STRINGSTRING
APR51845.1 APR51845.1 APR55170.1 APR55170.1 ligA-2 ligA-2 uvrB uvrB mutS mutS APR53933.1 APR53933.1 APR53929.1 APR53929.1 APR53927.1 APR53927.1 ku ku APR53769.1 APR53769.1 APR55077.1 APR55077.1 APR53464.1 APR53464.1 recA recA mutL mutL recR recR uvrA uvrA radA radA ruvB ruvB ruvA ruvA ruvC ruvC lexA lexA mfd mfd APR52659.1 APR52659.1 APR54893.1 APR54893.1 APR52098.1 APR52098.1 APR52013.1 APR52013.1 APR51970.1 APR51970.1 APR51950.1 APR51950.1 APR51922.1 APR51922.1 nth nth ung ung APR51846.1 APR51846.1 APR51842.1 APR51842.1 APR54801.1 APR54801.1 APR51706.1 APR51706.1 polA polA APR51671.1 APR51671.1 APR51625.1 APR51625.1 APR54772.1 APR54772.1 recF recF APR54573.1 APR54573.1 uvrC uvrC recO recO apaG apaG APR54274.1 APR54274.1 APR54263.1 APR54263.1 APR54221.1 APR54221.1 mutM mutM
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:
APR51845.1Protein ImuB; Derived by automated computational analysis using gene prediction method: Protein Homology. (510 aa)
APR55170.1NTP pyrophosphohydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the Nudix hydrolase family. (145 aa)
ligA-2DNA ligase (NAD(+)) LigA; 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. (710 aa)
uvrBExcinuclease ABC subunit 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 [...] (729 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. (865 aa)
APR53933.1ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology. (522 aa)
APR53929.1Putative DNA modification/repair radical SAM protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (412 aa)
APR53927.1ATP-dependent DNA ligase; Derived by automated computational analysis using gene prediction method: Protein Homology. (838 aa)
kuHypothetical 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. (295 aa)
APR53769.1Double-strand break repair helicase AddA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the helicase family. UvrD subfamily. (1132 aa)
APR55077.1Radical SAM protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (356 aa)
APR53464.1DNA-3-methyladenine glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (185 aa)
recARecombinase RecA; 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)
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. (594 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. (198 aa)
uvrAExcinuclease ABC subunit A; 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. (1000 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. (455 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. (342 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. (199 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. (161 aa)
lexARepressor 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. (228 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. (1157 aa)
APR52659.1DNA repair protein RecN; May be involved in recombinational repair of damaged DNA. (553 aa)
APR54893.1Bifunctional transcriptional activator/DNA repair enzyme protein Ada; Regulates genes involved in the repair of alkylated DNA; repairs DNA containing 6-O-methylguanine; Derived by automated computational analysis using gene prediction method: Protein Homology. (344 aa)
APR52098.1Type 1 glutamine amidotransferase domain-containing protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (264 aa)
APR52013.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (202 aa)
APR51970.1DNA glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (207 aa)
APR51950.1Cysteine 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. (159 aa)
APR51922.1Cytoplasmic protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (392 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. (220 aa)
unguracil-DNA glycosylase; Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine. (254 aa)
APR51846.1Protein ImuA; Derived by automated computational analysis using gene prediction method: Protein Homology. (248 aa)
APR51842.1Cysteine methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (188 aa)
APR54801.1A/G-specific adenine glycosylase; Adenine glycosylase active on G-A mispairs. (337 aa)
APR51706.1ATP-dependent DNA helicase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology. (589 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. (921 aa)
APR51671.1Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology. (261 aa)
APR51625.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (297 aa)
APR54772.1uracil-DNA glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (218 aa)
recFDNA replication/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. (353 aa)
APR54573.1single-stranded-DNA-specific exonuclease RecJ; Derived by automated computational analysis using gene prediction method: Protein Homology. (584 aa)
uvrCExcinuclease ABC subunit C; 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. (638 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (243 aa)
apaGCo2+/Mg2+ efflux protein ApaG; Derived by automated computational analysis using gene prediction method: Protein Homology. (132 aa)
APR54274.1Type VI secretion protein ImpB; Derived by automated computational analysis using gene prediction method: Protein Homology. (434 aa)
APR54263.1DNA-deoxyinosine glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (167 aa)
APR54221.1Exodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology. (257 aa)
mutMDNA-formamidopyrimidine 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. (271 aa)
Your Current Organism:
Sphingomonas koreensis
NCBI taxonomy Id: 93064
Other names: DSM 15582, IFO 16723, JCM 11456, KCCM 41069, KCTC 2882, NBRC 16723, S. koreensis, Sphingomonas koreensis Lee et al. 2001, Sphingomonas sp. ABOJT, Sphingomonas sp. ABOJU, Sphingomonas sp. ABOJV, Sphingomonas sp. JSS-26, Sphingomonas sp. JSS-28, Sphingomonas sp. JSS26, Sphingomonas sp. JSS28, strain JSS26
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