(11 nodes) DNA Damage Bypass network (Entamoeba histolytica)

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:
	EHI_029000	Zinc finger domain containing protein. (172 aa)
	EHI_101530	Uncharacterized protein. (125 aa)
	3.t00077	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family. (794 aa)
	8.t00051	Replication factor A, putative. (569 aa)
	8.t00042	DNA polymerase. (1385 aa)
	32.t00028	AAA family ATPase, putative; Belongs to the AAA ATPase family. (595 aa)
	415.t00006	Uncharacterized protein. (310 aa)
	38.t00013	ATPase, AAA family protein; Belongs to the AAA ATPase family. (623 aa)
	342.t00008	Ubiquitin fusion degradation protein, putative. (447 aa)
	234.t00004	Replication factor A protein 1, putative. (588 aa)
	59.t00030	Deoxycytidyl transferase, putative. (708 aa)

Your Current Organism:

Entamoeba histolytica

NCBI taxonomy Id: 5759
Other names: E. histolytica

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
234.t00004	3.t00077	C4M8G6	C4LTC5	Replication factor A protein 1, putative.	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	0.495
234.t00004	32.t00028	C4M8G6	C4LWK9	Replication factor A protein 1, putative.	AAA family ATPase, putative; Belongs to the AAA ATPase family.	0.495
234.t00004	342.t00008	C4M8G6	C4M7B6	Replication factor A protein 1, putative.	Ubiquitin fusion degradation protein, putative.	0.476
234.t00004	38.t00013	C4M8G6	C4M767	Replication factor A protein 1, putative.	ATPase, AAA family protein; Belongs to the AAA ATPase family.	0.495
234.t00004	415.t00006	C4M8G6	C4LZ70	Replication factor A protein 1, putative.	Uncharacterized protein.	0.578
234.t00004	59.t00030	C4M8G6	C4M8P4	Replication factor A protein 1, putative.	Deoxycytidyl transferase, putative.	0.636
234.t00004	8.t00042	C4M8G6	C4LTZ7	Replication factor A protein 1, putative.	DNA polymerase.	0.746
234.t00004	EHI_029000	C4M8G6	B1N3R2	Replication factor A protein 1, putative.	Zinc finger domain containing protein.	0.706
234.t00004	EHI_101530	C4M8G6	B1N5Q0	Replication factor A protein 1, putative.	Uncharacterized protein.	0.462
3.t00077	234.t00004	C4LTC5	C4M8G6	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	Replication factor A protein 1, putative.	0.495
3.t00077	342.t00008	C4LTC5	C4M7B6	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	Ubiquitin fusion degradation protein, putative.	0.823
3.t00077	415.t00006	C4LTC5	C4LZ70	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	Uncharacterized protein.	0.750
3.t00077	59.t00030	C4LTC5	C4M8P4	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	Deoxycytidyl transferase, putative.	0.421
3.t00077	8.t00051	C4LTC5	C4LTY9	Cell division cycle protein 48, putative; Belongs to the AAA ATPase family.	Replication factor A, putative.	0.495
32.t00028	234.t00004	C4LWK9	C4M8G6	AAA family ATPase, putative; Belongs to the AAA ATPase family.	Replication factor A protein 1, putative.	0.495
32.t00028	342.t00008	C4LWK9	C4M7B6	AAA family ATPase, putative; Belongs to the AAA ATPase family.	Ubiquitin fusion degradation protein, putative.	0.826
32.t00028	415.t00006	C4LWK9	C4LZ70	AAA family ATPase, putative; Belongs to the AAA ATPase family.	Uncharacterized protein.	0.752
32.t00028	59.t00030	C4LWK9	C4M8P4	AAA family ATPase, putative; Belongs to the AAA ATPase family.	Deoxycytidyl transferase, putative.	0.420
32.t00028	8.t00051	C4LWK9	C4LTY9	AAA family ATPase, putative; Belongs to the AAA ATPase family.	Replication factor A, putative.	0.500
342.t00008	234.t00004	C4M7B6	C4M8G6	Ubiquitin fusion degradation protein, putative.	Replication factor A protein 1, putative.	0.476