B5YHS9 (BIOD_THEYD) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
ATP-dependent dethiobiotin synthetase BioD
EC=6.3.3.3

Alternative name(s):
DTB synthetase
Short name=DTBS
Dethiobiotin synthase

Gene names

Name:	bioD
Ordered Locus Names:	THEYE_A1875

Organism

Thermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87)

Taxonomic identifier

289376 [NCBI]

Taxonomic lineage

Bacteria › Nitrospirae › Nitrospirales › Nitrospiraceae › Thermodesulfovibrio

Protein attributes

Sequence length	240 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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 By similarity. HAMAP MF_00336
Catalytic activity	ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin. HAMAP MF_00336
Cofactor	Magnesium By similarity. HAMAP MF_00336
Pathway	Cofactor biosynthesis; biotin biosynthesis; biotin from 7,8-diaminononanoate: step 1/2. HAMAP MF_00336
Subcellular location	Cytoplasm By similarity HAMAP MF_00336.
Sequence similarities	Belongs to the dethiobiotin synthetase family.

Ontologies

Keywords
Biological process	Biotin biosynthesis
Cellular component	Cytoplasm
Ligand	ATP-binding Magnesium Metal-binding Nucleotide-binding
Molecular function	Ligase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	biotin biosynthetic process Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW dethiobiotin synthase activity Inferred from electronic annotation. Source: EC magnesium ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 240	240	ATP-dependent dethiobiotin synthetase BioD HAMAP MF_00336		PRO_1000119884
Regions
	Nucleotide binding	116 – 119	4	ATP By similarity
	Nucleotide binding	214 – 216	3	ATP By similarity
Sites
	Metal binding	17	1	Magnesium 2 By similarity
	Metal binding	55	1	Magnesium 2 By similarity
	Metal binding	116	1	Magnesium 2 By similarity
	Binding site	42	1	Substrate By similarity
	Binding site	55	1	ATP By similarity

Sequences

	Sequence		Length	Mass (Da)
	B5YHS9 [UniParc]. Last modified November 25, 2008. Version 1. Checksum: AA1BC7CFEB770DB3	FASTA	240	26,657
	10 20 30 40 50 60 MKAGYFITGT DTGVGKTIVT SAILRSFIKK GLKVGAMKVI ETGCLNKDGI LLPSDGMLLR 70 80 90 100 110 120 DMAEMNDSLD LITPIKLENP LSPLVASRIE EIEVDIERIF RAFETLQKKY DYLLVEGVGG 130 140 150 160 170 180 LMVPLNKEEK KKSMFYFVRD LIKDMGLPVI LVTRPTLGTI NHTLLTLEAL KNKKISVKGY 190 200 210 220 230 240 IINFSEPAKN DIAEKTNPQV LKELVDVPCL GILPYLTELN KDKIGETAIK NFDIEALISL

References

[1]

"The complete genome sequence of Thermodesulfovibrio yellowstonii strain ATCC 51303 / DSM 11347 / YP87." Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G. Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 51303 / DSM 11347 / YP87.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001147 Genomic DNA. Translation: ACI20770.1.
RefSeq	YP_002249665.1. NC_011296.1.
3D structure databases
ProteinModelPortal	B5YHS9.
ModBase	Search...
Protein-protein interaction databases
STRING	B5YHS9.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	6942967.
GenomeReviews	Gene locus THEYE_A1875 in contig CP001147_GR.
KEGG	tye:THEYE_A1875.
PATRIC	23910779. VBITheYel104483_1831.
Phylogenomic databases
HOGENOM	HBG650065.
OMA	ANCVDPN.
PhylomeDB	B5YHS9.
ProtClustDB	CLSK2803893.
Family and domain databases
HAMAP	MF_00336. BioD. [Tree]
InterPro	IPR002586. CbiA_P_synth. IPR004472. DTB_synth_BioD. [Graphical view]
KO	K01935.
Pfam	PF01656. CbiA. 1 hit. [Graphical view]
PIRSF	PIRSF006755. DTB_synth. 1 hit.
TIGRFAMs	TIGR00347. BioD. 1 hit.
ProtoNet	Search...

Entry information

Entry name

BIOD_THEYD

Accession

Primary (citable) accession number: B5YHS9

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 14, 2009
Last sequence update:	November 25, 2008
Last modified:	January 25, 2012
This is version 28 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program