STRINGSTRING
Shew_0050 Shew_0050 orn orn Shew_0690 Shew_0690 Shew_0772 Shew_0772 Shew_0992 Shew_0992 Shew_0993 Shew_0993 mutH mutH rnc rnc nfo nfo Shew_1143 Shew_1143 xseA xseA Shew_1305 Shew_1305 rnt rnt rne rne Shew_1611 Shew_1611 Shew_1682 Shew_1682 Shew_1894 Shew_1894 Shew_1933 Shew_1933 nth nth ruvC ruvC dnaQ dnaQ rnhA rnhA recC recC recB recB recD recD Shew_2170 Shew_2170 rnd rnd Shew_2368 Shew_2368 sbcD sbcD Shew_2604 Shew_2604 rnhB rnhB xni xni xseB xseB ybeY ybeY Shew_3021 Shew_3021 Shew_3193 Shew_3193 rnr rnr polA polA rnpA rnpA
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
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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:
Shew_0050PFAM: Exonuclease, RNase T and DNA polymerase III; SMART: Exonuclease; KEGG: ppr:PBPRA2517 putative DNA polymerase III, epsilon subunit. (239 aa)
ornExonuclease, RNase T and DNA polymerase III; 3'-to-5' exoribonuclease specific for small oligoribonucleotides; Belongs to the oligoribonuclease family. (181 aa)
Shew_0690PFAM: Endonuclease/exonuclease/phosphatase; KEGG: she:Shewmr4_0969 endonuclease/exonuclease/phosphatase. (357 aa)
Shew_0772TIGRFAM: single-stranded-DNA-specific exonuclease RecJ; PFAM: phosphoesterase, RecJ domain protein; phosphoesterase, DHHA1; KEGG: shm:Shewmr7_3226 single-stranded-DNA-specific exonuclease RecJ. (574 aa)
Shew_0992PFAM: BsuBIPstI restriction endonuclease domain protein; KEGG: ssn:SSO_1584 putative restriction endonuclease. (365 aa)
Shew_0993PFAM: Eco57I restriction endonuclease; KEGG: ssn:SSO_1583 putative methylase. (595 aa)
mutHDNA mismatch repair protein MutH; Sequence-specific endonuclease that cleaves unmethylated GATC sequences. It is involved in DNA mismatch repair. Belongs to the MutH family. (223 aa)
rncRNAse III; Digests double-stranded RNA. Involved in the processing of primary rRNA transcript to yield the immediate precursors to the large and small rRNAs (23S and 16S). Processes some mRNAs, and tRNAs when they are encoded in the rRNA operon. Processes pre-crRNA and tracrRNA of type II CRISPR loci if present in the organism. (225 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. (283 aa)
Shew_1143Holliday junction resolvase YqgF; Could be a nuclease involved in processing of the 5'-end of pre-16S rRNA; Belongs to the YqgF HJR family. (139 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. (442 aa)
Shew_1305PFAM: HNH endonuclease; SMART: HNH nuclease. (146 aa)
rntRNAse T; Trims short 3' overhangs of a variety of RNA species, leaving a one or two nucleotide 3' overhang. Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A). Also appears to be involved in tRNA biosynthesis. (257 aa)
rneRNAse E; Endoribonuclease that plays a central role in RNA processing and decay. Required for the maturation of 5S and 16S rRNAs and the majority of tRNAs. Also involved in the degradation of most mRNAs. Belongs to the RNase E/G family. RNase E subfamily. (1128 aa)
Shew_1611PFAM: Exonuclease, RNase T and DNA polymerase III; Exonuclease C-terminal domain protein; KEGG: son:SO2790 exodeoxyribonuclease I. (482 aa)
Shew_1682Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (254 aa)
Shew_1894Conserved hypothetical protein; Nuclease required for the repair of DNA interstrand cross- links (ICL). Acts as a 5'-3' exonuclease that anchors at a cut end of DNA and cleaves DNA successively at every third nucleotide, allowing to excise an ICL from one strand through flanking incisions. Belongs to the FAN1 family. (643 aa)
Shew_1933PFAM: Endonuclease/exonuclease/phosphatase; KEGG: ppr:PBPRA2923 hypothetical protein. (292 aa)
nthEndonuclease III / DNA-(apurinic or apyrimidinic site) lyase; 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)
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)
dnaQDNA 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)
rnhARibonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (158 aa)
recCExodeoxyribonuclease V, gamma subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and r [...] (1192 aa)
recBExodeoxyribonuclease V, beta subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and re [...] (1223 aa)
recDExodeoxyribonuclease V, alpha subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and r [...] (662 aa)
Shew_2170Endonuclease/exonuclease/phosphatase; PFAM: PKD domain containing protein; Endonuclease/exonuclease/phosphatase; KEGG: she:Shewmr4_1534 PKD domain containing protein. (945 aa)
rndRibonuclease D; Exonuclease involved in the 3' processing of various precursor tRNAs. Initiates hydrolysis at the 3'-terminus of an RNA molecule and releases 5'-mononucleotides; Belongs to the RNase D family. (368 aa)
Shew_2368PFAM: Exonuclease, RNase T and DNA polymerase III; SMART: Exonuclease; KEGG: she:Shewmr4_1516 exonuclease, RNase T and DNA polymerase III. (226 aa)
sbcDExodeoxyribonuclease I 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. (380 aa)
Shew_2604PFAM: restriction endonuclease; KEGG: sfr:Sfri_2536 hypothetical protein. (266 aa)
rnhBRNase HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family. (208 aa)
xni5'-3' exonuclease; 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. (256 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. (79 aa)
ybeYProtein of unknown function UPF0054; Single strand-specific metallo-endoribonuclease involved in late-stage 70S ribosome quality control and in maturation of the 3' terminus of the 16S rRNA. (157 aa)
Shew_3021PFAM: peptidase domain protein; Endonuclease I; KEGG: sdn:Sden_3289 endonuclease I. (553 aa)
Shew_3193PFAM: Endonuclease/exonuclease/phosphatase; KEGG: she:Shewmr4_3033 endonuclease/exonuclease/phosphatase. (871 aa)
rnrRNAse R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (824 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. (930 aa)
rnpARibonuclease P protein component; RNaseP catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. The protein component plays an auxiliary but essential role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. (120 aa)
Your Current Organism:
Shewanella loihica
NCBI taxonomy Id: 323850
Other names: S. loihica PV-4, Shewanella loihica PV-4, Shewanella loihica str. PV-4, Shewanella loihica strain PV-4, Shewanella sp. PV-4
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