(12 nodes) Retrograde transport at the Trans-Golgi-Network network (Sordaria macrospora)

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:
	SMAC_00408	WGS project CABT00000000 data, contig 2.1. (863 aa)
	SMAC_00477	WGS project CABT00000000 data, contig 2.1. (437 aa)
	SMAC_01715	WGS project CABT00000000 data, contig 2.5. (669 aa)
	SMAC_07542	WGS project CABT00000000 data, contig 2.7. (251 aa)
	SMAC_03240	WGS project CABT00000000 data, contig 2.7. (1156 aa)
	SMAC_08311	Conserved oligomeric Golgi complex subunit 6; Acts as component of the peripheral membrane COG complex that is involved in intra-Golgi protein trafficking. COG is located at the cis-Golgi, and regulates tethering of retrograde intra-Golgi vesicles and possibly a number of other membrane trafficking events. (714 aa)
	SMAC_03707	WGS project CABT00000000 data, contig 2.9. (826 aa)
	SMAC_06692	WGS project CABT00000000 data, contig 2.13. (937 aa)
	SMAC_04467	WGS project CABT00000000 data, contig 2.14; Belongs to the syntaxin family. (362 aa)
	SMAC_04568	WGS project CABT00000000 data, contig 2.20. (899 aa)
	SMAC_05128	WGS project CABT00000000 data, contig 2.22. (404 aa)
	SMAC_06430	WGS project CABT00000000 data, contig 2.35. (344 aa)

Your Current Organism:

Sordaria macrospora

NCBI taxonomy Id: 771870
Other names: S. macrospora k-hell, Sordaria macrospora k-hell

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SMAC_00408	SMAC_00477	F7VL13	F7VL83	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.1.	0.858
SMAC_00408	SMAC_01715	F7VL13	F7VRN1	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.5.	0.994
SMAC_00408	SMAC_03240	F7VL13	F7VTU4	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.7.	0.999
SMAC_00408	SMAC_03707	F7VL13	F7VVY3	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.9.	0.853
SMAC_00408	SMAC_04467	F7VL13	F7VYU8	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.14; Belongs to the syntaxin family.	0.891
SMAC_00408	SMAC_04568	F7VL13	F7W1U5	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.20.	0.851
SMAC_00408	SMAC_05128	F7VL13	F7W2R4	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.22.	0.829
SMAC_00408	SMAC_06430	F7VL13	F7W6S2	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.35.	0.999
SMAC_00408	SMAC_06692	F7VL13	F7VYC6	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.13.	0.789
SMAC_00408	SMAC_07542	F7VL13	F7VTR8	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.7.	0.859
SMAC_00408	SMAC_08311	F7VL13	F7VV93	WGS project CABT00000000 data, contig 2.1.	Conserved oligomeric Golgi complex subunit 6; Acts as component of the peripheral membrane COG complex that is involved in intra-Golgi protein trafficking. COG is located at the cis-Golgi, and regulates tethering of retrograde intra-Golgi vesicles and possibly a number of other membrane trafficking events.	0.849
SMAC_00477	SMAC_00408	F7VL83	F7VL13	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.1.	0.858
SMAC_00477	SMAC_01715	F7VL83	F7VRN1	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.5.	0.853
SMAC_00477	SMAC_03240	F7VL83	F7VTU4	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.7.	0.851
SMAC_00477	SMAC_03707	F7VL83	F7VVY3	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.9.	0.998
SMAC_00477	SMAC_04467	F7VL83	F7VYU8	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.14; Belongs to the syntaxin family.	0.889
SMAC_00477	SMAC_04568	F7VL83	F7W1U5	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.20.	0.998
SMAC_00477	SMAC_05128	F7VL83	F7W2R4	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.22.	0.992
SMAC_00477	SMAC_06430	F7VL83	F7W6S2	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.35.	0.801
SMAC_00477	SMAC_06692	F7VL83	F7VYC6	WGS project CABT00000000 data, contig 2.1.	WGS project CABT00000000 data, contig 2.13.	0.998