STRINGSTRING
KWX81084.1 KWX81084.1 dnaX dnaX KWX80780.1 KWX80780.1 ung ung mutS2 mutS2 recQ recQ nth nth gyrA gyrA gyrB-2 gyrB-2 KWX79409.1 KWX79409.1 recF recF KWX79411.1 KWX79411.1 dnaN dnaN dnaA dnaA KWX79432.1 KWX79432.1 KWX79434.1 KWX79434.1 dnaC dnaC KWX78450.1 KWX78450.1 ypcP ypcP KWX78277.1 KWX78277.1 KWX78124.1 KWX78124.1 KWX78151.1 KWX78151.1 polA polA mutM mutM KWX78154.1 KWX78154.1 coaE coaE KWX78156.1 KWX78156.1 uvrA1 uvrA1 nfo3 nfo3 KWX77644.1 KWX77644.1 mutL mutL mutS mutS uvrC uvrC ligA2 ligA2 pcrA pcrA pcrB pcrB uvrA3 uvrA3 uvrB uvrB ruvC ruvC ruvA ruvA ruvB ruvB KWX76988.1 KWX76988.1 queA queA tgt tgt KWX77031.1 KWX77031.1 KWX77042.1 KWX77042.1 KWX76803.1 KWX76803.1 KWX76593.1 KWX76593.1 acpS acpS KWX75697.1 KWX75697.1 rlmI rlmI addB addB addA addA sbcD sbcD KWX75702.1 KWX75702.1 dnaG dnaG KWX75265.1 KWX75265.1 KWX73694.1 KWX73694.1 nfo1 nfo1 polC polC topA topA KWX72582.1 KWX72582.1 KWX72587.1 KWX72587.1 topB topB KWX72150.1 KWX72150.1 KWX71730.1 KWX71730.1 exoA exoA KWX70219.1 KWX70219.1 KWX70299.1 KWX70299.1 KWX69404.1 KWX69404.1
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:
KWX81084.1ATPase; Derived by automated computational analysis using gene prediction method: Protein Homology. (324 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. (591 aa)
KWX80780.1Helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (568 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)
mutS2Recombination and DNA strand exchange inhibitor 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. (788 aa)
recQATP-dependent DNA helicase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology. (611 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. (223 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. (848 aa)
gyrB-2DNA 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. (636 aa)
KWX79409.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (82 aa)
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. (372 aa)
KWX79411.1RNA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (75 aa)
dnaNDNA polymerase III subunit beta; 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 [...] (380 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. (448 aa)
KWX79432.1Single-stranded DNA-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. (166 aa)
KWX79434.1DNA mismatch repair protein MutS; 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. (665 aa)
dnaCDNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (453 aa)
KWX78450.1DNA topoisomerase III; Derived by automated computational analysis using gene prediction method: Protein Homology. (762 aa)
ypcP5'-3' exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology. (308 aa)
KWX78277.1Helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (339 aa)
KWX78124.1DNA polymerase III subunit alpha; Derived by automated computational analysis using gene prediction method: Protein Homology. (1243 aa)
KWX78151.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (63 aa)
polADNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity. (890 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. (280 aa)
KWX78154.1Hypothetical protein; Probably functions as a manganese efflux pump. (251 aa)
coaEdephospho-CoA kinase; Catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; Belongs to the CoaE family. (198 aa)
KWX78156.1Lytic transglycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (187 aa)
uvrA1Excinuclease 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. (955 aa)
nfo3Derived by automated computational analysis using gene prediction method: Protein Homology. (287 aa)
KWX77644.1formamidopyrimidine-DNA glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the FPG family. (271 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. (699 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. (946 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. (688 aa)
ligA2Aromatic ring-opening dioxygenase 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. (670 aa)
pcrAATP-dependent DNA helicase PcrA; Derived by automated computational analysis using gene prediction method: Protein Homology. (781 aa)
pcrBHeptaprenylglyceryl phosphate synthase; Prenyltransferase that catalyzes in vivo the transfer of the heptaprenyl moiety of heptaprenyl pyrophosphate (HepPP; 35 carbon atoms) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P), producing heptaprenylglyceryl phosphate (HepGP). This reaction is an ether-bond- formation step in the biosynthesis of archaea-type G1P-based membrane lipids found in Bacillales. (235 aa)
uvrA3Excinuclease 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. (957 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 [...] (663 aa)
ruvCHolliday junction resolvase; 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. (167 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. (207 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. (335 aa)
KWX76988.1Sporulation protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (693 aa)
queAS-adenosylmethionine tRNA ribosyltransferase; Transfers and isomerizes the ribose moiety from AdoMet to the 7-aminomethyl group of 7-deazaguanine (preQ1-tRNA) to give epoxyqueuosine (oQ-tRNA). (342 aa)
tgtQueuine tRNA-ribosyltransferase; Catalyzes the base-exchange of a guanine (G) residue with the queuine precursor 7-aminomethyl-7-deazaguanine (PreQ1) at position 34 (anticodon wobble position) in tRNAs with GU(N) anticodons (tRNA-Asp, - Asn, -His and -Tyr). Catalysis occurs through a double-displacement mechanism. The nucleophile active site attacks the C1' of nucleotide 34 to detach the guanine base from the RNA, forming a covalent enzyme-RNA intermediate. The proton acceptor active site deprotonates the incoming PreQ1, allowing a nucleophilic attack on the C1' of the ribose to form t [...] (378 aa)
KWX77031.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (881 aa)
KWX77042.1DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology. (339 aa)
KWX76803.1DNA polymerase III subunit epsilon; Derived by automated computational analysis using gene prediction method: Protein Homology. (249 aa)
KWX76593.1Adenine glycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (482 aa)
acpS4'-phosphopantetheinyl transferase; Transfers the 4'-phosphopantetheine moiety from coenzyme A to a Ser of acyl-carrier-protein; Belongs to the P-Pant transferase superfamily. AcpS family. (132 aa)
KWX75697.1Sodium:phosphate symporter; Derived by automated computational analysis using gene prediction method: Protein Homology. (329 aa)
rlmISAM-dependent methyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (465 aa)
addBATP-dependent helicase; ATP-dependent DNA helicase; Belongs to the helicase family. AddB/RexB type 1 subfamily. (1175 aa)
addAATP-dependent helicase; ATP-dependent DNA helicase. (1360 aa)
sbcDNuclease SbcCD subunit D; 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. (393 aa)
KWX75702.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (1220 aa)
dnaGDNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (606 aa)
KWX75265.1Helicase SNF; Derived by automated computational analysis using gene prediction method: Protein Homology. (1117 aa)
KWX73694.1ATP-dependent helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (769 aa)
nfo1Deoxyribonuclease 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. (375 aa)
polCDNA polymerase III; Required for replicative DNA synthesis. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (1441 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 [...] (698 aa)
KWX72582.1DNA-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (372 aa)
KWX72587.1Fis family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (559 aa)
topBDNA topoisomerase III; Derived by automated computational analysis using gene prediction method: Protein Homology. (712 aa)
KWX72150.1Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (1086 aa)
KWX71730.1DNA helicase; Derived by automated computational analysis using gene prediction method: Protein Homology. (1029 aa)
exoAExodeoxyribonuclease III; Derived by automated computational analysis using gene prediction method: Protein Homology. (258 aa)
KWX70219.1Excinuclease ABC subunit A; Derived by automated computational analysis using gene prediction method: Protein Homology. (807 aa)
KWX70299.1DNA polymerase III subunit epsilon; Derived by automated computational analysis using gene prediction method: Protein Homology. (229 aa)
KWX69404.1DNA helicase UvrC; Derived by automated computational analysis using gene prediction method: Protein Homology. (368 aa)
Your Current Organism:
Paenibacillus riograndensis
NCBI taxonomy Id: 483937
Other names: CECT 7330, P. riograndensis, Paenibacillus riograndensis Beneduzi et al. 2010, Paenibacillus sonchi genomovar Oryzarum, Paenibacillus sonchi genomovar Riograndensis, strain SBR5
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