DVU_0606 protein (Desulfovibrio vulgaris Hildenborough)

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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

DVU_0606

Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209. (307 aa)

Predicted Functional Partners:

ahcY

0.790

arsC

0.711

DVU_2324

0.677

DVU_1585

0.649

DVU_3080

0.605

poR

0.591

ribD

0.589

birA

0.586

topA

0.549

DVU_2527

0.548

Your Current Organism:

Desulfovibrio vulgaris Hildenborough

NCBI taxonomy Id: 882
Other names: D. vulgaris str. Hildenborough, Desulfovibrio vulgaris (STRAIN HILDENBOROUGH), Desulfovibrio vulgaris ATCC 29579, Desulfovibrio vulgaris str. Hildenborough, Desulfovibrio vulgaris subsp. vulgaris (strain Hildenborough), Desulfovibrio vulgaris subsp. vulgaris ATCC 29579, Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DVU_0606	DVU_1585	DVU_0606	DVU_1585	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Vitamin B12-dependent methionine synthase family protein; Identified by similarity to SP:P37586; match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607.	0.649
DVU_0606	DVU_2324	DVU_0606	DVU_2324	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	0.677
DVU_0606	DVU_2527	DVU_0606	DVU_2527	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Transcriptional regulator, putative; Identified by similarity to SP:P55323.	0.548
DVU_0606	DVU_3080	DVU_0606	DVU_3080	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Transcriptional regulator, putative; Identified by similarity to SP:P55323.	0.605
DVU_0606	ahcY	DVU_0606	DVU_0607	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Adenosylhomocysteinase; May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine.	0.790
DVU_0606	arsC	DVU_0606	DVU_1646	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Arsenate reductase; Identified by similarity to SP:P45947; match to protein family HMM PF01451; Belongs to the low molecular weight phosphotyrosine protein phosphatase family.	0.711
DVU_0606	birA	DVU_0606	DVU_2557	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	birA bifunctional protein; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	0.586
DVU_0606	poR	DVU_0606	DVU_3025	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Pyruvate-ferredoxin oxidoreductase; Identified by similarity to GP:1770208; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855.	0.591
DVU_0606	ribD	DVU_0606	DVU_1201	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'- phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'- phosphate; In the C-terminal section; belongs to the HTP reductase family.	0.589
DVU_0606	topA	DVU_0606	DVU_3389	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...]	0.549
DVU_1585	DVU_0606	DVU_1585	DVU_0606	Vitamin B12-dependent methionine synthase family protein; Identified by similarity to SP:P37586; match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607.	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	0.649
DVU_1585	ahcY	DVU_1585	DVU_0607	Vitamin B12-dependent methionine synthase family protein; Identified by similarity to SP:P37586; match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607.	Adenosylhomocysteinase; May play a key role in the regulation of the intracellular concentration of adenosylhomocysteine.	0.960
DVU_1585	poR	DVU_1585	DVU_3025	Vitamin B12-dependent methionine synthase family protein; Identified by similarity to SP:P37586; match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607.	Pyruvate-ferredoxin oxidoreductase; Identified by similarity to GP:1770208; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855.	0.589
DVU_1585	ribD	DVU_1585	DVU_1201	Vitamin B12-dependent methionine synthase family protein; Identified by similarity to SP:P37586; match to protein family HMM PF00809; match to protein family HMM PF02310; match to protein family HMM PF02574; match to protein family HMM PF02607.	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'- phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'- phosphate; In the C-terminal section; belongs to the HTP reductase family.	0.428
DVU_2324	DVU_0606	DVU_2324	DVU_0606	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	Transcriptional regulator, ArsR family/methyltransferase, UbiE/COQ5 family; Identified by match to protein family HMM PF01022; match to protein family HMM PF01209.	0.677
DVU_2324	arsC	DVU_2324	DVU_1646	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	Arsenate reductase; Identified by similarity to SP:P45947; match to protein family HMM PF01451; Belongs to the low molecular weight phosphotyrosine protein phosphatase family.	0.521
DVU_2324	birA	DVU_2324	DVU_2557	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	birA bifunctional protein; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	0.409
DVU_2324	poR	DVU_2324	DVU_3025	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	Pyruvate-ferredoxin oxidoreductase; Identified by similarity to GP:1770208; match to protein family HMM PF00037; match to protein family HMM PF01558; match to protein family HMM PF01855.	0.666
DVU_2324	ribD	DVU_2324	DVU_1201	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	Riboflavin biosynthesis protein RibD; Converts 2,5-diamino-6-(ribosylamino)-4(3h)-pyrimidinone 5'- phosphate into 5-amino-6-(ribosylamino)-2,4(1h,3h)-pyrimidinedione 5'- phosphate; In the C-terminal section; belongs to the HTP reductase family.	0.478
DVU_2324	topA	DVU_2324	DVU_3389	Copper-translocating P-type ATPase; Identified by similarity to SP:P37279; match to protein family HMM PF00122; match to protein family HMM PF00403; match to protein family HMM PF00702; match to protein family HMM TIGR00003; match to protein family HMM TIGR01494; match to protein family HMM TIGR01511; match to protein family HMM TIGR01525.	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...]	0.498

page 1 of 3

Server load: low (26%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2023

Credits

Access

Info

About