CC_0939 protein (Caulobacter vibrioides CB15)

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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

CC_0939

Isopenicillin N epimerase, putative; Identified by match to protein family HMM. (368 aa)

Predicted Functional Partners:

CC_0462

0.920

CC_1862

0.844

CC_1864

0.804

CC_1861

0.801

CC_1061

0.743

CC_0523

0.660

CC_0862

0.654

CC_1122

0.628

CC_0985

0.454

CC_3254

0.425

Your Current Organism:

Caulobacter vibrioides CB15

NCBI taxonomy Id: 190650
Other names: C. vibrioides CB15, Caulobacter crescentus CB15, Caulobacter vibrioides ATCC 19089

Send network to Cytoscape

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 annotation	node2 annotation	score
CC_0462	CC_0939	Hypothetical protein; Identified by Glimmer2; putative.	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	0.920
CC_0462	CC_1861	Hypothetical protein; Identified by Glimmer2; putative.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.822
CC_0462	CC_1862	Hypothetical protein; Identified by Glimmer2; putative.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM.	0.941
CC_0462	CC_1864	Hypothetical protein; Identified by Glimmer2; putative.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.822
CC_0523	CC_0862	Conserved hypothetical protein; Identified by Glimmer2; putative.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.418
CC_0523	CC_0939	Conserved hypothetical protein; Identified by Glimmer2; putative.	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	0.660
CC_0862	CC_0523	Conserved hypothetical protein; Identified by Glimmer2; putative.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.418
CC_0862	CC_0939	Conserved hypothetical protein; Identified by Glimmer2; putative.	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	0.654
CC_0939	CC_0462	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Hypothetical protein; Identified by Glimmer2; putative.	0.920
CC_0939	CC_0523	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.660
CC_0939	CC_0862	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.654
CC_0939	CC_0985	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Hypothetical protein; Identified by Glimmer2; putative.	0.454
CC_0939	CC_1061	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.743
CC_0939	CC_1122	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Identified by match to PFAM protein family HMM PF01804.	0.628
CC_0939	CC_1861	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.801
CC_0939	CC_1862	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM.	0.844
CC_0939	CC_1864	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Conserved hypothetical protein; Identified by Glimmer2; putative.	0.804
CC_0939	CC_3254	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	Hypothetical protein; Identified by Glimmer2; putative.	0.425
CC_0985	CC_0939	Hypothetical protein; Identified by Glimmer2; putative.	Isopenicillin N epimerase, putative; Identified by match to protein family HMM.	0.454
CC_0985	CC_1122	Hypothetical protein; Identified by Glimmer2; putative.	Identified by match to PFAM protein family HMM PF01804.	0.745