(10 nodes) Photosystem II repair network (Oryza sativa f. spontanea)

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:
	A0A0E0GJM1	Uncharacterized protein. (157 aa)
	A0A0E0JCJ2	Uncharacterized protein. (314 aa)
	A0A0E0HX62	Uncharacterized protein. (334 aa)
	A0A0E0HIM5	PDZ domain-containing protein. (437 aa)
	A0A0E0HE70	TPM_phosphatase domain-containing protein. (361 aa)
	A0A0E0H9D1	PDZ domain-containing protein. (534 aa)
	A0A0E0H1P4	PDZ domain-containing protein. (508 aa)
	A0A0E0GTN1	Uncharacterized protein. (54 aa)
	A0A0E0FY36	Uncharacterized protein. (92 aa)
	A0A0E0FJS4	Uncharacterized protein; Belongs to the mitochondrial carrier (TC 2.A.29) family. (369 aa)

Your Current Organism:

Oryza sativa f. spontanea

NCBI taxonomy Id: 4536
Other names: O. sativa f. spontanea, Oryza nivara, Oryza nivara S.D.Sharma & Shastry, Oryza sativa f. spontanea Roshev. nom. illeg.

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 annotation	node2 annotation	score
A0A0E0GJM1	A0A0E0GTN1	Uncharacterized protein.	Uncharacterized protein.	0.451
A0A0E0GJM1	A0A0E0HE70	Uncharacterized protein.	TPM_phosphatase domain-containing protein.	0.579
A0A0E0GJM1	A0A0E0HIM5	Uncharacterized protein.	PDZ domain-containing protein.	0.428
A0A0E0GTN1	A0A0E0GJM1	Uncharacterized protein.	Uncharacterized protein.	0.451
A0A0E0H1P4	A0A0E0HE70	PDZ domain-containing protein.	TPM_phosphatase domain-containing protein.	0.471
A0A0E0H1P4	A0A0E0JCJ2	PDZ domain-containing protein.	Uncharacterized protein.	0.514
A0A0E0HE70	A0A0E0GJM1	TPM_phosphatase domain-containing protein.	Uncharacterized protein.	0.579
A0A0E0HE70	A0A0E0H1P4	TPM_phosphatase domain-containing protein.	PDZ domain-containing protein.	0.471
A0A0E0HE70	A0A0E0HIM5	TPM_phosphatase domain-containing protein.	PDZ domain-containing protein.	0.608
A0A0E0HE70	A0A0E0JCJ2	TPM_phosphatase domain-containing protein.	Uncharacterized protein.	0.496
A0A0E0HIM5	A0A0E0GJM1	PDZ domain-containing protein.	Uncharacterized protein.	0.428
A0A0E0HIM5	A0A0E0HE70	PDZ domain-containing protein.	TPM_phosphatase domain-containing protein.	0.608
A0A0E0JCJ2	A0A0E0H1P4	Uncharacterized protein.	PDZ domain-containing protein.	0.514
A0A0E0JCJ2	A0A0E0HE70	Uncharacterized protein.	TPM_phosphatase domain-containing protein.	0.496