KB13_337 protein (beta proteobacterium KB13)

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

KB13_337

[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair. (414 aa)

Predicted Functional Partners:

KB13_658

0.990

dnaN

0.967

recA

0.870

KB13_490

0.754

polA

0.734

KB13_457

0.671

dnaE

0.660

fkpA

0.652

mrdB

0.651

ftsW

0.651

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	KB13_457	KB13_337	KB13_457	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	[L] COG0122 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase.	0.671
KB13_337	KB13_490	KB13_337	KB13_490	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	[L] COG2812 DNA polymerase III, gamma/tau subunits.	0.754
KB13_337	KB13_658	KB13_337	KB13_658	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	LexA/MucA/RumA/RuvA family protein; [KT] COG1974 SOS-response transcriptional repressors (RecA-mediated autopeptidases); Belongs to the peptidase S24 family.	0.990
KB13_337	dnaE	KB13_337	KB13_512	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	[L] COG0587 DNA polymerase III, alpha subunit.	0.660
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	fkpA	KB13_337	KB13_1231	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	[O] COG1047 FKBP-type peptidyl-prolyl cis-trans isomerases 2.	0.652
KB13_337	ftsW	KB13_337	KB13_802	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	Cell division protein FtsW; Peptidoglycan polymerase that is essential for cell division. Belongs to the SEDS family. FtsW subfamily.	0.651
KB13_337	mrdB	KB13_337	KB13_1183	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	Hypothetical protein; [D] COG0772 Bacterial cell division membrane protein; cell envelope; Belongs to the SEDS family.	0.651
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_457	KB13_337	KB13_457	KB13_337	[L] COG0122 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase.	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	0.671
KB13_457	polA	KB13_457	KB13_1229	[L] COG0122 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.596
KB13_457	recA	KB13_457	KB13_1083	[L] COG0122 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase.	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.	0.481
KB13_490	KB13_337	KB13_490	KB13_337	[L] COG2812 DNA polymerase III, gamma/tau subunits.	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	0.754
KB13_490	dnaE	KB13_490	KB13_512	[L] COG2812 DNA polymerase III, gamma/tau subunits.	[L] COG0587 DNA polymerase III, alpha subunit.	0.954
KB13_490	dnaN	KB13_490	KB13_1152	[L] COG2812 DNA polymerase III, gamma/tau subunits.	[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog).	0.984
KB13_490	polA	KB13_490	KB13_1229	[L] COG2812 DNA polymerase III, gamma/tau subunits.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.935
KB13_490	recA	KB13_490	KB13_1083	[L] COG2812 DNA polymerase III, gamma/tau subunits.	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.	0.622
KB13_658	KB13_337	KB13_658	KB13_337	LexA/MucA/RumA/RuvA family protein; [KT] COG1974 SOS-response transcriptional repressors (RecA-mediated autopeptidases); Belongs to the peptidase S24 family.	[L] COG0389 Nucleotidyltransferase/DNA polymerase involved in DNA repair.	0.990
KB13_658	dnaE	KB13_658	KB13_512	LexA/MucA/RumA/RuvA family protein; [KT] COG1974 SOS-response transcriptional repressors (RecA-mediated autopeptidases); Belongs to the peptidase S24 family.	[L] COG0587 DNA polymerase III, alpha subunit.	0.403