(7 nodes) Alanine racemase, N-terminal domain network (Streptomyces auratus)

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:
	SU9_28591	COG0019 Diaminopimelate decarboxylase. (415 aa)
	SU9_03501	COG0019 Diaminopimelate decarboxylase. (398 aa)
	lysA	Diaminopimelate decarboxylase; Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine. (463 aa)
	SU9_14236	Hypothetical protein; COG0787 Alanine racemase. (343 aa)
	SU9_16892	Alanine racemase; Catalyzes the interconversion of L-alanine and D-alanine. May also act on other amino acids; Belongs to the alanine racemase family. (395 aa)
	SU9_23220	Alanine racemase; Pyridoxal 5'-phosphate (PLP)-binding protein, which is involved in PLP homeostasis; Belongs to the pyridoxal phosphate-binding protein YggS/PROSC family. (240 aa)
	SU9_30424	Alanine racemase domain-containing protein; COG3616 Predicted amino acid aldolase or racemase. (416 aa)

Your Current Organism:

Streptomyces auratus

NCBI taxonomy Id: 1160718
Other names: S. auratus AGR0001, Streptomyces auratus AGR0001, Streptomyces auratus str. AGR0001, Streptomyces auratus strain AGR0001

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
SU9_03501	lysA	SU9_03501	SU9_07685	COG0019 Diaminopimelate decarboxylase.	Diaminopimelate decarboxylase; Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine.	0.812
SU9_28591	lysA	SU9_28591	SU9_07685	COG0019 Diaminopimelate decarboxylase.	Diaminopimelate decarboxylase; Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine.	0.804
lysA	SU9_03501	SU9_07685	SU9_03501	Diaminopimelate decarboxylase; Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine.	COG0019 Diaminopimelate decarboxylase.	0.812
lysA	SU9_28591	SU9_07685	SU9_28591	Diaminopimelate decarboxylase; Specifically catalyzes the decarboxylation of meso- diaminopimelate (meso-DAP) to L-lysine.	COG0019 Diaminopimelate decarboxylase.	0.804