(22 nodes) Mostly uncharacterized, incl. YidE/YbjL duplication, and C4-dicarboxylate transport network (Shigella boydii)

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:
	rof	Rof protein; Identified by match to protein family HMM PF07073. (86 aa)
	yaeP	Conserved hypothetical protein; Identified by match to protein family HMM PF06786; Belongs to the UPF0253 family. (66 aa)
	ACD09252.1	Conserved hypothetical protein; Identified by match to protein family HMM PF07152. (181 aa)
	ACD08707.1	peptidyl-tRNA hydrolase domain protein; Identified by match to protein family HMM PF00472. (140 aa)
	cutF	Copper homeostasis protein CutF; Identified by match to protein family HMM PF04170. (236 aa)
	dcuC	Anaerobic C4-dicarboxylate transporter DcuC; Identified by match to protein family HMM PF03600; match to protein family HMM PF03606; match to protein family HMM PF06808; match to protein family HMM TIGR00771. (461 aa)
	ACD09441.1	Conserved hypothetical protein. (79 aa)
	ACD08443.1	Hypothetical protein; Identified by glimmer; putative. (32 aa)
	tyrP	Tyrosine-specific transport protein; Identified by match to protein family HMM PF01490; match to protein family HMM PF03222; match to protein family HMM TIGR00837. (403 aa)
	ACD09872.1	Identified by match to protein family HMM PF00929. (823 aa)
	ACD08090.1	Putative membrane protein; Identified by match to protein family HMM PF06496. (163 aa)
	ACD09323.1	Chaperone, TorD family; Identified by match to protein family HMM PF06192. (184 aa)
	ycdX	PHP domain protein; Identified by match to protein family HMM PF02811; Belongs to the PHP family. (245 aa)
	ACD06461.1	NAD dependent epimerase/dehydratase family; Identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF07993. (349 aa)
	ACD06360.1	Putative lipoprotein. (107 aa)
	alaE	Putative membrane protein; Exports L-alanine; Belongs to the AlaE exporter family. (149 aa)
	yqfB	Conserved hypothetical protein; Identified by match to protein family HMM PF04266; Belongs to the UPF0267 family. (103 aa)
	ACD09589.1	Putative transporter; Identified by match to protein family HMM PF00892. (321 aa)
	yidE	Putative membrane protein; Identified by match to protein family HMM PF02080; match to protein family HMM PF06826; match to protein family HMM TIGR01625. (553 aa)
	ACD07564.1	Amino acid-polyamine-organocation (APC) permease family protein; Identified by match to protein family HMM PF00324. (418 aa)
	yjjB	Putative membrane protein. (155 aa)
	ACD08690.1	Putative membrane protein; Identified by match to protein family HMM PF06738. (277 aa)

Your Current Organism:

Shigella boydii

NCBI taxonomy Id: 344609
Other names: S. boydii CDC 3083-94, Shigella boydii BS512, Shigella boydii CDC 3083-94, Shigella boydii str. CDC 3083-94, Shigella boydii strain CDC 3083-94

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

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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 accession	node2 accession	node1 annotation	node2 annotation	score
ACD06360.1	ACD09872.1	SbBS512_E2949	SbBS512_E1427	Putative lipoprotein.	Identified by match to protein family HMM PF00929.	0.668
ACD06360.1	alaE	SbBS512_E2949	SbBS512_E3211	Putative lipoprotein.	Putative membrane protein; Exports L-alanine; Belongs to the AlaE exporter family.	0.668
ACD06461.1	ACD09589.1	SbBS512_E2464	SbBS512_E3586	NAD dependent epimerase/dehydratase family; Identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF07993.	Putative transporter; Identified by match to protein family HMM PF00892.	0.424
ACD06461.1	ACD09872.1	SbBS512_E2464	SbBS512_E1427	NAD dependent epimerase/dehydratase family; Identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF07993.	Identified by match to protein family HMM PF00929.	0.405
ACD06461.1	yaeP	SbBS512_E2464	SbBS512_E0183	NAD dependent epimerase/dehydratase family; Identified by match to protein family HMM PF01073; match to protein family HMM PF01370; match to protein family HMM PF04321; match to protein family HMM PF07993.	Conserved hypothetical protein; Identified by match to protein family HMM PF06786; Belongs to the UPF0253 family.	0.413
ACD07564.1	ACD08090.1	SbBS512_E4670	SbBS512_E2293	Amino acid-polyamine-organocation (APC) permease family protein; Identified by match to protein family HMM PF00324.	Putative membrane protein; Identified by match to protein family HMM PF06496.	0.483
ACD07564.1	ACD09441.1	SbBS512_E4670	SbBS512_E1032	Amino acid-polyamine-organocation (APC) permease family protein; Identified by match to protein family HMM PF00324.	Conserved hypothetical protein.	0.633
ACD08090.1	ACD07564.1	SbBS512_E2293	SbBS512_E4670	Putative membrane protein; Identified by match to protein family HMM PF06496.	Amino acid-polyamine-organocation (APC) permease family protein; Identified by match to protein family HMM PF00324.	0.483
ACD08090.1	ACD08690.1	SbBS512_E2293	SbBS512_E4904	Putative membrane protein; Identified by match to protein family HMM PF06496.	Putative membrane protein; Identified by match to protein family HMM PF06738.	0.551
ACD08090.1	ACD09323.1	SbBS512_E2293	SbBS512_E2294	Putative membrane protein; Identified by match to protein family HMM PF06496.	Chaperone, TorD family; Identified by match to protein family HMM PF06192.	0.734
ACD08090.1	ACD09441.1	SbBS512_E2293	SbBS512_E1032	Putative membrane protein; Identified by match to protein family HMM PF06496.	Conserved hypothetical protein.	0.482
ACD08090.1	alaE	SbBS512_E2293	SbBS512_E3211	Putative membrane protein; Identified by match to protein family HMM PF06496.	Putative membrane protein; Exports L-alanine; Belongs to the AlaE exporter family.	0.524
ACD08090.1	dcuC	SbBS512_E2293	SbBS512_E0536	Putative membrane protein; Identified by match to protein family HMM PF06496.	Anaerobic C4-dicarboxylate transporter DcuC; Identified by match to protein family HMM PF03600; match to protein family HMM PF03606; match to protein family HMM PF06808; match to protein family HMM TIGR00771.	0.676
ACD08090.1	tyrP	SbBS512_E2293	SbBS512_E1034	Putative membrane protein; Identified by match to protein family HMM PF06496.	Tyrosine-specific transport protein; Identified by match to protein family HMM PF01490; match to protein family HMM PF03222; match to protein family HMM TIGR00837.	0.598
ACD08090.1	yaeP	SbBS512_E2293	SbBS512_E0183	Putative membrane protein; Identified by match to protein family HMM PF06496.	Conserved hypothetical protein; Identified by match to protein family HMM PF06786; Belongs to the UPF0253 family.	0.702
ACD08090.1	ycdX	SbBS512_E2293	SbBS512_E2295	Putative membrane protein; Identified by match to protein family HMM PF06496.	PHP domain protein; Identified by match to protein family HMM PF02811; Belongs to the PHP family.	0.754
ACD08090.1	yjjB	SbBS512_E2293	SbBS512_E4903	Putative membrane protein; Identified by match to protein family HMM PF06496.	Putative membrane protein.	0.670
ACD08090.1	yqfB	SbBS512_E2293	SbBS512_E3321	Putative membrane protein; Identified by match to protein family HMM PF06496.	Conserved hypothetical protein; Identified by match to protein family HMM PF04266; Belongs to the UPF0267 family.	0.742
ACD08443.1	ACD09441.1	SbBS512_E1033	SbBS512_E1032	Hypothetical protein; Identified by glimmer; putative.	Conserved hypothetical protein.	0.486
ACD08443.1	tyrP	SbBS512_E1033	SbBS512_E1034	Hypothetical protein; Identified by glimmer; putative.	Tyrosine-specific transport protein; Identified by match to protein family HMM PF01490; match to protein family HMM PF03222; match to protein family HMM TIGR00837.	0.572

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