carB-2 protein (Lachnospiraceae bacterium A4)

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

carB-2

Carbamoyl-phosphate synthase large chain; Belongs to the CarB family. (1064 aa)

Predicted Functional Partners:

carA

0.999

carA-2

0.999

pyrB

0.998

pyrC

0.989

C804_02956

0.958

argG

0.954

C804_05642

0.950

pyrD

0.936

C804_00542

0.915

C804_04866

0.903

Your Current Organism:

Lachnospiraceae bacterium A4

NCBI taxonomy Id: 397291
Other names: L. bacterium A4

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
C804_00542	C804_02956	C804_00542	C804_02956	Phosphoribosylformylglycinamidine synthase.	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	0.460
C804_00542	C804_04866	C804_00542	C804_04866	Phosphoribosylformylglycinamidine synthase.	Glutamate synthase (ferredoxin).	0.575
C804_00542	argG	C804_00542	C804_04893	Phosphoribosylformylglycinamidine synthase.	Argininosuccinate synthase; Belongs to the argininosuccinate synthase family. Type 1 subfamily.	0.748
C804_00542	carA	C804_00542	C804_00893	Phosphoribosylformylglycinamidine synthase.	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.988
C804_00542	carA-2	C804_00542	C804_01930	Phosphoribosylformylglycinamidine synthase.	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.988
C804_00542	carB-2	C804_00542	C804_01929	Phosphoribosylformylglycinamidine synthase.	Carbamoyl-phosphate synthase large chain; Belongs to the CarB family.	0.915
C804_00542	pyrB	C804_00542	C804_05641	Phosphoribosylformylglycinamidine synthase.	Aspartate carbamoyltransferase; Belongs to the aspartate/ornithine carbamoyltransferase superfamily. ATCase family.	0.855
C804_00542	pyrC	C804_00542	C804_03662	Phosphoribosylformylglycinamidine synthase.	Dihydroorotase, multifunctional complex type; Catalyzes the reversible cyclization of carbamoyl aspartate to dihydroorotate; Belongs to the metallo-dependent hydrolases superfamily. DHOase family. Class I DHOase subfamily.	0.686
C804_00542	pyrD	C804_00542	C804_01746	Phosphoribosylformylglycinamidine synthase.	Dihydroorotate dehydrogenase; Catalyzes the conversion of dihydroorotate to orotate.	0.814
C804_02956	C804_00542	C804_02956	C804_00542	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Phosphoribosylformylglycinamidine synthase.	0.460
C804_02956	C804_05642	C804_02956	C804_05642	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Aspartate carbamoyltransferase, regulatory subunit.	0.963
C804_02956	argG	C804_02956	C804_04893	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Argininosuccinate synthase; Belongs to the argininosuccinate synthase family. Type 1 subfamily.	0.998
C804_02956	carA	C804_02956	C804_00893	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.958
C804_02956	carA-2	C804_02956	C804_01930	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.958
C804_02956	carB-2	C804_02956	C804_01929	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Carbamoyl-phosphate synthase large chain; Belongs to the CarB family.	0.958
C804_02956	pyrB	C804_02956	C804_05641	Ornithine carbamoyltransferase; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline.	Aspartate carbamoyltransferase; Belongs to the aspartate/ornithine carbamoyltransferase superfamily. ATCase family.	0.961
C804_04866	C804_00542	C804_04866	C804_00542	Glutamate synthase (ferredoxin).	Phosphoribosylformylglycinamidine synthase.	0.575
C804_04866	argG	C804_04866	C804_04893	Glutamate synthase (ferredoxin).	Argininosuccinate synthase; Belongs to the argininosuccinate synthase family. Type 1 subfamily.	0.566
C804_04866	carA	C804_04866	C804_00893	Glutamate synthase (ferredoxin).	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.884
C804_04866	carA-2	C804_04866	C804_01930	Glutamate synthase (ferredoxin).	Carbamoyl-phosphate synthase, small subunit; Belongs to the CarA family.	0.884