(11 nodes) Nucleotide-excision repair, DNA incision network (Branchiostoma floridae)

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:
	C3Y0H1_BRAFL	Helicase ATP-binding domain-containing protein. (763 aa)
	C3YQX9_BRAFL	XPA_C domain-containing protein. (259 aa)
	C3YBY7_BRAFL	Uncharacterized protein. (798 aa)
	C3Y937_BRAFL	Uncharacterized protein. (427 aa)
	C3Y7V3_BRAFL	Uncharacterized protein. (539 aa)
	C3Y7R7_BRAFL	XPGI domain-containing protein. (162 aa)
	C3Y2J9_BRAFL	ENDO3c domain-containing protein. (401 aa)
	C3ZZX7_BRAFL	Uncharacterized protein. (507 aa)
	C3ZNX8_BRAFL	Uncharacterized protein. (233 aa)
	C3ZNW9_BRAFL	ERCC4 domain-containing protein. (515 aa)
	C3Z7H4_BRAFL	ENDO3c domain-containing protein. (239 aa)

Your Current Organism:

Branchiostoma floridae

NCBI taxonomy Id: 7739
Other names: Amphioxus floridae, B. floridae, Florida lancelet

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
C3Y0H1_BRAFL	C3Y2J9_BRAFL	C3Y0H1	C3Y2J9	Helicase ATP-binding domain-containing protein.	ENDO3c domain-containing protein.	0.583
C3Y0H1_BRAFL	C3Y7R7_BRAFL	C3Y0H1	C3Y7R7	Helicase ATP-binding domain-containing protein.	XPGI domain-containing protein.	0.806
C3Y0H1_BRAFL	C3Y7V3_BRAFL	C3Y0H1	C3Y7V3	Helicase ATP-binding domain-containing protein.	Uncharacterized protein.	0.806
C3Y0H1_BRAFL	C3Y937_BRAFL	C3Y0H1	C3Y937	Helicase ATP-binding domain-containing protein.	Uncharacterized protein.	0.897
C3Y0H1_BRAFL	C3YBY7_BRAFL	C3Y0H1	C3YBY7	Helicase ATP-binding domain-containing protein.	Uncharacterized protein.	0.998
C3Y0H1_BRAFL	C3YQX9_BRAFL	C3Y0H1	C3YQX9	Helicase ATP-binding domain-containing protein.	XPA_C domain-containing protein.	0.987
C3Y0H1_BRAFL	C3Z7H4_BRAFL	C3Y0H1	C3Z7H4	Helicase ATP-binding domain-containing protein.	ENDO3c domain-containing protein.	0.499
C3Y0H1_BRAFL	C3ZNW9_BRAFL	C3Y0H1	C3ZNW9	Helicase ATP-binding domain-containing protein.	ERCC4 domain-containing protein.	0.792
C3Y0H1_BRAFL	C3ZNX8_BRAFL	C3Y0H1	C3ZNX8	Helicase ATP-binding domain-containing protein.	Uncharacterized protein.	0.792
C3Y0H1_BRAFL	C3ZZX7_BRAFL	C3Y0H1	C3ZZX7	Helicase ATP-binding domain-containing protein.	Uncharacterized protein.	0.806
C3Y2J9_BRAFL	C3Y0H1_BRAFL	C3Y2J9	C3Y0H1	ENDO3c domain-containing protein.	Helicase ATP-binding domain-containing protein.	0.583
C3Y2J9_BRAFL	C3Y937_BRAFL	C3Y2J9	C3Y937	ENDO3c domain-containing protein.	Uncharacterized protein.	0.707
C3Y2J9_BRAFL	C3YQX9_BRAFL	C3Y2J9	C3YQX9	ENDO3c domain-containing protein.	XPA_C domain-containing protein.	0.575
C3Y2J9_BRAFL	C3Z7H4_BRAFL	C3Y2J9	C3Z7H4	ENDO3c domain-containing protein.	ENDO3c domain-containing protein.	0.750
C3Y7R7_BRAFL	C3Y0H1_BRAFL	C3Y7R7	C3Y0H1	XPGI domain-containing protein.	Helicase ATP-binding domain-containing protein.	0.806
C3Y7R7_BRAFL	C3Y7V3_BRAFL	C3Y7R7	C3Y7V3	XPGI domain-containing protein.	Uncharacterized protein.	0.884
C3Y7R7_BRAFL	C3Y937_BRAFL	C3Y7R7	C3Y937	XPGI domain-containing protein.	Uncharacterized protein.	0.706
C3Y7R7_BRAFL	C3YBY7_BRAFL	C3Y7R7	C3YBY7	XPGI domain-containing protein.	Uncharacterized protein.	0.886
C3Y7R7_BRAFL	C3YQX9_BRAFL	C3Y7R7	C3YQX9	XPGI domain-containing protein.	XPA_C domain-containing protein.	0.730
C3Y7R7_BRAFL	C3Z7H4_BRAFL	C3Y7R7	C3Z7H4	XPGI domain-containing protein.	ENDO3c domain-containing protein.	0.407