typA protein (Rhodobacterales bacterium Y4I)

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

typA

GTP-binding protein TypA/BipA; [J] COG0480 Translation elongation factors (GTPases). (606 aa)

Predicted Functional Partners:

rplA

0.832

guaA

0.805

tsf

0.707

ychF

0.703

trmD

0.687

rhlE

0.681

rpsI

0.672

engA

0.670

RBY4I_12

0.662

rpoB

0.662

Your Current Organism:

Rhodobacterales bacterium Y4I

NCBI taxonomy Id: 439496
Other names: R. bacterium Y4I

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
RBY4I_12	guaA	RBY4I_12	RBY4I_3904	Conserved hypothetical protein.	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	0.534
RBY4I_12	typA	RBY4I_12	RBY4I_2461	Conserved hypothetical protein.	GTP-binding protein TypA/BipA; [J] COG0480 Translation elongation factors (GTPases).	0.662
engA	guaA	RBY4I_2802	RBY4I_3904	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	0.534
engA	rplA	RBY4I_2802	RBY4I_667	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release.	0.698
engA	tsf	RBY4I_2802	RBY4I_1660	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	Translation elongation factor Ts; Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome. Belongs to the EF-Ts family.	0.434
engA	typA	RBY4I_2802	RBY4I_2461	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	GTP-binding protein TypA/BipA; [J] COG0480 Translation elongation factors (GTPases).	0.670
guaA	RBY4I_12	RBY4I_3904	RBY4I_12	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	Conserved hypothetical protein.	0.534
guaA	engA	RBY4I_3904	RBY4I_2802	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	0.534
guaA	rplA	RBY4I_3904	RBY4I_667	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release.	0.966
guaA	rpoB	RBY4I_3904	RBY4I_1412	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.940
guaA	rpsI	RBY4I_3904	RBY4I_3179	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	[J] COG0103 Ribosomal protein S9; Belongs to the universal ribosomal protein uS9 family.	0.548
guaA	trmD	RBY4I_3904	RBY4I_2516	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	tRNA (guanine-N1)-methyltransferase; Specifically methylates guanosine-37 in various tRNAs. Belongs to the RNA methyltransferase TrmD family.	0.670
guaA	tsf	RBY4I_3904	RBY4I_1660	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	Translation elongation factor Ts; Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF- Tu.GTP complex up to the GTP hydrolysis stage on the ribosome. Belongs to the EF-Ts family.	0.769
guaA	typA	RBY4I_3904	RBY4I_2461	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	GTP-binding protein TypA/BipA; [J] COG0480 Translation elongation factors (GTPases).	0.805
guaA	ychF	RBY4I_3904	RBY4I_3518	GMP synthase (glutamine-hydrolyzing); Catalyzes the synthesis of GMP from XMP.	GTP-binding protein YchF; ATPase that binds to both the 70S ribosome and the 50S ribosomal subunit in a nucleotide-independent manner.	0.812
rhlE	rplA	RBY4I_2934	RBY4I_667	[LKJ] COG0513 Superfamily II DNA and RNA helicases; Belongs to the DEAD box helicase family.	Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release.	0.771
rhlE	rpoB	RBY4I_2934	RBY4I_1412	[LKJ] COG0513 Superfamily II DNA and RNA helicases; Belongs to the DEAD box helicase family.	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.854
rhlE	typA	RBY4I_2934	RBY4I_2461	[LKJ] COG0513 Superfamily II DNA and RNA helicases; Belongs to the DEAD box helicase family.	GTP-binding protein TypA/BipA; [J] COG0480 Translation elongation factors (GTPases).	0.681
rhlE	ychF	RBY4I_2934	RBY4I_3518	[LKJ] COG0513 Superfamily II DNA and RNA helicases; Belongs to the DEAD box helicase family.	GTP-binding protein YchF; ATPase that binds to both the 70S ribosome and the 50S ribosomal subunit in a nucleotide-independent manner.	0.465
rplA	engA	RBY4I_667	RBY4I_2802	Ribosomal protein L1; Binds directly to 23S rRNA. The L1 stalk is quite mobile in the ribosome, and is involved in E site tRNA release.	GTP-binding protein EngA; GTPase that plays an essential role in the late steps of ribosome biogenesis; Belongs to the TRAFAC class TrmE-Era-EngA-EngB-Septin-like GTPase superfamily. EngA (Der) GTPase family.	0.698