kynB 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

kynB

Kynurenine formamidase. (211 aa)

Predicted Functional Partners:

nifJ

0.829

accB

0.803

alkA_1

0.773

cfiB

0.701

hndA_1

0.669

kce

0.664

OPJ57234.1

0.628

hndD_1

0.585

hndD_2

0.585

hndD_3

0.585

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
OPJ57234.1	alkA_1	CLOTH_05170	CLOTH_05160	Hypothetical protein.	DNA-3-methyladenine glycosylase.	0.628
OPJ57234.1	kynB	CLOTH_05170	CLOTH_05150	Hypothetical protein.	Kynurenine formamidase.	0.628
accB	cfiB	CLOTH_04800	CLOTH_05770	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.	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	0.924
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	kynB	CLOTH_04800	CLOTH_05150	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.	Kynurenine formamidase.	0.803
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
alkA_1	OPJ57234.1	CLOTH_05160	CLOTH_05170	DNA-3-methyladenine glycosylase.	Hypothetical protein.	0.628
alkA_1	kynB	CLOTH_05160	CLOTH_05150	DNA-3-methyladenine glycosylase.	Kynurenine formamidase.	0.773
cfiB	accB	CLOTH_05770	CLOTH_04800	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	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.	0.924
cfiB	hndA_1	CLOTH_05770	CLOTH_04650	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	NADP-reducing hydrogenase subunit HndA.	0.901
cfiB	kynB	CLOTH_05770	CLOTH_05150	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	Kynurenine formamidase.	0.701
cfiB	nifJ	CLOTH_05770	CLOTH_01250	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	Pyruvate-flavodoxin oxidoreductase.	0.965
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	cfiB	CLOTH_04650	CLOTH_05770	NADP-reducing hydrogenase subunit HndA.	2-oxoglutarate carboxylase small subunit; Catalyzes a 2-step reaction, involving the ATP-dependent carboxylation of the covalently attached biotin in the first step and the transfer of the carboxyl group to pyruvate in the second.	0.901
hndA_1	hndD_1	CLOTH_04650	CLOTH_04670	NADP-reducing hydrogenase subunit HndA.	NADP-reducing hydrogenase subunit HndC.	0.999
hndA_1	hndD_2	CLOTH_04650	CLOTH_07670	NADP-reducing hydrogenase subunit HndA.	NADP-reducing hydrogenase subunit HndC.	0.999
hndA_1	hndD_3	CLOTH_04650	CLOTH_17830	NADP-reducing hydrogenase subunit HndA.	NADP-reducing hydrogenase subunit HndC.	0.999
hndA_1	kynB	CLOTH_04650	CLOTH_05150	NADP-reducing hydrogenase subunit HndA.	Kynurenine formamidase.	0.669
hndA_1	nifJ	CLOTH_04650	CLOTH_01250	NADP-reducing hydrogenase subunit HndA.	Pyruvate-flavodoxin oxidoreductase.	0.999
hndD_1	hndA_1	CLOTH_04670	CLOTH_04650	NADP-reducing hydrogenase subunit HndC.	NADP-reducing hydrogenase subunit HndA.	0.999