Ccel_3374 protein (Ruminiclostridium cellulolyticum)

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

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

Ccel_3374

PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein. (308 aa)

Predicted Functional Partners:

prmC

0.963

Ccel_2434

0.782

rpmE

0.574

rho

0.443

Ccel_1281

0.441

Your Current Organism:

Ruminiclostridium cellulolyticum

NCBI taxonomy Id: 394503
Other names: Clostridium cellulolyticum H10, R. cellulolyticum H10, Ruminiclostridium cellulolyticum H10

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
Ccel_1281	Ccel_3374	Ccel_1281	Ccel_3374	PFAM: cobalamin (vitamin B12) biosynthesis CbiX protein; KEGG: ppd:Ppro_1299 cobalamin (vitamin B12) biosynthesis CbiX protein.	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	0.441
Ccel_2434	Ccel_3374	Ccel_2434	Ccel_3374	TIGRFAM: agmatinase; PFAM: Arginase/agmatinase/formiminoglutamase; KEGG: amt:Amet_2650 putative agmatinase; Belongs to the arginase family.	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	0.782
Ccel_3374	Ccel_1281	Ccel_3374	Ccel_1281	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	PFAM: cobalamin (vitamin B12) biosynthesis CbiX protein; KEGG: ppd:Ppro_1299 cobalamin (vitamin B12) biosynthesis CbiX protein.	0.441
Ccel_3374	Ccel_2434	Ccel_3374	Ccel_2434	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	TIGRFAM: agmatinase; PFAM: Arginase/agmatinase/formiminoglutamase; KEGG: amt:Amet_2650 putative agmatinase; Belongs to the arginase family.	0.782
Ccel_3374	prmC	Ccel_3374	Ccel_3373	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	0.963
Ccel_3374	rho	Ccel_3374	Ccel_3376	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	0.443
Ccel_3374	rpmE	Ccel_3374	Ccel_3375	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	Ribosomal protein L31; Binds the 23S rRNA.	0.574
prmC	Ccel_3374	Ccel_3373	Ccel_3374	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	0.963
prmC	rho	Ccel_3373	Ccel_3376	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	0.516
prmC	rpmE	Ccel_3373	Ccel_3375	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	Ribosomal protein L31; Binds the 23S rRNA.	0.626
rho	Ccel_3374	Ccel_3376	Ccel_3374	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	0.443
rho	prmC	Ccel_3376	Ccel_3373	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	0.516
rho	rpmE	Ccel_3376	Ccel_3375	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	Ribosomal protein L31; Binds the 23S rRNA.	0.815
rpmE	Ccel_3374	Ccel_3375	Ccel_3374	Ribosomal protein L31; Binds the 23S rRNA.	PFAM: protein of unknown function DUF1385; KEGG: cth:Cthe_2427 hypothetical protein.	0.574
rpmE	prmC	Ccel_3375	Ccel_3373	Ribosomal protein L31; Binds the 23S rRNA.	Modification methylase, HemK family; Methylates the class 1 translation termination release factors RF1/PrfA and RF2/PrfB on the glutamine residue of the universally conserved GGQ motif; Belongs to the protein N5-glutamine methyltransferase family. PrmC subfamily.	0.626
rpmE	rho	Ccel_3375	Ccel_3376	Ribosomal protein L31; Binds the 23S rRNA.	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	0.815