(25 nodes) Ribonucleoside bisphosphate metabolic process network (Methanosarcina sp. WWM596)

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:
	AKB17229.1	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family. (349 aa)
	coaD	Phosphopantetheine adenylyltransferase, type II eukaryotic; Reversibly transfers an adenylyl group from ATP to 4'- phosphopantetheine, yielding dephospho-CoA (dPCoA) and pyrophosphate. Belongs to the eukaryotic CoaD family. (154 aa)
	cdhE	5-tetrahydromethanopterin:corrinoid iron-sulfur protein methyltransferase; Part of a complex that catalyzes the reversible cleavage of acetyl-CoA, allowing growth on acetate as sole source of carbon and energy. (468 aa)
	cdhC	CO dehydrogenase/acetyl-CoA synthase subunit beta, acetyl-CoA synthase; Part of a complex that catalyzes the reversible cleavage of acetyl-CoA, allowing growth on acetate as sole source of carbon and energy. The alpha-epsilon complex generates CO from CO(2), while the beta subunit (this protein) combines the CO with CoA and a methyl group to form acetyl-CoA. The methyl group, which is incorporated into acetyl-CoA, is transferred to the beta subunit by a corrinoid iron- sulfur protein (the gamma-delta complex). (469 aa)
	cdhA	CO dehydrogenase/acetyl-CoA synthase subunit alpha, CO dehydrogenase subcomplex; Part of the ACDS complex that catalyzes the reversible cleavage of acetyl-CoA, allowing growth on acetate as sole source of carbon and energy. The alpha-epsilon subcomponent functions as a carbon monoxide dehydrogenase. (806 aa)
	AKB17730.1	Glutamate synthase [NADPH] small chain. (469 aa)
	AKB17780.1	Indolepyruvate oxidoreductase subunit IorB. (200 aa)
	AKB17807.1	Bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase. (211 aa)
	AKB17902.1	Hydroxymethylglutaryl-CoA reductase; Belongs to the HMG-CoA reductase family. (418 aa)
	AKB18082.1	Glutamate decarboxylase. (396 aa)
	AKB18253.1	Acyl-coenzyme A synthetase/AMP-(fatty) acid ligase. (557 aa)
	AKB18368.1	Glutamate decarboxylase. (468 aa)
	AKB18703.1	Tungsten-containing formylmethanofuran dehydrogenase 2 subunit G. (154 aa)
	mvk	Mevalonate kinase; Catalyzes the phosphorylation of (R)-mevalonate (MVA) to (R)- mevalonate 5-phosphate (MVAP). Functions in the mevalonate (MVA) pathway leading to isopentenyl diphosphate (IPP), a key precursor for the biosynthesis of isoprenoid compounds such as archaeal membrane lipids; Belongs to the GHMP kinase family. Mevalonate kinase subfamily. (301 aa)
	AKB19509.1	Hypothetical protein; Catalyzes the GTP-dependent phosphorylation of the 3'- hydroxyl group of dephosphocoenzyme A to form coenzyme A (CoA). (181 aa)
	ackA	Acetate kinase; Catalyzes the formation of acetyl phosphate from acetate and ATP. Can also catalyze the reverse reaction; Belongs to the acetokinase family. (408 aa)
	AKB19695.1	Phosphopantothenoylcysteine synthetase. (446 aa)
	AKB19696.1	Pantoate kinase, archaeal. (300 aa)
	AKB19697.1	Phosphopantothenate synthetase, archaeal. (253 aa)
	AKB19951.1	Indolepyruvate oxidoreductase subunit IorB. (215 aa)
	AKB20243.1	Pyruvate:ferredoxin oxidoreductase, gamma subunit. (182 aa)
	AKB20244.1	Pyruvate:ferredoxin oxidoreductase, delta subunit. (86 aa)
	AKB20245.1	Pyruvate:ferredoxin oxidoreductase, alpha subunit. (403 aa)
	AKB20246.1	Pyruvate:ferredoxin oxidoreductase, beta subunit. (296 aa)
	mfnA	L-tyrosine decarboxylase; Catalyzes the decarboxylation of L-tyrosine to produce tyramine for methanofuran biosynthesis. Can also catalyze the decarboxylation of L-aspartate to produce beta-alanine for coenzyme A (CoA) biosynthesis; Belongs to the group II decarboxylase family. MfnA subfamily. (395 aa)

Your Current Organism:

Methanosarcina sp. WWM596

NCBI taxonomy Id: 1434103
Other names: M. sp. WWM596

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
AKB17229.1	AKB17902.1	MSWHS_0366	MSWHS_1039	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Hydroxymethylglutaryl-CoA reductase; Belongs to the HMG-CoA reductase family.	0.999
AKB17229.1	AKB18253.1	MSWHS_0366	MSWHS_1390	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Acyl-coenzyme A synthetase/AMP-(fatty) acid ligase.	0.412
AKB17229.1	AKB20243.1	MSWHS_0366	MSWHS_3380	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Pyruvate:ferredoxin oxidoreductase, gamma subunit.	0.917
AKB17229.1	AKB20244.1	MSWHS_0366	MSWHS_3381	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Pyruvate:ferredoxin oxidoreductase, delta subunit.	0.901
AKB17229.1	AKB20245.1	MSWHS_0366	MSWHS_3382	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Pyruvate:ferredoxin oxidoreductase, alpha subunit.	0.901
AKB17229.1	AKB20246.1	MSWHS_0366	MSWHS_3383	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Pyruvate:ferredoxin oxidoreductase, beta subunit.	0.908
AKB17229.1	mvk	MSWHS_0366	MSWHS_2304	Hydroxymethylglutaryl-CoA synthase; Belongs to the thiolase-like superfamily. UPF0219 family.	Mevalonate kinase; Catalyzes the phosphorylation of (R)-mevalonate (MVA) to (R)- mevalonate 5-phosphate (MVAP). Functions in the mevalonate (MVA) pathway leading to isopentenyl diphosphate (IPP), a key precursor for the biosynthesis of isoprenoid compounds such as archaeal membrane lipids; Belongs to the GHMP kinase family. Mevalonate kinase subfamily.	0.790
AKB17730.1	AKB17780.1	MSWHS_0867	MSWHS_0917	Glutamate synthase [NADPH] small chain.	Indolepyruvate oxidoreductase subunit IorB.	0.413
AKB17730.1	AKB18082.1	MSWHS_0867	MSWHS_1219	Glutamate synthase [NADPH] small chain.	Glutamate decarboxylase.	0.903
AKB17730.1	AKB18253.1	MSWHS_0867	MSWHS_1390	Glutamate synthase [NADPH] small chain.	Acyl-coenzyme A synthetase/AMP-(fatty) acid ligase.	0.811
AKB17730.1	AKB18368.1	MSWHS_0867	MSWHS_1505	Glutamate synthase [NADPH] small chain.	Glutamate decarboxylase.	0.903
AKB17730.1	AKB18703.1	MSWHS_0867	MSWHS_1840	Glutamate synthase [NADPH] small chain.	Tungsten-containing formylmethanofuran dehydrogenase 2 subunit G.	0.949
AKB17730.1	AKB19951.1	MSWHS_0867	MSWHS_3088	Glutamate synthase [NADPH] small chain.	Indolepyruvate oxidoreductase subunit IorB.	0.413
AKB17730.1	AKB20243.1	MSWHS_0867	MSWHS_3380	Glutamate synthase [NADPH] small chain.	Pyruvate:ferredoxin oxidoreductase, gamma subunit.	0.502
AKB17730.1	AKB20244.1	MSWHS_0867	MSWHS_3381	Glutamate synthase [NADPH] small chain.	Pyruvate:ferredoxin oxidoreductase, delta subunit.	0.425
AKB17730.1	AKB20245.1	MSWHS_0867	MSWHS_3382	Glutamate synthase [NADPH] small chain.	Pyruvate:ferredoxin oxidoreductase, alpha subunit.	0.593
AKB17730.1	AKB20246.1	MSWHS_0867	MSWHS_3383	Glutamate synthase [NADPH] small chain.	Pyruvate:ferredoxin oxidoreductase, beta subunit.	0.635
AKB17730.1	cdhC	MSWHS_0867	MSWHS_0846	Glutamate synthase [NADPH] small chain.	CO dehydrogenase/acetyl-CoA synthase subunit beta, acetyl-CoA synthase; Part of a complex that catalyzes the reversible cleavage of acetyl-CoA, allowing growth on acetate as sole source of carbon and energy. The alpha-epsilon complex generates CO from CO(2), while the beta subunit (this protein) combines the CO with CoA and a methyl group to form acetyl-CoA. The methyl group, which is incorporated into acetyl-CoA, is transferred to the beta subunit by a corrinoid iron- sulfur protein (the gamma-delta complex).	0.985
AKB17730.1	cdhE	MSWHS_0867	MSWHS_0843	Glutamate synthase [NADPH] small chain.	5-tetrahydromethanopterin:corrinoid iron-sulfur protein methyltransferase; Part of a complex that catalyzes the reversible cleavage of acetyl-CoA, allowing growth on acetate as sole source of carbon and energy.	0.895
AKB17780.1	AKB17730.1	MSWHS_0917	MSWHS_0867	Indolepyruvate oxidoreductase subunit IorB.	Glutamate synthase [NADPH] small chain.	0.413