OPJ57221.1 protein (Clostridium thermoalcaliphilum)

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

OPJ57221.1

Hypothetical protein. (497 aa)

Predicted Functional Partners:

pflA_1

0.929

ydaM_1

0.869

ribBA

0.771

OPJ57056.1

0.714

queE

0.679

pflA_3

0.679

rpfG_3

0.650

kinE

0.630

ydaM_2

0.599

grpE

0.568

Your Current Organism:

Clostridium thermoalcaliphilum

NCBI taxonomy Id: 29349
Other names: ATCC 51508, CIP 105528, DSM 7309, [. thermoalcaliphilum, [Clostridium] thermoalcaliphilum, strain JW/YL23-2

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
OPJ57056.1	OPJ57221.1	CLOTH_03380	CLOTH_05040	Putative GTP cyclohydrolase 1 type 2; Belongs to the GTP cyclohydrolase I type 2/NIF3 family.	Hypothetical protein.	0.714
OPJ57056.1	ribBA	CLOTH_03380	CLOTH_14300	Putative GTP cyclohydrolase 1 type 2; Belongs to the GTP cyclohydrolase I type 2/NIF3 family.	Riboflavin biosynthesis protein RibBA; Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate; In the C-terminal section; belongs to the GTP cyclohydrolase II family.	0.872
OPJ57221.1	OPJ57056.1	CLOTH_05040	CLOTH_03380	Hypothetical protein.	Putative GTP cyclohydrolase 1 type 2; Belongs to the GTP cyclohydrolase I type 2/NIF3 family.	0.714
OPJ57221.1	grpE	CLOTH_05040	CLOTH_13610	Hypothetical protein.	Protein GrpE; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent i [...]	0.568
OPJ57221.1	kinE	CLOTH_05040	CLOTH_12130	Hypothetical protein.	Sporulation kinase E.	0.630
OPJ57221.1	pflA_1	CLOTH_05040	CLOTH_05030	Hypothetical protein.	Pyruvate formate-lyase 1-activating enzyme.	0.929
OPJ57221.1	pflA_3	CLOTH_05040	CLOTH_20320	Hypothetical protein.	Pyruvate formate-lyase 1-activating enzyme; Activation of anaerobic ribonucleoside-triphosphate reductase under anaerobic conditions by generation of an organic free radical, using S-adenosylmethionine and reduced flavodoxin as cosubstrates to produce 5'-deoxy-adenosine.	0.679
OPJ57221.1	queE	CLOTH_05040	CLOTH_03570	Hypothetical protein.	7-carboxy-7-deazaguanine synthase; Catalyzes the complex heterocyclic radical-mediated conversion of 6-carboxy-5,6,7,8-tetrahydropterin (CPH4) to 7-carboxy-7- deazaguanine (CDG), a step common to the biosynthetic pathways of all 7-deazapurine-containing compounds.	0.679
OPJ57221.1	ribBA	CLOTH_05040	CLOTH_14300	Hypothetical protein.	Riboflavin biosynthesis protein RibBA; Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate; In the C-terminal section; belongs to the GTP cyclohydrolase II family.	0.771
OPJ57221.1	rpfG_3	CLOTH_05040	CLOTH_15990	Hypothetical protein.	Cyclic di-GMP phosphodiesterase response regulator RpfG.	0.650
OPJ57221.1	ydaM_1	CLOTH_05040	CLOTH_10170	Hypothetical protein.	Putative diguanylate cyclase YdaM.	0.869
OPJ57221.1	ydaM_2	CLOTH_05040	CLOTH_14220	Hypothetical protein.	Putative diguanylate cyclase YdaM.	0.599
grpE	OPJ57221.1	CLOTH_13610	CLOTH_05040	Protein GrpE; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent i [...]	Hypothetical protein.	0.568
grpE	ribBA	CLOTH_13610	CLOTH_14300	Protein GrpE; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins, in association with DnaK and GrpE. It is the nucleotide exchange factor for DnaK and may function as a thermosensor. Unfolded proteins bind initially to DnaJ; upon interaction with the DnaJ-bound protein, DnaK hydrolyzes its bound ATP, resulting in the formation of a stable complex. GrpE releases ADP from DnaK; ATP binding to DnaK triggers the release of the substrate protein, thus completing the reaction cycle. Several rounds of ATP-dependent i [...]	Riboflavin biosynthesis protein RibBA; Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate; In the C-terminal section; belongs to the GTP cyclohydrolase II family.	0.533
kinE	OPJ57221.1	CLOTH_12130	CLOTH_05040	Sporulation kinase E.	Hypothetical protein.	0.630
kinE	ribBA	CLOTH_12130	CLOTH_14300	Sporulation kinase E.	Riboflavin biosynthesis protein RibBA; Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate; In the C-terminal section; belongs to the GTP cyclohydrolase II family.	0.942
kinE	rpfG_3	CLOTH_12130	CLOTH_15990	Sporulation kinase E.	Cyclic di-GMP phosphodiesterase response regulator RpfG.	0.981
kinE	ydaM_1	CLOTH_12130	CLOTH_10170	Sporulation kinase E.	Putative diguanylate cyclase YdaM.	0.994
kinE	ydaM_2	CLOTH_12130	CLOTH_14220	Sporulation kinase E.	Putative diguanylate cyclase YdaM.	0.988
pflA_1	OPJ57221.1	CLOTH_05030	CLOTH_05040	Pyruvate formate-lyase 1-activating enzyme.	Hypothetical protein.	0.929