(3 nodes) TRAP transporter large membrane protein DctM network (Bacillus oceanisediminis)

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:
	A361_16500	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology. (421 aa)
	A361_10295	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology. (426 aa)
	A361_26085	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology. (424 aa)

Your Current Organism:

Bacillus oceanisediminis

NCBI taxonomy Id: 1196031
Other names: B. oceanisediminis 2691, Bacillus oceanisediminis 2691

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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)

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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
A361_10295	A361_16500	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.620
A361_10295	A361_26085	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.618
A361_16500	A361_10295	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.620
A361_26085	A361_10295	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.618