rnhB protein (beta proteobacterium KB13) - STRING interaction network

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

rnhB

Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (179 aa)

Predicted Functional Partners:

lpxB

0.990

dnaN

0.881

polA

0.870

rnhA

0.846

rpoC

0.754

recA

0.731

thyA

0.652

KB13_337

0.631

dnaJ

0.625

acpP

0.612

Your Current Organism:

beta proteobacterium KB13

NCBI taxonomy Id: 314607
Other names: b. proteobacterium KB13

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
KB13_337	acpP	KB13_337	KB13_606	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	0.442
KB13_337	dnaN	KB13_337	KB13_1152	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	0.967
KB13_337	polA	KB13_337	KB13_1229	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.734
KB13_337	recA	KB13_337	KB13_1083	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	Protein 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.	0.870
KB13_337	rnhB	KB13_337	KB13_50	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	0.631
acpP	KB13_337	KB13_606	KB13_337	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	0.442
acpP	dnaJ	KB13_606	KB13_927	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...]	0.806
acpP	polA	KB13_606	KB13_1229	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.648
acpP	recA	KB13_606	KB13_1083	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	Protein 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.	0.662
acpP	rnhB	KB13_606	KB13_50	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	0.612
dnaJ	acpP	KB13_927	KB13_606	Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...]	Acyl carrier protein; Carrier of the growing fatty acid chain in fatty acid biosynthesis.	0.806
dnaJ	polA	KB13_927	KB13_1229	Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...]	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.444
dnaJ	recA	KB13_927	KB13_1083	Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...]	Protein 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.	0.436
dnaJ	rnhB	KB13_927	KB13_50	Chaperone protein DnaJ; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, DnaK-independent fashion. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent interactions between DnaJ, D [...]	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	0.625
dnaN	KB13_337	KB13_1152	KB13_337	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	0.967
dnaN	polA	KB13_1152	KB13_1229	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.992
dnaN	recA	KB13_1152	KB13_1083	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	Protein 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.	0.909
dnaN	rnhA	KB13_1152	KB13_1212	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	RNase H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase H family.	0.519
dnaN	rnhB	KB13_1152	KB13_50	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	Ribonuclease HII; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.	0.881
dnaN	thyA	KB13_1152	KB13_1137	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	Thymidylate synthase; Catalyzes the reductive methylation of 2'-deoxyuridine-5'- monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by- product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis.	0.744