hupB protein (Ruminococcus albus 8) - STRING interaction network

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

hupB

DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family. (92 aa)

Predicted Functional Partners:

CUS_5540

0.682

rplS

0.631

rpsT

0.624

CUS_5542

0.560

CUS_7361

0.534

rpsO

0.493

rplL

0.436

Your Current Organism:

Ruminococcus albus 8

NCBI taxonomy Id: 246199
Other names: R. albus 8, Ruminococcus albus str. 8

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
CUS_5540	CUS_5542	CUS_5540	CUS_5542	S4 domain protein; Identified by match to protein family HMM PF01479.	Putative protein MazG; Identified by match to protein family HMM PF03819; match to protein family HMM TIGR00444.	0.781
CUS_5540	hupB	CUS_5540	CUS_5541	S4 domain protein; Identified by match to protein family HMM PF01479.	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	0.682
CUS_5540	rplS	CUS_5540	CUS_7793	S4 domain protein; Identified by match to protein family HMM PF01479.	Ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site.	0.885
CUS_5540	rpsO	CUS_5540	CUS_7481	S4 domain protein; Identified by match to protein family HMM PF01479.	Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.684
CUS_5540	rpsT	CUS_5540	CUS_5690	S4 domain protein; Identified by match to protein family HMM PF01479.	Ribosomal protein S20; Binds directly to 16S ribosomal RNA.	0.691
CUS_5542	CUS_5540	CUS_5542	CUS_5540	Putative protein MazG; Identified by match to protein family HMM PF03819; match to protein family HMM TIGR00444.	S4 domain protein; Identified by match to protein family HMM PF01479.	0.781
CUS_5542	hupB	CUS_5542	CUS_5541	Putative protein MazG; Identified by match to protein family HMM PF03819; match to protein family HMM TIGR00444.	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	0.560
CUS_7361	hupB	CUS_7361	CUS_5541	Prephenate dehydratase; Identified by match to protein family HMM PF00800; match to protein family HMM PF01817.	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	0.534
CUS_7361	rplS	CUS_7361	CUS_7793	Prephenate dehydratase; Identified by match to protein family HMM PF00800; match to protein family HMM PF01817.	Ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site.	0.593
CUS_7361	rpsO	CUS_7361	CUS_7481	Prephenate dehydratase; Identified by match to protein family HMM PF00800; match to protein family HMM PF01817.	Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.674
hupB	CUS_5540	CUS_5541	CUS_5540	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	S4 domain protein; Identified by match to protein family HMM PF01479.	0.682
hupB	CUS_5542	CUS_5541	CUS_5542	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Putative protein MazG; Identified by match to protein family HMM PF03819; match to protein family HMM TIGR00444.	0.560
hupB	CUS_7361	CUS_5541	CUS_7361	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Prephenate dehydratase; Identified by match to protein family HMM PF00800; match to protein family HMM PF01817.	0.534
hupB	rplL	CUS_5541	CUS_4881	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family.	0.436
hupB	rplS	CUS_5541	CUS_7793	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site.	0.631
hupB	rpsO	CUS_5541	CUS_7481	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.493
hupB	rpsT	CUS_5541	CUS_5690	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	Ribosomal protein S20; Binds directly to 16S ribosomal RNA.	0.624
rplL	hupB	CUS_4881	CUS_5541	Ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family.	DNA-binding protein HU-beta; Identified by match to protein family HMM PF00216; Belongs to the bacterial histone-like protein family.	0.436
rplL	rplS	CUS_4881	CUS_7793	Ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family.	Ribosomal protein L19; This protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site.	0.987
rplL	rpsO	CUS_4881	CUS_7481	Ribosomal protein L7/L12; Forms part of the ribosomal stalk which helps the ribosome interact with GTP-bound translation factors. Is thus essential for accurate translation; Belongs to the bacterial ribosomal protein bL12 family.	Ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.983