STRINGSTRING
SVI_0017 SVI_0017 dnaA dnaA dnaN dnaN recF recF SVI_0065 SVI_0065 polA polA comF comF hepA hepA dnaB dnaB mutL mutL SVI_0638 SVI_0638 holC holC nfo nfo SVI_0992 SVI_0992 mutY mutY xni xni rnhB rnhB dnaE dnaE SVI_1544 SVI_1544 ogt ogt ligA ligA SVI_1797 SVI_1797 uvrC uvrC SVI_1890 SVI_1890 dnaQ-1 dnaQ-1 SVI_1961 SVI_1961 SVI_1985 SVI_1985 SVI_2047 SVI_2047 SVI_2052 SVI_2052 SVI_2119 SVI_2119 uvrB uvrB nth nth ruvB ruvB ruvA ruvA ruvC ruvC SVI_2353 SVI_2353 dnaQ-2 dnaQ-2 rnhA-1 rnhA-1 SVI_2481 SVI_2481 SVI_2562 SVI_2562 holB holB SVI_2753 SVI_2753 topA topA recR recR SVI_2782 SVI_2782 dnaX dnaX xth xth topB topB SVI_2944 SVI_2944 sbcD sbcD polB polB dinG dinG SVI_2978 SVI_2978 rnhA-2 rnhA-2 recA recA mutS mutS SVI_3207 SVI_3207 radA radA dinP dinP holA holA ung ung sfsA sfsA ssb ssb uvrA uvrA rep rep uvrD uvrD SVI_3949 SVI_3949 recQ recQ recG recG
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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
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empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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Edges represent protein-protein associations
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Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
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textmining
co-expression
protein homology
Your Input:
SVI_0017Helicase. (1056 aa)
dnaAChromosomal replication initiator protein DnaA; Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box): 5'- TTATC[CA]A[CA]A-3'. DnaA binds to ATP and to acidic phospholipids. Belongs to the DnaA family. (462 aa)
dnaNDNA 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 [...] (366 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. (365 aa)
SVI_0065DNA processing protein DprA, putative. (339 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. (917 aa)
comFCompetence protein ComF. (235 aa)
hepARNA polymerase-associated protein HepA; Transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA. Does not activate transcription on linear DNA. Probably not involved in DNA repair; Belongs to the SNF2/RAD54 helicase family. RapA subfamily. (968 aa)
dnaBReplicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins. Belongs to the helicase family. DnaB subfamily. (470 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. (619 aa)
SVI_0638Histone deacetylase/AcuC/AphA family protein. (311 aa)
holCDNA polymerase III, chi subunit. (156 aa)
nfoEndonuclease IV; 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. (285 aa)
SVI_0992Hypothetical protein. (46 aa)
mutYA/G-specific adenine glycosylase; Adenine glycosylase active on G-A mispairs. (361 aa)
xniExodeoxyribonuclease IX; Has flap endonuclease activity. During DNA replication, flap endonucleases cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. (252 aa)
rnhBRibonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (218 aa)
dnaEDNA polymerase III, alpha subunit. (1157 aa)
SVI_1544ADA regulatory protein, putative. (509 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. (161 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. (683 aa)
SVI_1797Helicase. (580 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. (609 aa)
SVI_1890Conserved hypothetical protein; Belongs to the DnaA family. (236 aa)
dnaQ-1DNA polymerase III, epsilon subunit. (206 aa)
SVI_1961Hypothetical protein. (1331 aa)
SVI_1985Helicase, Snf2 family. (694 aa)
SVI_2047Regulatory protein RecX family; Modulates RecA activity; Belongs to the RecX family. (269 aa)
SVI_2052ATP-dependent DNA helicase, RecQ family. (654 aa)
SVI_2119UvrD/REP helicase family protein. (1018 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 [...] (671 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)
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. (339 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. (205 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. (173 aa)
SVI_2353Conserved hypothetical protein. (248 aa)
dnaQ-2DNA polymerase III, epsilon subunit; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease. (242 aa)
rnhA-1Ribonuclease HI; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (154 aa)
SVI_2481ATP-dependent helicase, DinG family. (648 aa)
SVI_2562DNA ligase, ATP-dependent. (285 aa)
holBDNA polymerase III, delta prime subunit. (304 aa)
SVI_2753DNA internalization-related competence protein ComEC/Rec2. (783 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 [...] (907 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)
SVI_2782Conserved hypothetical protein; Binds to DNA and alters its conformation. May be involved in regulation of gene expression, nucleoid organization and DNA protection. (109 aa)
dnaXDNA polymerase III, gamma and tau subunits. (943 aa)
xthExodeoxyribonuclease III. (268 aa)
topBDNA topoisomerase III; 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 su [...] (649 aa)
SVI_2944Exonuclease SbcC, putative. (1018 aa)
sbcDExonuclease SbcD, putative; 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. (381 aa)
polBDNA polymerase II. (811 aa)
dinGATP-dependent helicase DinG; DNA-dependent ATPase and 5'-3' DNA helicase. (701 aa)
SVI_2978DNA-binding protein, putative. (105 aa)
rnhA-2Ribonuclease HI; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (249 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. (352 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. (855 aa)
SVI_3207Psychrophilic phosphatase I. (371 aa)
radADNA repair protein RadA. (457 aa)
dinPDNA-damage-inducible protein P; 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. (361 aa)
holADNA polymerase III, delta subunit. (347 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. (222 aa)
sfsASugar fermentation stimulation protein; Belongs to the SfsA family. (250 aa)
ssbSingle-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (228 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. (945 aa)
repATP-dependent DNA helicase Rep; Rep helicase is a single-stranded DNA-dependent ATPase involved in DNA replication; it can initiate unwinding at a nick in the DNA. It binds to the single-stranded DNA and acts in a progressive fashion along the DNA in the 3' to 5' direction. (670 aa)
uvrDDNA helicase II. (721 aa)
SVI_3949Magnesium chelatase family protein. (507 aa)
recQATP-dependent DNA helicase RecQ. (610 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. (691 aa)
Your Current Organism:
Shewanella violacea
NCBI taxonomy Id: 637905
Other names: S. violacea DSS12, Shewanella violacea DSS12, Shewanella violacea JCM 10179, Shewanella violacea str. DSS12, Shewanella violacea strain DSS12
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