(6 nodes) Nuclear pore linkers network (Ricinus communis)

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:
	RCOM_2005560	Uncharacterized protein. (179 aa)
	RCOM_0919290	Uncharacterized protein. (202 aa)
	RCOM_0919300	Uncharacterized protein. (1934 aa)
	RCOM_0919310	Uncharacterized protein. (289 aa)
	RCOM_0223370	Uncharacterized protein. (1270 aa)
	RCOM_0223680	Uncharacterized protein. (313 aa)

Your Current Organism:

Ricinus communis

NCBI taxonomy Id: 3988
Other names: R. communis, Ricinus communis L., Ricinus sanguineus, Ricinus sanguineus hort. ex Groenl., castor bean

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Export your current network:

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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

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

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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
RCOM_0223370	RCOM_0223680	B9SER9	B9SES0	Uncharacterized protein.	Uncharacterized protein.	0.916
RCOM_0223680	RCOM_0223370	B9SES0	B9SER9	Uncharacterized protein.	Uncharacterized protein.	0.916
RCOM_0919300	RCOM_0919310	B9RNN7	B9RNN8	Uncharacterized protein.	Uncharacterized protein.	0.638
RCOM_0919300	RCOM_2005560	B9RNN7	B9TA33	Uncharacterized protein.	Uncharacterized protein.	0.485
RCOM_0919310	RCOM_0919300	B9RNN8	B9RNN7	Uncharacterized protein.	Uncharacterized protein.	0.638
RCOM_0919310	RCOM_2005560	B9RNN8	B9TA33	Uncharacterized protein.	Uncharacterized protein.	0.445
RCOM_2005560	RCOM_0919300	B9TA33	B9RNN7	Uncharacterized protein.	Uncharacterized protein.	0.485
RCOM_2005560	RCOM_0919310	B9TA33	B9RNN8	Uncharacterized protein.	Uncharacterized protein.	0.445