(25 nodes) Visual pigments (opsins) retinal binding site network (Takifugu rubripes)

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:
	LOC101078973	Opsin 7, group member c; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (398 aa)
	LOC101069959	Opsin 7, group member b; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (399 aa)
	tmt-opsin	G_PROTEIN_RECEP_F1_2 domain-containing protein. (402 aa)
	rrh	Retinal pigment epithelium-derived rhodopsin homolog; Belongs to the G-protein coupled receptor 1 family. (333 aa)
	LOC619285	Rhodopsin. (352 aa)
	LOC101075984	Opsin 8, group member a; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (358 aa)
	LOC101076212	Opsin 8, group member b; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (345 aa)
	LOC778011	Rhodopsin. (353 aa)
	LOC101076220	Opsin 4xb. (525 aa)
	LOC101073282-2	Parapinopsin a. (349 aa)
	LOC101075804	Vertebrate ancient long opsin b. (390 aa)
	rho	Rhodopsin. (353 aa)
	opn4	Opsin 4a (melanopsin). (498 aa)
	opn3	Opsin 3. (387 aa)
	LOC101073319	Opsin 7, group member a; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (436 aa)
	LOC101070008	Parapinopsin b. (336 aa)
	LOC101070147	Opsin 1 (cone pigments), short-wave-sensitive 2. (356 aa)
	LOC101070377	Opsin 1 (cone pigments), long-wave-sensitive, 1. (357 aa)
	LOC101064927	G_PROTEIN_RECEP_F1_2 domain-containing protein; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily. (388 aa)
	LOC101074685	Teleost multiple tissue opsin 2b. (360 aa)
	opn5	Opsin 5; Belongs to the G-protein coupled receptor 1 family. (394 aa)
	LOC101066300	Opsin 4.1. (463 aa)
	LOC101079163	Rhodopsin. (349 aa)
	LOC101080046	Opsin 4xa. (423 aa)
	LOC101072554	Parietopsin. (374 aa)

Your Current Organism:

Takifugu rubripes

NCBI taxonomy Id: 31033
Other names: Fugu rubripes, Sphaeroides rubripes, T. rubripes, Tetraodon rubripes, tiger puffer, torafugu

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
LOC101066300	LOC101070147	ENSTRUP00000051233	ENSTRUP00000032986	Opsin 4.1.	Opsin 1 (cone pigments), short-wave-sensitive 2.	0.433
LOC101066300	opn3	ENSTRUP00000051233	ENSTRUP00000029288	Opsin 4.1.	Opsin 3.	0.471
LOC101070147	LOC101066300	ENSTRUP00000032986	ENSTRUP00000051233	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 4.1.	0.433
LOC101070147	LOC101070377	ENSTRUP00000032986	ENSTRUP00000033120	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 1 (cone pigments), long-wave-sensitive, 1.	0.662
LOC101070147	LOC101072554	ENSTRUP00000032986	ENSTRUP00000072980	Opsin 1 (cone pigments), short-wave-sensitive 2.	Parietopsin.	0.408
LOC101070147	LOC101074685	ENSTRUP00000032986	ENSTRUP00000034325	Opsin 1 (cone pigments), short-wave-sensitive 2.	Teleost multiple tissue opsin 2b.	0.408
LOC101070147	LOC101075804	ENSTRUP00000032986	ENSTRUP00000025353	Opsin 1 (cone pigments), short-wave-sensitive 2.	Vertebrate ancient long opsin b.	0.650
LOC101070147	LOC101075984	ENSTRUP00000032986	ENSTRUP00000009737	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 8, group member a; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily.	0.546
LOC101070147	LOC101076212	ENSTRUP00000032986	ENSTRUP00000009910	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 8, group member b; Belongs to the G-protein coupled receptor 1 family. Opsin subfamily.	0.433
LOC101070147	LOC101076220	ENSTRUP00000032986	ENSTRUP00000015550	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 4xb.	0.437
LOC101070147	LOC101079163	ENSTRUP00000032986	ENSTRUP00000061254	Opsin 1 (cone pigments), short-wave-sensitive 2.	Rhodopsin.	0.620
LOC101070147	LOC101080046	ENSTRUP00000032986	ENSTRUP00000070432	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 4xa.	0.437
LOC101070147	LOC619285	ENSTRUP00000032986	ENSTRUP00000005472	Opsin 1 (cone pigments), short-wave-sensitive 2.	Rhodopsin.	0.617
LOC101070147	LOC778011	ENSTRUP00000032986	ENSTRUP00000010753	Opsin 1 (cone pigments), short-wave-sensitive 2.	Rhodopsin.	0.547
LOC101070147	opn3	ENSTRUP00000032986	ENSTRUP00000029288	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 3.	0.476
LOC101070147	opn4	ENSTRUP00000032986	ENSTRUP00000028684	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 4a (melanopsin).	0.437
LOC101070147	opn5	ENSTRUP00000032986	ENSTRUP00000044352	Opsin 1 (cone pigments), short-wave-sensitive 2.	Opsin 5; Belongs to the G-protein coupled receptor 1 family.	0.433
LOC101070147	rho	ENSTRUP00000032986	ENSTRUP00000026809	Opsin 1 (cone pigments), short-wave-sensitive 2.	Rhodopsin.	0.548
LOC101070147	rrh	ENSTRUP00000032986	ENSTRUP00000004550	Opsin 1 (cone pigments), short-wave-sensitive 2.	Retinal pigment epithelium-derived rhodopsin homolog; Belongs to the G-protein coupled receptor 1 family.	0.492
LOC101070147	tmt-opsin	ENSTRUP00000032986	ENSTRUP00000003685	Opsin 1 (cone pigments), short-wave-sensitive 2.	G_PROTEIN_RECEP_F1_2 domain-containing protein.	0.408