serA protein (Synechococcus sp. WH 8102) - 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

serA

Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family. (528 aa)

Predicted Functional Partners:

pgmI

0.907

SYNW1209

0.905

SYNW1344

0.809

prmA

0.789

rpl6,

0.750

rpl22,

0.686

rpl16,

0.683

DHSS

0.682

rpl2,

0.673

rpl27,

0.671

Your Current Organism:

Synechococcus sp. WH 8102

NCBI taxonomy Id: 84588
Other names: S. sp. WH 8102, Synechococcus sp. WH8102

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DHSS	serA	SYNW0045	SYNW0533	Soluble hydrogenase small subunit; BELONGS TO CLASS-V OF PYRIDOXAL-PHOSPHATE-DEPENDENT AMINOTRANSFERASES.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.682
SYNW1209	pgmI	SYNW1209	SYNW0519	Conserved hypothetical protein.	Phosphoglycerate mutase, co-factor-independent (iPGM); Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglycerate.	0.900
SYNW1209	serA	SYNW1209	SYNW0533	Conserved hypothetical protein.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.905
SYNW1344	serA	SYNW1344	SYNW0533	Possible phosphoribulokinase/uridine kinase family protein.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.809
pgmI	SYNW1209	SYNW0519	SYNW1209	Phosphoglycerate mutase, co-factor-independent (iPGM); Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglycerate.	Conserved hypothetical protein.	0.900
pgmI	serA	SYNW0519	SYNW0533	Phosphoglycerate mutase, co-factor-independent (iPGM); Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglycerate.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.907
prmA	serA	SYNW0534	SYNW0533	Putative methyltransferase for Ribosomal protein L11; Methylates ribosomal protein L11; Belongs to the methyltransferase superfamily. PrmA family.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.789
rpl16,	rpl2,	SYNW2074	SYNW2070	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.	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	0.999
rpl16,	rpl22,	SYNW2074	SYNW2072	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.	50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).	0.999
rpl16,	rpl27,	SYNW2074	SYNW0546	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.	50S ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family.	0.996
rpl16,	rpl6,	SYNW2074	SYNW2081	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.	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
rpl16,	serA	SYNW2074	SYNW0533	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.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.683
rpl2,	rpl16,	SYNW2070	SYNW2074	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 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
rpl2,	rpl22,	SYNW2070	SYNW2072	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).	0.999
rpl2,	rpl27,	SYNW2070	SYNW0546	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	50S ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family.	0.996
rpl2,	rpl6,	SYNW2070	SYNW2081	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 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
rpl2,	serA	SYNW2070	SYNW0533	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	Putative D-3-phosphoglycerate dehydrogenase (PGDH); Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.	0.673
rpl22,	rpl16,	SYNW2072	SYNW2074	50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).	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
rpl22,	rpl2,	SYNW2072	SYNW2070	50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).	50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family.	0.999
rpl22,	rpl27,	SYNW2072	SYNW0546	50S ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).	50S ribosomal protein L27; Belongs to the bacterial ribosomal protein bL27 family.	0.991