OPJ65532.1 protein (Clostridium chromiireducens)

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

OPJ65532.1

Hypothetical protein. (168 aa)

Predicted Functional Partners:

rpmF

0.985

rpsC

0.938

rpsP

0.889

rpsF

0.879

rpmB

0.868

rplM

0.851

rplU

0.849

rplV

0.847

rplK

0.846

rpsB

0.846

Your Current Organism:

Clostridium chromiireducens

NCBI taxonomy Id: 225345
Other names: C. chromiireducens, Clostridium chromiireducens Inglett et al. 2011, DSM 23318, KCTC 5935, strain GCAF-1

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
OPJ65532.1	rplK	CLCHR_07240	CLCHR_00160	Hypothetical protein.	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	0.846
OPJ65532.1	rplM	CLCHR_07240	CLCHR_00620	Hypothetical protein.	50S ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.851
OPJ65532.1	rplU	CLCHR_07240	CLCHR_36740	Hypothetical protein.	50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.849
OPJ65532.1	rplV	CLCHR_07240	CLCHR_00320	Hypothetical protein.	50S ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome.	0.847
OPJ65532.1	rpmB	CLCHR_07240	CLCHR_07350	Hypothetical protein.	50S ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family.	0.868
OPJ65532.1	rpmF	CLCHR_07240	CLCHR_07230	Hypothetical protein.	50S ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.985
OPJ65532.1	rpsB	CLCHR_07240	CLCHR_06880	Hypothetical protein.	30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family.	0.846
OPJ65532.1	rpsC	CLCHR_07240	CLCHR_00330	Hypothetical protein.	30S ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family.	0.938
OPJ65532.1	rpsF	CLCHR_07240	CLCHR_32260	Hypothetical protein.	30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA.	0.879
OPJ65532.1	rpsP	CLCHR_07240	CLCHR_07130	Hypothetical protein.	30S ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family.	0.889
rplK	OPJ65532.1	CLCHR_00160	CLCHR_07240	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	Hypothetical protein.	0.846
rplK	rplM	CLCHR_00160	CLCHR_00620	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	50S ribosomal protein L13; This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly.	0.993
rplK	rplU	CLCHR_00160	CLCHR_36740	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.988
rplK	rplV	CLCHR_00160	CLCHR_00320	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	50S ribosomal protein L22; The globular domain of the protein is located near the polypeptide exit tunnel on the outside of the subunit, while an extended beta-hairpin is found that lines the wall of the exit tunnel in the center of the 70S ribosome.	0.993
rplK	rpmB	CLCHR_00160	CLCHR_07350	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	50S ribosomal protein L28; Belongs to the bacterial ribosomal protein bL28 family.	0.978
rplK	rpmF	CLCHR_00160	CLCHR_07230	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	50S ribosomal protein L32; Belongs to the bacterial ribosomal protein bL32 family.	0.981
rplK	rpsB	CLCHR_00160	CLCHR_06880	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family.	0.992
rplK	rpsC	CLCHR_00160	CLCHR_00330	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	30S ribosomal protein S3; Binds the lower part of the 30S subunit head. Binds mRNA in the 70S ribosome, positioning it for translation; Belongs to the universal ribosomal protein uS3 family.	0.993
rplK	rpsF	CLCHR_00160	CLCHR_32260	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	30S ribosomal protein S6; Binds together with S18 to 16S ribosomal RNA.	0.988
rplK	rpsP	CLCHR_00160	CLCHR_07130	50S ribosomal protein L11; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors.	30S ribosomal protein S16; Belongs to the bacterial ribosomal protein bS16 family.	0.979