Reviewed, UniProtKB/Swiss-Prot P69954 (BIOD2_YERPS)

Names and origin

Protein names

Recommended name:
    Probable dethiobiotin synthetase 2
      Short name=Dethiobiotin synthase 2
      Short name=DTB synthetase 2
      Short name=DTBS 2
    EC=6.3.3.3

Gene names

Name:	bioD2
Synonyms:	bioD
Ordered Locus Names:	YPTB2191

Organism

Yersinia pseudotuberculosis [Complete proteome] [HAMAP]

Taxonomic identifier

633 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Yersinia

Protein attributes

Sequence length	222 AA.
Sequence status	Complete.
Protein existence	Inferred from homology.

General annotation (Comments)

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
Sequence similarities	Belongs to the dethiobiotin synthetase family.

Ontologies

Keywords
Biological process	Biotin biosynthesis
Ligand	ATP-binding Magnesium Nucleotide-binding
Molecular function	Ligase
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	biotin biosynthetic process Inferred from electronic annotation. Source: HAMAP cobalamin biosynthetic process Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: HAMAP cobyrinic acid a,c-diamide synthase activity Inferred from electronic annotation. Source: InterPro dethiobiotin synthase activity Inferred from electronic annotation. Source: HAMAP magnesium ion binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 222

222

Probable dethiobiotin synthetase 2 HAMAP MF_00336

PRO_0000188004

Regions

Nucleotide binding

9 – 17

9

ATP By similarity

Secondary structure

1

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222

Helix Strand Turn

Details...

Beta strand

3 – 11

9

Helix

16 – 30

15

Beta strand

34 – 37

4

Helix

54 – 62

9

Beta strand

63 – 65

3

Helix

69 – 72

4

Helix

79 – 86

8

Helix

92 – 105

14

Beta strand

107 – 112

6

Beta strand

114 – 116

3

Beta strand

120 – 124

5

Helix

127 – 134

8

Beta strand

138 – 143

6

Helix

148 – 162

15

Beta strand

166 – 172

7

Helix

181 – 191

11

Beta strand

196 – 200

5

Helix

213 – 216

4

Sequences

	Sequence		Length	Mass (Da)
	P69954-1 [UniParc]. Last modified January 4, 2005. Version 1. Checksum: 4E17C7A0BC32EF85	FASTA	222	24,192
	10 20 30 40 50 60 MLTRLFVTGT DTAVGKTVVS RALLQALSQN GRTAVGYKPV ATESKETSEG LRNQDALILQ 70 80 90 100 110 120 ASSSIELNYQ EVNPYPLQGD VIHACTDTLI NYEKMTEGLQ CLSAKADTVI VEGCGGWKVM 130 140 150 160 170 180 MNDQRFYSDW VVQEQLPVIL VVGIKLGCIN HALLTAQAII NDGLPLLGWV ANRINPGLAH 190 200 210 220 YAETIAMLRD RLAAPQLGQL PYLPRPEEKP LAKYLDLTAI SG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Genetic environment of the ypmA superantigen gene of Yersinia pseudotuberculosis." Carnoy C.A., Floquet S., Herwegh S., Devalckenaere A., Simonet M. Submitted (AUG-2001) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: AH.
[2]	"Genetic environment of the superantigen genes of Yersinia pseudotuberculosis." Carnoy C., Floquet S., Simonet M. Submitted (AUG-2001) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: YPT1 / Serotype 3.
[3]	"Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis." Chain P.S.G., Carniel E., Larimer F.W., Lamerdin J., Stoutland P.O., Regala W.M., Georgescu A.M., Vergez L.M., Land M.L., Motin V.L., Brubaker R.R., Fowler J., Hinnebusch J., Marceau M., Medigue C., Simonet M., Chenal-Francisque V., Souza B. , Dacheux D., Elliott J.M., Derbise A., Hauser L.J., Garcia E. Proc. Natl. Acad. Sci. U.S.A. 101:13826-13831(2004) [PubMed: 15358858] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: IP32953 / Serotype I.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF335466 Genomic DNA. Translation: AAK28549.1.
AF414083 Genomic DNA. Translation: AAL02239.1.
BX936398 Genomic DNA. Translation: CAH21429.1.

RefSeq

YP_070708.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1M0A	model	-	A	1-222	[»]

SMR

P69954. Positions 3-219.

ModBase

Search...

Genome annotation databases

GeneID

2955289.

GenomeReviews

Gene locus YPTB2191 in contig BX936398_GR.

KEGG

yps:YPTB2191.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

HBG650065.

OMA

ETPEGMR.

Enzyme and pathway databases

BioCyc

YPSE273123:YPTB2191-MONOMER.

BRENDA

6.3.3.3. 20871.

Family and domain databases

HAMAP

MF_00336. BioD.
[Tree]

InterPro

IPR004472. BioD_synth.
[Graphical view]

PIRSF

PIRSF006755. DTB_synth. 1 hit.

TIGRFAMs

TIGR00347. bioD. 1 hit.

ProtoNet

Search...

Entry information

Entry name

BIOD2_YERPS

Accession

Primary (citable) accession number: P69954
Secondary accession number(s): Q66AD9, Q9AGD4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 4, 2005
Last sequence update:	January 4, 2005
Last modified:	February 9, 2010
This is version 37 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)