase-related protein; PFAM: Uracil-DNA glycosylase superfamily; KEGG: rrs:RoseRS_0873 phage SPO1 DNA polymerase-related protein. (212 aa)
Rcas_4237KEGG: aav:Aave_0765 hypothetical protein. (370 aa)
Rcas_4244KEGG: rrs:RoseRS_2592 hypothetical protein. (538 aa)
Rcas_4251PFAM: deoxyribodipyrimidine photolyase-related protein; KEGG: rrs:RoseRS_0009 deoxyribodipyrimidine photolyase-related protein. (508 aa)
Rcas_4312KEGG: rrs:RoseRS_4066 hypothetical protein. (163 aa)
Rcas_4389PFAM: Radical SAM domain protein; SMART: Elongator protein 3/MiaB/NifB; KEGG: rrs:RoseRS_3729 radical SAM domain protein. (393 aa)
uvrA-2Excinuclease 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. (1043 aa)
Rcas_0511PFAM: Methylated-DNA-[protein]-cysteine S-methyltransferase DNA binding; KEGG: rrs:RoseRS_3624 methylated-DNA-(protein)-cysteine S-methyltransferase. (104 aa)
nfoApurinic endonuclease Apn1; Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin. (289 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. (976 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. (842 aa)
Rcas_0692KEGG: nwi:Nwi_1955 hypothetical protein. (380 aa)
Your Current Organism:
Roseiflexus castenholzii
NCBI taxonomy Id: 383372
Other names: R. castenholzii DSM 13941, Roseiflexus castenholzii DSM 13941, Roseiflexus castenholzii HLO8, Roseiflexus castenholzii str. DSM 13941, Roseiflexus castenholzii strain DSM 13941
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