(10 nodes) Processing of SMDT1 network (Mastacembelus armatus)

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:
	spg7	SPG7 matrix AAA peptidase subunit, paraplegin. (798 aa)
	ENSMAMP00000014939	Matrix AAA peptidase interacting protein 1. (232 aa)
	LOC113121696	YME1-like 1a. (706 aa)
	LOC113138788	Stomatin (EPB72)-like 3a. (289 aa)
	ENSMAMP00000017240	Presenilin associated, rhomboid-like a. (394 aa)
	afg3l2	AFG3-like AAA ATPase 2. (799 aa)
	LOC113127203	PHB domain-containing protein. (351 aa)
	phb	Prohibitin. (271 aa)
	LOC113140013	Prohibitin. (304 aa)
	LOC113132896	Si:ch1073-174d20.2. (758 aa)

Your Current Organism:

Mastacembelus armatus

NCBI taxonomy Id: 205130
Other names: M. armatus, Macrognathus armatus, zig-zag eel

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same PNG format, but at higher resolution

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SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

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TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

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TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

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structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

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node degree of proteins in your network (given the current score cut-off)

... network coordinates:

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a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

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MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

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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
ENSMAMP00000014939	LOC113121696	ENSMAMP00000014939	ENSMAMP00000016623	Matrix AAA peptidase interacting protein 1.	YME1-like 1a.	0.682
ENSMAMP00000014939	LOC113127203	ENSMAMP00000014939	ENSMAMP00000032729	Matrix AAA peptidase interacting protein 1.	PHB domain-containing protein.	0.610
ENSMAMP00000014939	LOC113132896	ENSMAMP00000014939	ENSMAMP00000033775	Matrix AAA peptidase interacting protein 1.	Si:ch1073-174d20.2.	0.696
ENSMAMP00000014939	LOC113138788	ENSMAMP00000014939	ENSMAMP00000017133	Matrix AAA peptidase interacting protein 1.	Stomatin (EPB72)-like 3a.	0.589
ENSMAMP00000014939	LOC113140013	ENSMAMP00000014939	ENSMAMP00000033150	Matrix AAA peptidase interacting protein 1.	Prohibitin.	0.729
ENSMAMP00000014939	afg3l2	ENSMAMP00000014939	ENSMAMP00000028914	Matrix AAA peptidase interacting protein 1.	AFG3-like AAA ATPase 2.	0.696
ENSMAMP00000014939	phb	ENSMAMP00000014939	ENSMAMP00000033004	Matrix AAA peptidase interacting protein 1.	Prohibitin.	0.806
ENSMAMP00000014939	spg7	ENSMAMP00000014939	ENSMAMP00000002686	Matrix AAA peptidase interacting protein 1.	SPG7 matrix AAA peptidase subunit, paraplegin.	0.869
ENSMAMP00000017240	LOC113121696	ENSMAMP00000017240	ENSMAMP00000016623	Presenilin associated, rhomboid-like a.	YME1-like 1a.	0.723
ENSMAMP00000017240	LOC113127203	ENSMAMP00000017240	ENSMAMP00000032729	Presenilin associated, rhomboid-like a.	PHB domain-containing protein.	0.733
ENSMAMP00000017240	LOC113132896	ENSMAMP00000017240	ENSMAMP00000033775	Presenilin associated, rhomboid-like a.	Si:ch1073-174d20.2.	0.467
ENSMAMP00000017240	LOC113138788	ENSMAMP00000017240	ENSMAMP00000017133	Presenilin associated, rhomboid-like a.	Stomatin (EPB72)-like 3a.	0.453
ENSMAMP00000017240	LOC113140013	ENSMAMP00000017240	ENSMAMP00000033150	Presenilin associated, rhomboid-like a.	Prohibitin.	0.647
ENSMAMP00000017240	afg3l2	ENSMAMP00000017240	ENSMAMP00000028914	Presenilin associated, rhomboid-like a.	AFG3-like AAA ATPase 2.	0.467
ENSMAMP00000017240	phb	ENSMAMP00000017240	ENSMAMP00000033004	Presenilin associated, rhomboid-like a.	Prohibitin.	0.576
ENSMAMP00000017240	spg7	ENSMAMP00000017240	ENSMAMP00000002686	Presenilin associated, rhomboid-like a.	SPG7 matrix AAA peptidase subunit, paraplegin.	0.549
LOC113121696	ENSMAMP00000014939	ENSMAMP00000016623	ENSMAMP00000014939	YME1-like 1a.	Matrix AAA peptidase interacting protein 1.	0.682
LOC113121696	ENSMAMP00000017240	ENSMAMP00000016623	ENSMAMP00000017240	YME1-like 1a.	Presenilin associated, rhomboid-like a.	0.723
LOC113121696	LOC113127203	ENSMAMP00000016623	ENSMAMP00000032729	YME1-like 1a.	PHB domain-containing protein.	0.868
LOC113121696	LOC113132896	ENSMAMP00000016623	ENSMAMP00000033775	YME1-like 1a.	Si:ch1073-174d20.2.	0.490