recX 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

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

recX

Regulatory protein RecX; Modulates RecA activity; Belongs to the RecX family. (212 aa)

Predicted Functional Partners:

recA

0.930

CPF_2179

0.907

CPF_2177

0.836

radA

0.825

CPF_2180

0.671

recO

0.659

cinA

0.626

polA

0.616

recN

0.554

CPF_2181

0.547

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_2177	CPF_2179	CPF_2177	CPF_2179	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	0.832
CPF_2177	CPF_2180	CPF_2177	CPF_2180	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.671
CPF_2177	CPF_2181	CPF_2177	CPF_2181	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.547
CPF_2177	recX	CPF_2177	CPF_2178	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	Regulatory protein RecX; Modulates RecA activity; Belongs to the RecX family.	0.836
CPF_2179	CPF_2177	CPF_2179	CPF_2177	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	0.832
CPF_2179	CPF_2180	CPF_2179	CPF_2180	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.681
CPF_2179	CPF_2181	CPF_2179	CPF_2181	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.554
CPF_2179	recX	CPF_2179	CPF_2178	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	Regulatory protein RecX; Modulates RecA activity; Belongs to the RecX family.	0.907
CPF_2180	CPF_2177	CPF_2180	CPF_2177	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	0.671
CPF_2180	CPF_2179	CPF_2180	CPF_2179	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	0.681
CPF_2180	CPF_2181	CPF_2180	CPF_2181	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.966
CPF_2180	recX	CPF_2180	CPF_2178	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	Regulatory protein RecX; Modulates RecA activity; Belongs to the RecX family.	0.671
CPF_2181	CPF_2177	CPF_2181	CPF_2177	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	Transglutaminase domain protein; Identified by match to protein family HMM PF01841.	0.547
CPF_2181	CPF_2179	CPF_2181	CPF_2179	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	Peptidase, M16 family; Identified by match to protein family HMM PF00675; match to protein family HMM PF05193; Belongs to the peptidase M16 family.	0.554
CPF_2181	CPF_2180	CPF_2181	CPF_2180	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.966
CPF_2181	recX	CPF_2181	CPF_2178	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	Regulatory protein RecX; Modulates RecA activity; Belongs to the RecX family.	0.547
cinA	polA	CPF_0130	CPF_2250	cinA family protein; Identified by similarity to SP:P46323; match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200; Belongs to the CinA family.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity.	0.618
cinA	recA	CPF_0130	CPF_1927	cinA family protein; Identified by similarity to SP:P46323; match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200; Belongs to the CinA family.	recA protein; 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.	0.666
cinA	recN	CPF_0130	CPF_2069	cinA family protein; Identified by similarity to SP:P46323; match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200; Belongs to the CinA family.	DNA repair protein RecN; May be involved in recombinational repair of damaged DNA.	0.478
cinA	recO	CPF_0130	CPF_2271	cinA family protein; Identified by similarity to SP:P46323; match to protein family HMM PF00994; match to protein family HMM PF02464; match to protein family HMM TIGR00199; match to protein family HMM TIGR00200; Belongs to the CinA family.	DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination.	0.612