(10 nodes) Leucine-binding protein domain network (Roseobacter denitrificans)

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:
	RD1_0708	Conserved hypothetical protein. (427 aa)
	RD1_1502	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative. (383 aa)
	RD1_1189	Conserved hypothetical protein. (389 aa)
	RD1_0898	Conserved hypothetical protein. (390 aa)
	RD1_0854	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein. (395 aa)
	RD1_0631	ABC transporter, periplasmic substrate-binding protein, putative. (433 aa)
	RD1_0540	ABC transporter substrate binding protei. (376 aa)
	RD1_2631	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein. (396 aa)
	RD1_2843	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative. (450 aa)
	RD1_3591	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative. (389 aa)

Your Current Organism:

Roseobacter denitrificans

NCBI taxonomy Id: 375451
Other names: Erythrobacter sp. OCh114, R. denitrificans OCh 114, Roseobacter denitrificans ATCC 33942, Roseobacter denitrificans DSM 7001, Roseobacter denitrificans OCh 114, Roseobacter denitrificans str. OCh 114, Roseobacter denitrificans strain OCh 114, Roseobacter sp. OCh114

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structured XML interaction data, according to the 'PSI-MI' data standard

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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

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... 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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
RD1_0540	RD1_0631	ABC transporter substrate binding protei.	ABC transporter, periplasmic substrate-binding protein, putative.	0.900
RD1_0540	RD1_0708	ABC transporter substrate binding protei.	Conserved hypothetical protein.	0.900
RD1_0540	RD1_0854	ABC transporter substrate binding protei.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0540	RD1_1502	ABC transporter substrate binding protei.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0540	RD1_2631	ABC transporter substrate binding protei.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0540	RD1_2843	ABC transporter substrate binding protei.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0540	RD1_3591	ABC transporter substrate binding protei.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0631	RD1_0540	ABC transporter, periplasmic substrate-binding protein, putative.	ABC transporter substrate binding protei.	0.900
RD1_0631	RD1_0708	ABC transporter, periplasmic substrate-binding protein, putative.	Conserved hypothetical protein.	0.900
RD1_0631	RD1_0854	ABC transporter, periplasmic substrate-binding protein, putative.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0631	RD1_1502	ABC transporter, periplasmic substrate-binding protein, putative.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0631	RD1_2631	ABC transporter, periplasmic substrate-binding protein, putative.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0631	RD1_2843	ABC transporter, periplasmic substrate-binding protein, putative.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0631	RD1_3591	ABC transporter, periplasmic substrate-binding protein, putative.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0708	RD1_0540	Conserved hypothetical protein.	ABC transporter substrate binding protei.	0.900
RD1_0708	RD1_0631	Conserved hypothetical protein.	ABC transporter, periplasmic substrate-binding protein, putative.	0.900
RD1_0708	RD1_0854	Conserved hypothetical protein.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0708	RD1_1502	Conserved hypothetical protein.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900
RD1_0708	RD1_2631	Conserved hypothetical protein.	Branched-chain amino acid ABC transporter, periplasmic substrate-binding protein.	0.900
RD1_0708	RD1_2843	Conserved hypothetical protein.	Branched-chain amino acid ABC transporter, periplasmic binding protein, putative.	0.900

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