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Celf_0002 Celf_0002 recF recF gyrB gyrB gyrA gyrA Celf_0053 Celf_0053 Celf_0145 Celf_0145 Celf_0288 Celf_0288 Celf_0419 Celf_0419 topA topA Celf_0483 Celf_0483 Celf_0509 Celf_0509 Celf_0535 Celf_0535 Celf_0800 Celf_0800 Celf_1074 Celf_1074 Celf_1107 Celf_1107 Celf_1138 Celf_1138 Celf_1171 Celf_1171 Celf_1185 Celf_1185 recA recA recX recX lexA lexA Celf_1627 Celf_1627 lig lig polA polA uvrB uvrB uvrA uvrA uvrC uvrC Celf_1917 Celf_1917 ku ku Celf_1919 Celf_1919 Celf_1928 Celf_1928 ruvB ruvB ruvA ruvA ruvC ruvC Celf_2108 Celf_2108 Celf_2157 Celf_2157 Celf_2160 Celf_2160 Celf_2178 Celf_2178 dnaG dnaG recO recO Celf_2369 Celf_2369 Celf_2588 Celf_2588 dinB-2 dinB-2 ligA ligA xseA xseA xseB xseB mfd mfd Celf_3261 Celf_3261 nth nth Celf_3388 Celf_3388 recR recR Celf_3419 Celf_3419 radA radA Celf_3528 Celf_3528 Celf_3709 Celf_3709 sbcD sbcD
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query proteins and first shell of interactors
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second shell of interactors
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proteins of unknown 3D structure
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a 3D structure is known or predicted
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Celf_0002DNA polymerase III, beta subunit; 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 [...] (376 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. (423 aa)
gyrBDNA gyrase, B subunit; 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. (682 aa)
gyrADNA gyrase, A subunit; 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. (870 aa)
Celf_0053Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (459 aa)
Celf_0145TIGRFAM: ATP-dependent DNA helicase, RecQ family; PFAM: DEAD/DEAH box helicase domain protein; helicase domain protein; KEGG: ATP-dependent DNA helicase, RecQ family; SMART: DEAD-like helicase; helicase domain protein. (540 aa)
Celf_0288PFAM: ABC transporter related; KEGG: aau:AAur_2199 putative excinuclease ABC, A subunit. (797 aa)
Celf_0419Regulatory protein MerR; KEGG: transcriptional regulator, MerR family; PFAM: regulatory protein MerR; DNA polymerase III beta chain; SMART: regulatory protein MerR. (327 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 [...] (916 aa)
Celf_0483SMART: AAA ATPase; KEGG: DNA polymerase III, delta prime subunit. (378 aa)
Celf_0509KEGG: DNA polymerase LigD, polymerase domain protein; TIGRFAM: DNA polymerase LigD, polymerase domain protein; PFAM: DNA primase small subunit. (356 aa)
Celf_0535KEGG: 5'-3' exonuclease, N-terminal resolvase-like domain protein; PFAM: 5'-3' exonuclease, N-terminal resolvase-like domain; 5'-3' exonuclease, SAM-fold domain; SMART: 5'-3' exonuclease; Helix-hairpin-helix domain protein class 2. (318 aa)
Celf_0800KEGG: svi:Svir_34920 DNA ligase D/DNA polymerase LigD; TIGRFAM: DNA polymerase LigD, ligase domain protein; DNA ligase D, 3'-phosphoesterase domain protein; PFAM: ATP dependent DNA ligase; ATP dependent DNA ligase domain protein. (491 aa)
Celf_1074KEGG: DNA polymerase III epsilon subunit-like 3'-5' exonuclease; PFAM: Exonuclease RNase T and DNA polymerase III; SMART: Exonuclease. (239 aa)
Celf_1107KEGG: ATP-dependent DNA helicase PcrA; TIGRFAM: ATP-dependent DNA helicase PcrA; PFAM: UvrD/REP helicase. (852 aa)
Celf_1138KEGG: exodeoxyribonuclease III Xth; TIGRFAM: exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase. (277 aa)
Celf_1171KEGG: UvrD/REP helicase; PFAM: UvrD/REP helicase; HRDC domain protein; SMART: HRDC domain protein. (686 aa)
Celf_1185PFAM: DNA primase small subunit; KEGG: DNA ligase D, 3'-phosphoesterase domain 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. (346 aa)
recXRegulatory protein RecX; Modulates RecA activity; Belongs to the RecX family. (190 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. (253 aa)
Celf_1627DNA polymerase III, alpha subunit; SMART: phosphoesterase PHP domain protein; TIGRFAM: DNA polymerase III, alpha subunit; KEGG: DNA polymerase III, alpha subunit; PFAM: DNA polymerase III alpha subunit; PHP domain protein; nucleic acid binding OB-fold tRNA/helicase-type. (1179 aa)
ligDNA ligase I, ATP-dependent Dnl1; DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. (510 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. (915 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 [...] (701 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. (951 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. (698 aa)
Celf_1917KEGG: xce:Xcel_2233 DNA polymerase LigD, polymerase domain protein; TIGRFAM: DNA polymerase LigD, polymerase domain protein; PFAM: DNA primase small subunit. (293 aa)
kuKu protein; With LigD forms a non-homologous end joining (NHEJ) DNA repair enzyme, which repairs dsDNA breaks with reduced fidelity. Binds linear dsDNA with 5'- and 3'- overhangs but not closed circular dsDNA nor ssDNA. Recruits and stimulates the ligase activity of LigD. Belongs to the prokaryotic Ku family. (351 aa)
Celf_1919KEGG: PHP domain protein; PFAM: PHP domain protein; SMART: phosphoesterase PHP domain protein. (362 aa)
Celf_1928KEGG: DEAD/DEAH box helicase domain protein; PFAM: DEAD/DEAH box helicase domain protein; helicase domain protein; DbpA RNA-binding domain protein; SMART: DEAD-like helicase; helicase domain protein; Belongs to the DEAD box helicase family. (596 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. (355 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. (204 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. (188 aa)
Celf_2108KEGG: apurinic endonuclease Apn1; PFAM: Xylose isomerase domain-containing protein TIM barrel; SMART: AP endonuclease family 2. (253 aa)
Celf_2157PFAM: DNA gyrase/topoisomerase IV subunit A; DNA gyrase repeat beta-propeller; KEGG: DNA topoisomerase (ATP-hydrolyzing); SMART: DNA gyrase/topoisomerase IV subunit A. (824 aa)
Celf_2160PFAM: DNA gyrase subunit B domain protein; DNA topoisomerase type IIA subunit B region 2 domain protein; ATP-binding region ATPase domain protein; TOPRIM domain-containing protein; KEGG: DNA topoisomerase (ATP-hydrolyzing); SMART: DNA topoisomerase II; ATP-binding region ATPase domain protein. (712 aa)
Celf_2178DNA polymerase III, epsilon subunit; SMART: Exonuclease; Excinuclease ABC C subunit domain protein; TIGRFAM: DNA polymerase III, epsilon subunit; KEGG: DNA polymerase III, epsilon subunit; PFAM: Exonuclease RNase T and DNA polymerase III; Excinuclease ABC C subunit domain protein. (620 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (672 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (243 aa)
Celf_2369KEGG: DNA polymerase III, delta subunit; TIGRFAM: DNA polymerase III, delta subunit; PFAM: DNA polymerase III delta. (338 aa)
Celf_2588PFAM: ATP dependent DNA ligase; ATP dependent DNA ligase domain protein; KEGG: ATP dependent DNA ligase. (353 aa)
dinB-2DNA-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. (409 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. (834 aa)
xseAExodeoxyribonuclease VII, large subunit; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseA family. (415 aa)
xseBExodeoxyribonuclease VII, small subunit; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseB family. (101 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. (1222 aa)
Celf_3261TIGRFAM: ATP-dependent DNA helicase RecQ; ATP-dependent DNA helicase, RecQ family; PFAM: RQC domain; DEAD/DEAH box helicase domain protein; helicase domain protein; HRDC domain protein; KEGG: ATP-dependent DNA helicase RecQ; SMART: DEAD-like helicase; helicase domain protein; HRDC domain protein. (693 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. (231 aa)
Celf_3388KEGG: hypothetical protein. (137 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)
Celf_3419TIGRFAM: DNA polymerase III, subunits gamma and tau; PFAM: AAA ATPase central domain protein; KEGG: DNA polymerase III, subunits gamma and tau; SMART: AAA ATPase. (901 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. (475 aa)
Celf_3528KEGG: exodeoxyribonuclease III Xth; TIGRFAM: exodeoxyribonuclease III Xth; PFAM: Endonuclease/exonuclease/phosphatase. (263 aa)
Celf_3709KEGG: putative exonuclease. (1044 aa)
sbcDNuclease SbcCD, D subunit; SbcCD cleaves DNA hairpin structures. These structures can inhibit DNA replication and are intermediates in certain DNA recombination reactions. The complex acts as a 3'->5' double strand exonuclease that can open hairpins. It also has a 5' single-strand endonuclease activity; Belongs to the SbcD family. (405 aa)
Your Current Organism:
Cellulomonas fimi
NCBI taxonomy Id: 590998
Other names: C. fimi ATCC 484, Cellulomonas fimi ATCC 484, Cellulomonas fimi DSM 20113, Cellulomonas fimi str. ATCC 484, Cellulomonas fimi strain ATCC 484
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