ldh 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.

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

ldh

L-lactate dehydrogenase. (414 aa)

Predicted Functional Partners:

nifJ

0.994

pyk

0.991

hndA_1

0.980

nadD_1

0.945

OPJ56465.1

0.934

accB

0.930

hndC_1

0.900

hndC_2

0.900

arsD

0.886

sucD

0.857

Your Current Organism:

Clostridium thermoalcaliphilum

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

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
OPJ56465.1	ldh	CLOTH_08700	CLOTH_08710	NADPH-dependent FMN reductase.	L-lactate dehydrogenase.	0.934
OPJ56465.1	nadD_1	CLOTH_08700	CLOTH_08720	NADPH-dependent FMN reductase.	Nicotinate-nucleotide adenylyltransferase.	0.920
accB	arsD	CLOTH_04800	CLOTH_09970	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	Arsenical resistance operon trans-acting repressor ArsD.	0.801
accB	hndA_1	CLOTH_04800	CLOTH_04650	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	NADP-reducing hydrogenase subunit HndA.	0.910
accB	hndC_1	CLOTH_04800	CLOTH_04660	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	NADP-reducing hydrogenase subunit HndC.	0.906
accB	hndC_2	CLOTH_04800	CLOTH_07660	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	NADP-reducing hydrogenase subunit HndC.	0.906
accB	ldh	CLOTH_04800	CLOTH_08710	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	L-lactate dehydrogenase.	0.930
accB	nifJ	CLOTH_04800	CLOTH_01250	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	Pyruvate-flavodoxin oxidoreductase.	0.978
accB	pyk	CLOTH_04800	CLOTH_18010	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	Pyruvate kinase; Belongs to the pyruvate kinase family.	0.965
accB	sucD	CLOTH_04800	CLOTH_06490	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	succinyl-CoA ligase [ADP-forming] subunit alpha; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit.	0.928
arsD	accB	CLOTH_09970	CLOTH_04800	Arsenical resistance operon trans-acting repressor ArsD.	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	0.801
arsD	hndA_1	CLOTH_09970	CLOTH_04650	Arsenical resistance operon trans-acting repressor ArsD.	NADP-reducing hydrogenase subunit HndA.	0.973
arsD	hndC_1	CLOTH_09970	CLOTH_04660	Arsenical resistance operon trans-acting repressor ArsD.	NADP-reducing hydrogenase subunit HndC.	0.776
arsD	hndC_2	CLOTH_09970	CLOTH_07660	Arsenical resistance operon trans-acting repressor ArsD.	NADP-reducing hydrogenase subunit HndC.	0.776
arsD	ldh	CLOTH_09970	CLOTH_08710	Arsenical resistance operon trans-acting repressor ArsD.	L-lactate dehydrogenase.	0.886
arsD	nifJ	CLOTH_09970	CLOTH_01250	Arsenical resistance operon trans-acting repressor ArsD.	Pyruvate-flavodoxin oxidoreductase.	0.999
arsD	pyk	CLOTH_09970	CLOTH_18010	Arsenical resistance operon trans-acting repressor ArsD.	Pyruvate kinase; Belongs to the pyruvate kinase family.	0.867
arsD	sucD	CLOTH_09970	CLOTH_06490	Arsenical resistance operon trans-acting repressor ArsD.	succinyl-CoA ligase [ADP-forming] subunit alpha; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit.	0.594
hndA_1	accB	CLOTH_04650	CLOTH_04800	NADP-reducing hydrogenase subunit HndA.	Biotin carboxyl carrier protein of acetyl-CoA carboxylase; This protein is a component of the acetyl coenzyme A carboxylase complex; first, biotin carboxylase catalyzes the carboxylation of the carrier protein and then the transcarboxylase transfers the carboxyl group to form malonyl-CoA.	0.910
hndA_1	arsD	CLOTH_04650	CLOTH_09970	NADP-reducing hydrogenase subunit HndA.	Arsenical resistance operon trans-acting repressor ArsD.	0.973