(26 nodes) Base excision repair network (Rhodococcus defluvii)

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:
	GCA_000738775_04468	Unannotated protein. (288 aa)
	GCA_000738775_00261	Unannotated protein. (265 aa)
	GCA_000738775_00411	Unannotated protein. (270 aa)
	GCA_000738775_00419	Unannotated protein. (199 aa)
	GCA_000738775_00421	Unannotated protein. (167 aa)
	GCA_000738775_00663	Unannotated protein. (320 aa)
	GCA_000738775_00747	Unannotated protein. (484 aa)
	GCA_000738775_01346	Unannotated protein. (318 aa)
	GCA_000738775_01347	Unannotated protein. (512 aa)
	GCA_000738775_01673	Unannotated protein. (310 aa)
	GCA_000738775_02311	Unannotated protein. (290 aa)
	GCA_000738775_02388	Unannotated protein. (261 aa)
	GCA_000738775_02420	Unannotated protein. (267 aa)
	GCA_000738775_02506	Unannotated protein. (365 aa)
	GCA_000738775_02528	Unannotated protein. (288 aa)
	GCA_000738775_02703	Unannotated protein. (915 aa)
	GCA_000738775_02748	Unannotated protein. (205 aa)
	GCA_000738775_02783	Unannotated protein. (667 aa)
	GCA_000738775_02841	Unannotated protein. (194 aa)
	GCA_000738775_03117	Unannotated protein. (257 aa)
	GCA_000738775_03314	Unannotated protein. (292 aa)
	GCA_000738775_03438	Unannotated protein. (266 aa)
	GCA_000738775_03772	Unannotated protein. (199 aa)
	GCA_000738775_04381	Unannotated protein. (196 aa)
	GCA_000738775_04415	Unannotated protein. (258 aa)
	GCA_000738775_04456	Unannotated protein. (234 aa)

Your Current Organism:

Rhodococcus defluvii

NCBI taxonomy Id: 1323361
Other names: DSM 45893, LMG 27563, LMG:27563, R. defluvii, Rhodococcus sp. Ca11, strain Ca11

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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 annotation	node2 annotation	score
GCA_000738775_00261	GCA_000738775_00663	Unannotated protein.	Unannotated protein.	0.562
GCA_000738775_00261	GCA_000738775_01347	Unannotated protein.	Unannotated protein.	0.477
GCA_000738775_00261	GCA_000738775_02388	Unannotated protein.	Unannotated protein.	0.921
GCA_000738775_00261	GCA_000738775_02528	Unannotated protein.	Unannotated protein.	0.798
GCA_000738775_00261	GCA_000738775_02703	Unannotated protein.	Unannotated protein.	0.839
GCA_000738775_00261	GCA_000738775_02841	Unannotated protein.	Unannotated protein.	0.447
GCA_000738775_00261	GCA_000738775_03117	Unannotated protein.	Unannotated protein.	0.685
GCA_000738775_00261	GCA_000738775_03314	Unannotated protein.	Unannotated protein.	0.442
GCA_000738775_00261	GCA_000738775_04468	Unannotated protein.	Unannotated protein.	0.874
GCA_000738775_00411	GCA_000738775_00419	Unannotated protein.	Unannotated protein.	0.689
GCA_000738775_00411	GCA_000738775_00421	Unannotated protein.	Unannotated protein.	0.689
GCA_000738775_00411	GCA_000738775_00747	Unannotated protein.	Unannotated protein.	0.819
GCA_000738775_00411	GCA_000738775_02420	Unannotated protein.	Unannotated protein.	0.727
GCA_000738775_00411	GCA_000738775_02506	Unannotated protein.	Unannotated protein.	0.727
GCA_000738775_00411	GCA_000738775_02703	Unannotated protein.	Unannotated protein.	0.506
GCA_000738775_00411	GCA_000738775_03438	Unannotated protein.	Unannotated protein.	0.727
GCA_000738775_00411	GCA_000738775_04415	Unannotated protein.	Unannotated protein.	0.486
GCA_000738775_00419	GCA_000738775_00411	Unannotated protein.	Unannotated protein.	0.689
GCA_000738775_00419	GCA_000738775_00421	Unannotated protein.	Unannotated protein.	0.891
GCA_000738775_00419	GCA_000738775_00747	Unannotated protein.	Unannotated protein.	0.838