(11 nodes) Hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides network (Paraburkholderia sprentiae)

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:
	APA85656.1	Dihydroorotase; Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides; Derived by automated computational analysis using gene prediction method: Protein Homology. (426 aa)
	APA87059.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (237 aa)
	pxpA	Hypothetical protein; Catalyzes the cleavage of 5-oxoproline to form L-glutamate coupled to the hydrolysis of ATP to ADP and inorganic phosphate. (250 aa)
	pyrC	Dihydroorotase; Catalyzes the reversible cyclization of carbamoyl aspartate to dihydroorotate. (353 aa)
	APA85083.1	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology. (483 aa)
	APA85067.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (74 aa)
	hutI	Imidazolonepropionase; Derived by automated computational analysis using gene prediction method: Protein Homology. (413 aa)
	APA85838.1	D-aminoacylase; Derived by automated computational analysis using gene prediction method: Protein Homology. (493 aa)
	APA84614.1	Hydroxyisourate hydrolase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the transthyretin family. 5-hydroxyisourate hydrolase subfamily. (117 aa)
	APA87763.1	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology. (496 aa)
	APA88325.1	Enamidase; Derived by automated computational analysis using gene prediction method: Protein Homology. (399 aa)

Your Current Organism:

Paraburkholderia sprentiae

NCBI taxonomy Id: 754502
Other names: Burkholderia sp. WSM5005, Burkholderia sprentiae WSM5005, P. sprentiae WSM5005, Paraburkholderia sprentiae WSM5005

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
APA85083.1	APA87763.1	BJG93_06580	BJG93_20145	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.917
APA85656.1	pyrC	BJG93_09840	BJG93_15520	Dihydroorotase; Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydroorotase; Catalyzes the reversible cyclization of carbamoyl aspartate to dihydroorotate.	0.923
APA87763.1	APA85083.1	BJG93_20145	BJG93_06580	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydropyrimidinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.917
pyrC	APA85656.1	BJG93_15520	BJG93_09840	Dihydroorotase; Catalyzes the reversible cyclization of carbamoyl aspartate to dihydroorotate.	Dihydroorotase; Catalyzes the reversible hydrolysis of the amide bond within dihydroorotate. This metabolic intermediate is required for the biosynthesis of pyrimidine nucleotides; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.923