(23 nodes) Retromer complex, and Sorting nexin 9 family network (Oryzias latipes)

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:
	LOC101156506	Uncharacterized protein. (564 aa)
	Snx1	Sorting nexin 1b. (305 aa)
	snx12	Sorting nexin 12. (162 aa)
	snx33	Sorting nexin. (557 aa)
	SNX18	Sorting nexin. (567 aa)
	H2L917_ORYLA	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family. (325 aa)
	LOC101163736	Sorting nexin 1a. (668 aa)
	vps26b	VPS26, retromer complex component B. (333 aa)
	SNX27	Sorting nexin 27. (595 aa)
	vps26a	VPS26, retromer complex component A. (328 aa)
	snx6	Sorting nexin; Involved in several stages of intracellular trafficking. (407 aa)
	LOC101159837	Sorting nexin. (551 aa)
	snx30	Sorting nexin family member 30. (446 aa)
	snx5	Sorting nexin 5. (375 aa)
	LOC101164612	PX domain-containing protein. (430 aa)
	snx3	Sorting nexin 3. (162 aa)
	LOC101168453	Si:dkey-28n18.9. (368 aa)
	snx4	Sorting nexin 4. (440 aa)
	vps29	Vacuolar protein sorting-associated protein 29; Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway. (182 aa)
	snx7	Sorting nexin 7. (414 aa)
	snx9	Sorting nexin. (623 aa)
	tbc1d5	TBC1 domain family, member 5. (863 aa)
	snx2	Sorting nexin 2. (513 aa)

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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
H2L917_ORYLA	LOC101159837	ENSORLP00000002351	ENSORLP00000014491	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin.	0.509
H2L917_ORYLA	LOC101163736	ENSORLP00000002351	ENSORLP00000002453	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin 1a.	0.468
H2L917_ORYLA	SNX18	ENSORLP00000002351	ENSORLP00000002338	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin.	0.517
H2L917_ORYLA	Snx1	ENSORLP00000002351	ENSORLP00000001946	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin 1b.	0.468
H2L917_ORYLA	snx2	ENSORLP00000002351	ENSORLP00000043960	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin 2.	0.468
H2L917_ORYLA	snx33	ENSORLP00000002351	ENSORLP00000002270	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin.	0.517
H2L917_ORYLA	snx5	ENSORLP00000002351	ENSORLP00000014946	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin 5.	0.443
H2L917_ORYLA	snx6	ENSORLP00000002351	ENSORLP00000012931	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin; Involved in several stages of intracellular trafficking.	0.443
H2L917_ORYLA	snx9	ENSORLP00000002351	ENSORLP00000031153	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Sorting nexin.	0.599
LOC101156506	snx12	ENSORLP00000000704	ENSORLP00000002261	Uncharacterized protein.	Sorting nexin 12.	0.425
LOC101156506	snx3	ENSORLP00000000704	ENSORLP00000016846	Uncharacterized protein.	Sorting nexin 3.	0.425
LOC101156506	snx5	ENSORLP00000000704	ENSORLP00000014946	Uncharacterized protein.	Sorting nexin 5.	0.436
LOC101156506	snx6	ENSORLP00000000704	ENSORLP00000012931	Uncharacterized protein.	Sorting nexin; Involved in several stages of intracellular trafficking.	0.436
LOC101156506	tbc1d5	ENSORLP00000000704	ENSORLP00000038751	Uncharacterized protein.	TBC1 domain family, member 5.	0.496
LOC101156506	vps26a	ENSORLP00000000704	ENSORLP00000012805	Uncharacterized protein.	VPS26, retromer complex component A.	0.907
LOC101156506	vps26b	ENSORLP00000000704	ENSORLP00000006560	Uncharacterized protein.	VPS26, retromer complex component B.	0.743
LOC101156506	vps29	ENSORLP00000000704	ENSORLP00000022447	Uncharacterized protein.	Vacuolar protein sorting-associated protein 29; Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway.	0.590
LOC101159837	H2L917_ORYLA	ENSORLP00000014491	ENSORLP00000002351	Sorting nexin.	Dynamin-type G domain-containing protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	0.509
LOC101159837	LOC101163736	ENSORLP00000014491	ENSORLP00000002453	Sorting nexin.	Sorting nexin 1a.	0.538
LOC101159837	LOC101164612	ENSORLP00000014491	ENSORLP00000016137	Sorting nexin.	PX domain-containing protein.	0.413