STRINGSTRING
recF recF gyrB gyrB gyrA gyrA ALG05604.1 ALG05604.1 recR recR dnaX dnaX ALG05779.1 ALG05779.1 ALG05803.1 ALG05803.1 topA topA ALG05840.1 ALG05840.1 radA radA ALG05995.1 ALG05995.1 ALG06019.1 ALG06019.1 ALG06343.1 ALG06343.1 mfd mfd ALG14591.1 ALG14591.1 sbcD sbcD ALG06615.1 ALG06615.1 ALG14607.1 ALG14607.1 ALG14608.1 ALG14608.1 lexA lexA ALG06887.1 ALG06887.1 dinB dinB ALG07162.1 ALG07162.1 ALG07306.1 ALG07306.1 ALG07420.1 ALG07420.1 ALG07435.1 ALG07435.1 ALG07491.1 ALG07491.1 ALG07503.1 ALG07503.1 recO recO dnaG dnaG ALG07794.1 ALG07794.1 ALG07831.1 ALG07831.1 ALG07863.1 ALG07863.1 recA recA recX recX lexA-2 lexA-2 ALG14878.1 ALG14878.1 ALG08980.1 ALG08980.1 ALG10774.1 ALG10774.1 ALG10883.1 ALG10883.1 ALG10943.1 ALG10943.1 uvrC uvrC priA priA ruvB ruvB ruvA ruvA ruvC ruvC uvrA uvrA uvrB uvrB polA polA ALG12594.1 ALG12594.1 ALG12827.1 ALG12827.1 ALG12837.1 ALG12837.1 dinB-3 dinB-3 ALG12869.1 ALG12869.1 mutM mutM recG recG dnaE2 dnaE2 ALG13764.1 ALG13764.1 ALG13766.1 ALG13766.1 ALG13779.1 ALG13779.1 ALG14384.1 ALG14384.1 ALG14387.1 ALG14387.1 dnaA dnaA
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.
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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:
recFRecombinase 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. (386 aa)
gyrBDNA gyrase subunit B; 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. (659 aa)
gyrADNA gyrase subunit A; 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. (849 aa)
ALG05604.1DNA lyase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the FPG family. (287 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)
dnaXDNA polymerase III subunit gamma/tau; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (657 aa)
ALG05779.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (371 aa)
ALG05803.1DNA polymerase III subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology. (365 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 [...] (929 aa)
ALG05840.1DNA polymerase III subunit delta; Catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA; Derived by automated computational analysis using gene prediction method: Protein Homology. (395 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. (457 aa)
ALG05995.1Helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (553 aa)
ALG06019.1Serine/threonine protein phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology. (275 aa)
ALG06343.1Single-stranded DNA-binding protein; Binds to single stranded DNA and may facilitate the binding and interaction of other proteins to DNA; Derived by automated computational analysis using gene prediction method: Protein Homology. (152 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. (1185 aa)
ALG14591.1Recombinase RmuC; Derived by automated computational analysis using gene prediction method: Protein Homology. (332 aa)
sbcDExonuclease SbcD; 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. (383 aa)
ALG06615.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (985 aa)
ALG14607.1ATP-dependent DNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the helicase family. UvrD subfamily. (1042 aa)
ALG14608.1ATP-dependent DNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the helicase family. UvrD subfamily. (1079 aa)
lexALexA family transcriptional regulator; 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. (214 aa)
ALG06887.1ATP-dependent DNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (696 aa)
dinBDNA polymerase IV; 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. (396 aa)
ALG07162.1ATP-dependent helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (690 aa)
ALG07306.1Tat pathway signal sequence domain protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (579 aa)
ALG07420.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (133 aa)
ALG07435.1DNA glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the FPG family. (269 aa)
ALG07491.1Recombinase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology. (700 aa)
ALG07503.1DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology. (326 aa)
recODNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (245 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (634 aa)
ALG07794.1Hypothetical protein; Contains 3'-5'exonuclease domain; Derived by automated computational analysis using gene prediction method: Protein Homology. (568 aa)
ALG07831.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (196 aa)
ALG07863.1DEAD/DEAH box helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (1530 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. (347 aa)
recXRecombinase RecX; Modulates RecA activity; Belongs to the RecX family. (154 aa)
lexA-2ArsR family transcriptional regulator; 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. (235 aa)
ALG14878.1DNA polymerase III subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology. (1160 aa)
ALG08980.15'-3' exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology. (309 aa)
ALG10774.1Heavy metal transporter; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the DEAD box helicase family. (580 aa)
ALG10883.1Daunorubicin resistance protein DrrC; Derived by automated computational analysis using gene prediction method: Protein Homology. (743 aa)
ALG10943.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (300 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. (654 aa)
priAPrimosome assembly protein PriA; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (685 aa)
ruvBATP-dependent 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. (346 aa)
ruvAATP-dependent 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)
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. (191 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. (952 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 [...] (722 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. (903 aa)
ALG12594.1ATP-dependent DNA helicase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology. (607 aa)
ALG12827.1DNA polymerase III subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology. (1187 aa)
ALG12837.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (163 aa)
dinB-3DNA polymerase IV; 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. (428 aa)
ALG12869.1DNA glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (263 aa)
mutM5-hydroxymethyluracil 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. (285 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. (720 aa)
dnaE2DNA polymerase; DNA polymerase involved in damage-induced mutagenesis and translesion synthesis (TLS). It is not the major replicative DNA polymerase. (1101 aa)
ALG13764.1DNA polymerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (516 aa)
ALG13766.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (235 aa)
ALG13779.1ATP-dependent DNA helicase PcrA; Derived by automated computational analysis using gene prediction method: Protein Homology. (777 aa)
ALG14384.1Single-stranded DNA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (176 aa)
ALG14387.1Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (807 aa)
dnaAChromosomal replication initiation protein; 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. (514 aa)
Your Current Organism:
Kibdelosporangium phytohabitans
NCBI taxonomy Id: 860235
Other names: CCTCC AA 2010001, K. phytohabitans, KCTC 19775, Kibdelosporangium phytohabitans Xing et al. 2012
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