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Protein

ATP-dependent dethiobiotin synthetase BioD

Gene

bioD

Organism
Burkholderia mallei (strain ATCC 23344)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes a mechanistically unusual reaction, the ATP-dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring.UniRule annotation

Catalytic activityi

ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin.UniRule annotation

Cofactori

Mg2+UniRule annotation

Pathwayi: biotin biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes biotin from 7,8-diaminononanoate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. ATP-dependent dethiobiotin synthetase BioD (bioD)
  2. Biotin synthase (bioB)
This subpathway is part of the pathway biotin biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes biotin from 7,8-diaminononanoate, the pathway biotin biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi15 – 151Magnesium 1UniRule annotation
Metal bindingi19 – 191Magnesium 2UniRule annotation
Metal bindingi57 – 571Magnesium 2UniRule annotation
Binding sitei57 – 571ATPUniRule annotation
Metal bindingi118 – 1181Magnesium 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi118 – 1214ATPUniRule annotation
Nucleotide bindingi178 – 1792ATPUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Biotin biosynthesis

Keywords - Ligandi

ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

UniPathwayiUPA00078; UER00161.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent dethiobiotin synthetase BioDUniRule annotation (EC:6.3.3.3UniRule annotation)
Alternative name(s):
DTB synthetaseUniRule annotation
Short name:
DTBSUniRule annotation
Dethiobiotin synthaseUniRule annotation
Gene namesi
Name:bioDUniRule annotation
Ordered Locus Names:BMA0102
OrganismiBurkholderia mallei (strain ATCC 23344)
Taxonomic identifieri243160 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiapseudomallei group
Proteomesi
  • UP000006693 Componenti: Chromosome 1

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 240240ATP-dependent dethiobiotin synthetase BioDPRO_0000302489Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi243160.BMA0102.

Structurei

3D structure databases

ProteinModelPortaliQ62MX0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the dethiobiotin synthetase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105EWW. Bacteria.
COG0132. LUCA.
HOGENOMiHOG000275032.
KOiK01935.
OMAiCINHAVL.
OrthoDBiEOG66B3XT.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
HAMAPiMF_00336. BioD.
InterProiIPR004472. DTB_synth_BioD.
IPR027417. P-loop_NTPase.
[Graphical view]
PIRSFiPIRSF006755. DTB_synth. 1 hit.
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00347. bioD. 1 hit.

Sequencei

Sequence statusi: Complete.

Q62MX0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAPLSLFVT GTDTEIGKTF VSAALLHGFA RAGLRAAAMK PVAAGAYERD
60 70 80 90 100
GAWRNEDADQ LDAAANVALP AAIRTPFLLK APAAPHIVAA REGVALDIGT
110 120 130 140 150
IVDAHRRACE MADVIVVEGV GGVRVPLADT RDTADLAVAL GLPVVLVVGV
160 170 180 190 200
RLGCISHALL TAEAIAARGL PLAGWVANRI DPAMPFADDN IDTLRAWLER
210 220 230 240
EHRAPLLGAL AHMSPPSPDA ASHALDVNLL LNALRAAAPR
Length:240
Mass (Da):24,874
Last modified:October 25, 2004 - v1
Checksum:i5E28F2256905A6FB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000010 Genomic DNA. Translation: AAU48656.1.
RefSeqiWP_004189380.1. NC_006348.1.
YP_101947.1. NC_006348.1.

Genome annotation databases

EnsemblBacteriaiAAU48656; AAU48656; BMA0102.
GeneIDi3090526.
KEGGibma:BMA0102.
PATRICi19115118. VBIBurMal55007_0101.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000010 Genomic DNA. Translation: AAU48656.1.
RefSeqiWP_004189380.1. NC_006348.1.
YP_101947.1. NC_006348.1.

3D structure databases

ProteinModelPortaliQ62MX0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi243160.BMA0102.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAU48656; AAU48656; BMA0102.
GeneIDi3090526.
KEGGibma:BMA0102.
PATRICi19115118. VBIBurMal55007_0101.

Phylogenomic databases

eggNOGiENOG4105EWW. Bacteria.
COG0132. LUCA.
HOGENOMiHOG000275032.
KOiK01935.
OMAiCINHAVL.
OrthoDBiEOG66B3XT.

Enzyme and pathway databases

UniPathwayiUPA00078; UER00161.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
HAMAPiMF_00336. BioD.
InterProiIPR004472. DTB_synth_BioD.
IPR027417. P-loop_NTPase.
[Graphical view]
PIRSFiPIRSF006755. DTB_synth. 1 hit.
SUPFAMiSSF52540. SSF52540. 1 hit.
TIGRFAMsiTIGR00347. bioD. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 23344.

Entry informationi

Entry nameiBIOD_BURMA
AccessioniPrimary (citable) accession number: Q62MX0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 25, 2004
Last modified: November 11, 2015
This is version 71 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.