CPF_2040 protein (Clostridium perfringens ATCC 13124)

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

CPF_2040

Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738. (153 aa)

Predicted Functional Partners:

iscS

0.952

nifU

0.937

trmU

0.794

CPF_1667

0.739

nifJ

0.622

CPF_1441

0.579

CPF_2036

0.553

CPF_1269

0.529

CPF_0538

0.417

Your Current Organism:

Clostridium perfringens ATCC 13124

NCBI taxonomy Id: 195103
Other names: C. perfringens ATCC 13124, Clostridium perfringens str. ATCC 13124, Clostridium perfringens strain ATCC 13124

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
CPF_0538	CPF_2040	CPF_0538	CPF_2040	Glycine betaine/L-proline ABC transporter, permease/glycine betaine/L-proline-binding protein; Identified by match to protein family HMM PF00528; match to protein family HMM PF04069.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.417
CPF_0538	nifJ	CPF_0538	CPF_2318	Glycine betaine/L-proline ABC transporter, permease/glycine betaine/L-proline-binding protein; Identified by match to protein family HMM PF00528; match to protein family HMM PF04069.	Pyruvate-flavodoxin oxidoreductase; Identified by similarity to SP:P19543; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM TIGR02176.	0.632
CPF_1269	CPF_2040	CPF_1269	CPF_2040	Rubredoxin/flavodoxin/oxidoreductase; Identified by match to protein family HMM PF00070; match to protein family HMM PF00258; match to protein family HMM PF00301; match to protein family HMM PF00753; match to protein family HMM PF07992.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.529
CPF_1269	nifJ	CPF_1269	CPF_2318	Rubredoxin/flavodoxin/oxidoreductase; Identified by match to protein family HMM PF00070; match to protein family HMM PF00258; match to protein family HMM PF00301; match to protein family HMM PF00753; match to protein family HMM PF07992.	Pyruvate-flavodoxin oxidoreductase; Identified by similarity to SP:P19543; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM TIGR02176.	0.534
CPF_1441	CPF_1667	CPF_1441	CPF_1667	Conserved hypothetical protein.	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	0.901
CPF_1441	CPF_2040	CPF_1441	CPF_2040	Conserved hypothetical protein.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.579
CPF_1441	iscS	CPF_1441	CPF_2039	Conserved hypothetical protein.	Cysteine desulfurase; Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins; Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. NifS/IscS subfamily.	0.901
CPF_1441	nifJ	CPF_1441	CPF_2318	Conserved hypothetical protein.	Pyruvate-flavodoxin oxidoreductase; Identified by similarity to SP:P19543; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM TIGR02176.	0.596
CPF_1667	CPF_1441	CPF_1667	CPF_1441	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	Conserved hypothetical protein.	0.901
CPF_1667	CPF_2040	CPF_1667	CPF_2040	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.739
CPF_1667	iscS	CPF_1667	CPF_2039	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	Cysteine desulfurase; Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins; Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. NifS/IscS subfamily.	0.909
CPF_1667	nifJ	CPF_1667	CPF_2318	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	Pyruvate-flavodoxin oxidoreductase; Identified by similarity to SP:P19543; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855; match to protein family HMM TIGR02176.	0.476
CPF_1667	nifU	CPF_1667	CPF_2038	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	FeS cluster assembly scaffold protein NifU; Identified by match to protein family HMM PF01592; match to protein family HMM TIGR03419.	0.987
CPF_1667	trmU	CPF_1667	CPF_2037	Aminotransferase, class V; Identified by match to protein family HMM PF00266; match to protein family HMM PF01212.	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.	0.563
CPF_2036	CPF_2040	CPF_2036	CPF_2040	PRC-barrel domain protein; Identified by match to protein family HMM PF05239.	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	0.553
CPF_2036	iscS	CPF_2036	CPF_2039	PRC-barrel domain protein; Identified by match to protein family HMM PF05239.	Cysteine desulfurase; Master enzyme that delivers sulfur to a number of partners involved in Fe-S cluster assembly, tRNA modification or cofactor biosynthesis. Catalyzes the removal of elemental sulfur atoms from cysteine to produce alanine. Functions as a sulfur delivery protein for Fe-S cluster synthesis onto IscU, an Fe-S scaffold assembly protein, as well as other S acceptor proteins; Belongs to the class-V pyridoxal-phosphate-dependent aminotransferase family. NifS/IscS subfamily.	0.553
CPF_2036	nifU	CPF_2036	CPF_2038	PRC-barrel domain protein; Identified by match to protein family HMM PF05239.	FeS cluster assembly scaffold protein NifU; Identified by match to protein family HMM PF01592; match to protein family HMM TIGR03419.	0.553
CPF_2036	trmU	CPF_2036	CPF_2037	PRC-barrel domain protein; Identified by match to protein family HMM PF05239.	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.	0.575
CPF_2040	CPF_0538	CPF_2040	CPF_0538	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Glycine betaine/L-proline ABC transporter, permease/glycine betaine/L-proline-binding protein; Identified by match to protein family HMM PF00528; match to protein family HMM PF04069.	0.417
CPF_2040	CPF_1269	CPF_2040	CPF_1269	Identified by match to protein family HMM PF02082; match to protein family HMM TIGR00738.	Rubredoxin/flavodoxin/oxidoreductase; Identified by match to protein family HMM PF00070; match to protein family HMM PF00258; match to protein family HMM PF00301; match to protein family HMM PF00753; match to protein family HMM PF07992.	0.529