U27_06568 protein (Vecturithrix granuli) - 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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

U27_06568

D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding. (360 aa)

Predicted Functional Partners:

rplP

0.912

rplV

0.900

rpsO

0.885

rplU

0.883

rpmA

0.883

rplM

0.883

rplD

0.882

rplQ

0.882

rplF

0.880

rplC

0.878

Your Current Organism:

Vecturithrix granuli

NCBI taxonomy Id: 1499967
Other names: C. Vecturithrix granuli, Candidatus Vecturithrix granuli, bacterium UASB270

Send network to Cytoscape

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
U27_06568	rplC	U27_06568	U27_03083	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	0.878
U27_06568	rplD	U27_06568	U27_05978	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L4; Forms part of the polypeptide exit tunnel.	0.882
U27_06568	rplF	U27_06568	U27_05991	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family.	0.880
U27_06568	rplM	U27_06568	U27_03289	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	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.	0.883
U27_06568	rplP	U27_06568	U27_05984	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family.	0.912
U27_06568	rplQ	U27_06568	U27_06002	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L17.	0.882
U27_06568	rplU	U27_06568	U27_00568	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.883
U27_06568	rplV	U27_06568	U27_05982	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	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.	0.900
U27_06568	rpmA	U27_06568	U27_00569	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	50S ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family.	0.883
U27_06568	rpsO	U27_06568	U27_04729	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	30S ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.885
rplC	U27_06568	U27_03083	U27_06568	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding.	0.878
rplC	rplD	U27_03083	U27_05978	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L4; Forms part of the polypeptide exit tunnel.	0.999
rplC	rplF	U27_03083	U27_05991	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L6; This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center; Belongs to the universal ribosomal protein uL6 family.	0.999
rplC	rplM	U27_03083	U27_03289	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	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.	0.999
rplC	rplP	U27_03083	U27_05984	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family.	0.999
rplC	rplQ	U27_03083	U27_06002	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L17.	0.995
rplC	rplU	U27_03083	U27_00568	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20; Belongs to the bacterial ribosomal protein bL21 family.	0.989
rplC	rplV	U27_03083	U27_05982	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	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.	0.999
rplC	rpmA	U27_03083	U27_00569	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	50S ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family.	0.992
rplC	rpsO	U27_03083	U27_04729	50S ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit; Belongs to the universal ribosomal protein uL3 family.	30S ribosomal protein S15; Forms an intersubunit bridge (bridge B4) with the 23S rRNA of the 50S subunit in the ribosome.	0.992