DVU_0855 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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

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

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DVU_0665	DVU_0855	DVU_0665	DVU_0855	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.538
DVU_0665	DVU_0857	DVU_0665	DVU_0857	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.538
DVU_0665	DVU_3004	DVU_0665	DVU_3004	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.538
DVU_0665	ctaB	DVU_0665	DVU_1811	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	Protoheme IX farnesyltransferase, putative; Converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group.	0.445
DVU_0854	DVU_0855	DVU_0854	DVU_0855	NirD protein, putative; Identified by similarity to SP:Q52522.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.996
DVU_0854	DVU_0857	DVU_0854	DVU_0857	NirD protein, putative; Identified by similarity to SP:Q52522.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.996
DVU_0854	DVU_3004	DVU_0854	DVU_3004	NirD protein, putative; Identified by similarity to SP:Q52522.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.477
DVU_0854	DVU_3167	DVU_0854	DVU_3167	NirD protein, putative; Identified by similarity to SP:Q52522.	Heme biosynthesis protein, putative; Identified by similarity to SP:Q52522.	0.998
DVU_0854	hemB	DVU_0854	DVU_0856	NirD protein, putative; Identified by similarity to SP:Q52522.	Porphobilinogen synthase; Identified by match to protein family HMM PF00490; Belongs to the ALAD family.	0.706
DVU_0855	DVU_0665	DVU_0855	DVU_0665	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	0.538
DVU_0855	DVU_0854	DVU_0855	DVU_0854	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	NirD protein, putative; Identified by similarity to SP:Q52522.	0.996
DVU_0855	DVU_0857	DVU_0855	DVU_0857	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.976
DVU_0855	DVU_3004	DVU_0855	DVU_3004	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	0.549
DVU_0855	DVU_3167	DVU_0855	DVU_3167	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Heme biosynthesis protein, putative; Identified by similarity to SP:Q52522.	0.926
DVU_0855	cobS	DVU_0855	DVU_0914	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Cobalamin-5-phosphate synthase; Joins adenosylcobinamide-GDP and alpha-ribazole to generate adenosylcobalamin (Ado-cobalamin). Also synthesizes adenosylcobalamin 5'-phosphate from adenosylcobinamide-GDP and alpha-ribazole 5'- phosphate; Belongs to the CobS family.	0.689
DVU_0855	ctaB	DVU_0855	DVU_1811	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Protoheme IX farnesyltransferase, putative; Converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group.	0.900
DVU_0855	galE	DVU_0855	DVU_1360	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	UDP-glucose 4-epimerase; Identified by match to protein family HMM PF01370; match to protein family HMM TIGR01179; Belongs to the NAD(P)-dependent epimerase/dehydratase family.	0.564
DVU_0855	gmd	DVU_0855	DVU_0448	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	GDP-mannose 4,6-dehydratase; Catalyzes the conversion of GDP-D-mannose to GDP-4-dehydro-6- deoxy-D-mannose; Belongs to the NAD(P)-dependent epimerase/dehydratase family. GDP-mannose 4,6-dehydratase subfamily.	0.588
DVU_0855	hemB	DVU_0855	DVU_0856	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Porphobilinogen synthase; Identified by match to protein family HMM PF00490; Belongs to the ALAD family.	0.735
DVU_0857	DVU_0665	DVU_0857	DVU_0665	Radical SAM domain protein; Identified by match to protein family HMM PF04055.	Nitrogen fixation protein nifU; May be involved in the formation or repair of [Fe-S] clusters present in iron-sulfur proteins; Belongs to the NifU family.	0.538

page 1 of 3

Server load: low (12%) [HD]

Share

Network

Neighborhood

Experiments

Fusion

Databases

Co-occurrence

Textmining

Co-expression

© STRING Consortium 2026

Credits

Access

Info

About