Reviewed, UniProtKB/Swiss-Prot O24872 (BIOD_HELPY)

Names and origin

Protein names

Recommended name:
    Dethiobiotin synthetase
    EC=6.3.3.3
Alternative name(s):
    Dethiobiotin synthase
    DTB synthetase
      Short name=DTBS

Gene names

Name:	bioD
Ordered Locus Names:	HP_0029

Organism

Helicobacter pylori (Campylobacter pylori) [Complete proteome] [HAMAP]

Taxonomic identifier

210 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter

Protein attributes

Sequence length	218 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Catalytic activity	ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin. HAMAP MF_00336
Cofactor	Magnesium By similarity.
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
Molecular function	ATP binding Inferred from electronic annotation. Source: HAMAP 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 – 218

218

Dethiobiotin synthetase HAMAP MF_00336

PRO_0000187971

Regions

Nucleotide binding

6 – 14

9

ATP By similarity

Secondary structure

1

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218

Helix Strand Turn

Details...

Beta strand

1 – 8

8

Helix

13 – 26

14

Beta strand

31 – 34

4

Turn

43 – 45

3

Helix

50 – 58

9

Turn

59 – 61

3

Helix

67 – 70

4

Helix

81 – 88

8

Helix

96 – 105

10

Helix

106 – 108

3

Beta strand

111 – 116

6

Beta strand

124 – 128

5

Helix

131 – 138

8

Beta strand

141 – 146

6

Helix

152 – 164

13

Beta strand

166 – 168

3

Beta strand

170 – 174

5

Helix

183 – 186

4

Helix

188 – 197

10

Helix

205 – 207

3

Helix

209 – 217

9

Sequences

	Sequence		Length	Mass (Da)
	O24872-1 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: C818F3D3A88C6015	FASTA	218	24,407
	10 20 30 40 50 60 MLFISATNTN AGKTTCARLL AQYCNACGVK TILLKPIETG VNDAINHSSD AHLFLQDNRL 70 80 90 100 110 120 LDRSLTLKDI SFYRYHKVSA PLIAQQEEDP NAPIDTDNLT QRLHNFTKTY DLVIVEGAGG 130 140 150 160 170 180 LCVPITLEEN MLDFALKLKA KMLLISHDNL GLINDCLLND FLLKSHQLDY KIAINLKGNN 190 200 210 TAFHSISLPY IELFNTRSNN PIVIFQQSLK VLMSFALK

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori." Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J. , Khalak H.G., Glodek A., McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E., Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D., Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S., Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C. Nature 388:539-547(1997) [PubMed: 9252185] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700392 / 26695.

Cross-references

Sequence databases

EMBLGenBankDDBJ

AE000511 Genomic DNA. Translation: AAD07100.1.

PIR

E64523.

RefSeq

NP_206831.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2QMO	X-ray	1.47	A	1-218	[»]

ModBase

Search...

Genome annotation databases

GeneID

899125.

GenomeReviews

Gene locus HP_0029 in contig AE000511_GR.

KEGG

hpy:HP0029.

NMPDR

fig|85962.1.peg.29.

TIGR

HP_0029.

Phylogenomic databases

HOGENOM

O24872.

OMA

MLFISAT

Enzyme and pathway databases

BRENDA

6.3.3.3. 1131.

Family and domain databases

HAMAP

MF_00336.
[Tree]

InterPro

IPR004472. BioD_synth.
[Graphical view]

PIRSF

PIRSF006755. DTB_synth. 1 hit.

TIGRFAMs

TIGR00347. bioD. 1 hit.

ProtoNet

Search...

Entry information

Entry name

BIOD_HELPY

Accession

Primary (citable) accession number: O24872

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 15, 1998
Last sequence update:	January 1, 1998
Last modified:	November 3, 2009
This is version 53 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)