(13 nodes) (2019) Distribution, Evolution, Catalytic Mechanism, and Physiological Functions of the Flavin-Based Electron-Bifurcating NADH-Dependent Reduced Ferredoxin: NADP(+) Oxidoreductase. network (Clostridium botulinum A ATCC 3502)

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:
	selA	L-seryl-tRNA(sec) selenium transferase; Converts seryl-tRNA(Sec) to selenocysteinyl-tRNA(Sec) required for selenoprotein biosynthesis. (462 aa)
	gap1	Similar to Bacillus megaterium glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACME (SWALL:P23722) (334 aa) fasta scores: E(): 4.3e-78, 64.86 id in 333 aa, and to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACST (SWALL:P00362) (334 aa) fasta scores: E(): 4.1e-82, 69.06 38d in 333 aa; Also similar to CBO1095 (66.26 38d). (335 aa)
	CBO0852	Putative NAD(P)H dehydrogenase. (189 aa)
	gapA2	Glyceraldehyde 3-phosphate dehydrogenase A; Also similar to CBO0226 (66.26 38d); Belongs to the glyceraldehyde-3-phosphate dehydrogenase family. (338 aa)
	aldH	Aldehyde dehydrogenase; Belongs to the aldehyde dehydrogenase family. (456 aa)
	folD	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate. (282 aa)
	nadC	Nicotinate-nucleotide pyrophosphorylase [carboxylating]; Belongs to the NadC/ModD family. (278 aa)
	nadB	L-aspartate oxidase. (433 aa)
	metF	5,10-methylenetetrahydrofolate reductase; Belongs to the methylenetetrahydrofolate reductase family. (295 aa)
	CBO2119	Putative aldehyde-alcohol dehydrogenase. (497 aa)
	bcd	butyryl-CoA dehydrogenase. (379 aa)
	rex	Conserved hypothetical protein; Modulates transcription in response to changes in cellular NADH/NAD(+) redox state. (210 aa)
	rpmG	50S ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family. (49 aa)

Your Current Organism:

Clostridium botulinum A ATCC 3502

NCBI taxonomy Id: 413999
Other names: C. botulinum A str. ATCC 3502, Clostridium botulinum A str. ATCC 3502, Clostridium botulinum A strain ATCC 3502

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
CBO0852	nadB	CBO0852	CBO1447A	Putative NAD(P)H dehydrogenase.	L-aspartate oxidase.	0.418
CBO0852	nadC	CBO0852	CBO1447	Putative NAD(P)H dehydrogenase.	Nicotinate-nucleotide pyrophosphorylase [carboxylating]; Belongs to the NadC/ModD family.	0.404
CBO0852	rpmG	CBO0852	CBO3495	Putative NAD(P)H dehydrogenase.	50S ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family.	0.531
CBO2119	bcd	CBO2119	CBO3199	Putative aldehyde-alcohol dehydrogenase.	butyryl-CoA dehydrogenase.	0.500
aldH	bcd	CBO1099	CBO3199	Aldehyde dehydrogenase; Belongs to the aldehyde dehydrogenase family.	butyryl-CoA dehydrogenase.	0.889
bcd	CBO2119	CBO3199	CBO2119	butyryl-CoA dehydrogenase.	Putative aldehyde-alcohol dehydrogenase.	0.500
bcd	aldH	CBO3199	CBO1099	butyryl-CoA dehydrogenase.	Aldehyde dehydrogenase; Belongs to the aldehyde dehydrogenase family.	0.889
bcd	rex	CBO3199	CBO3306	butyryl-CoA dehydrogenase.	Conserved hypothetical protein; Modulates transcription in response to changes in cellular NADH/NAD(+) redox state.	0.717
bcd	rpmG	CBO3199	CBO3495	butyryl-CoA dehydrogenase.	50S ribosomal protein L33; Belongs to the bacterial ribosomal protein bL33 family.	0.456
folD	gap1	CBO1172	CBO0226	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	Similar to Bacillus megaterium glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACME (SWALL:P23722) (334 aa) fasta scores: E(): 4.3e-78, 64.86 id in 333 aa, and to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACST (SWALL:P00362) (334 aa) fasta scores: E(): 4.1e-82, 69.06 38d in 333 aa; Also similar to CBO1095 (66.26 38d).	0.600
folD	gapA2	CBO1172	CBO1095	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	Glyceraldehyde 3-phosphate dehydrogenase A; Also similar to CBO0226 (66.26 38d); Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.	0.604
folD	metF	CBO1172	CBO1621	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	5,10-methylenetetrahydrofolate reductase; Belongs to the methylenetetrahydrofolate reductase family.	0.985
gap1	folD	CBO0226	CBO1172	Similar to Bacillus megaterium glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACME (SWALL:P23722) (334 aa) fasta scores: E(): 4.3e-78, 64.86 id in 333 aa, and to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACST (SWALL:P00362) (334 aa) fasta scores: E(): 4.1e-82, 69.06 38d in 333 aa; Also similar to CBO1095 (66.26 38d).	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	0.600
gap1	gapA2	CBO0226	CBO1095	Similar to Bacillus megaterium glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACME (SWALL:P23722) (334 aa) fasta scores: E(): 4.3e-78, 64.86 id in 333 aa, and to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACST (SWALL:P00362) (334 aa) fasta scores: E(): 4.1e-82, 69.06 38d in 333 aa; Also similar to CBO1095 (66.26 38d).	Glyceraldehyde 3-phosphate dehydrogenase A; Also similar to CBO0226 (66.26 38d); Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.	0.901
gapA2	folD	CBO1095	CBO1172	Glyceraldehyde 3-phosphate dehydrogenase A; Also similar to CBO0226 (66.26 38d); Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	0.604
gapA2	gap1	CBO1095	CBO0226	Glyceraldehyde 3-phosphate dehydrogenase A; Also similar to CBO0226 (66.26 38d); Belongs to the glyceraldehyde-3-phosphate dehydrogenase family.	Similar to Bacillus megaterium glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACME (SWALL:P23722) (334 aa) fasta scores: E(): 4.3e-78, 64.86 id in 333 aa, and to Bacillus stearothermophilus glyceraldehyde 3-phosphate dehydrogenase Gap SWALL:G3P_BACST (SWALL:P00362) (334 aa) fasta scores: E(): 4.1e-82, 69.06 38d in 333 aa; Also similar to CBO1095 (66.26 38d).	0.901
metF	folD	CBO1621	CBO1172	5,10-methylenetetrahydrofolate reductase; Belongs to the methylenetetrahydrofolate reductase family.	Putative methylenetetrahydrofolate dehydrogenase; Catalyzes the oxidation of 5,10-methylenetetrahydrofolate to 5,10-methenyltetrahydrofolate and then the hydrolysis of 5,10- methenyltetrahydrofolate to 10-formyltetrahydrofolate.	0.985
nadB	CBO0852	CBO1447A	CBO0852	L-aspartate oxidase.	Putative NAD(P)H dehydrogenase.	0.418
nadB	nadC	CBO1447A	CBO1447	L-aspartate oxidase.	Nicotinate-nucleotide pyrophosphorylase [carboxylating]; Belongs to the NadC/ModD family.	0.999
nadC	CBO0852	CBO1447	CBO0852	Nicotinate-nucleotide pyrophosphorylase [carboxylating]; Belongs to the NadC/ModD family.	Putative NAD(P)H dehydrogenase.	0.404