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A1B656 (BIOB2_PARDP) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 52. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Biotin synthase 2

EC=2.8.1.6
Gene names
Name:bioB2
Ordered Locus Names:Pden_2916
OrganismParacoccus denitrificans (strain Pd 1222) [Complete proteome] [HAMAP]
Taxonomic identifier318586 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus

Protein attributes

Sequence length320 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Catalyzes the conversion of dethiobiotin (DTB) to biotin by the insertion of a sulfur atom into dethiobiotin via a radical-based mechanism By similarity. HAMAP-Rule MF_01694

Catalytic activity

Dethiobiotin + sulfur-(sulfur carrier) + 2 S-adenosyl-L-methionine = biotin + (sulfur carrier) + 2 L-methionine + 2 5'-deoxyadenosine. HAMAP-Rule MF_01694

Cofactor

Binds 1 4Fe-4S cluster. The cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine By similarity.

Binds 1 2Fe-2S cluster. The cluster is coordinated with 3 cysteines and 1 arginine By similarity.

Pathway

Cofactor biosynthesis; biotin biosynthesis; biotin from 7,8-diaminononanoate: step 2/2. HAMAP-Rule MF_01694

Subunit structure

Homodimer By similarity. HAMAP-Rule MF_01694

Sequence similarities

Belongs to the radical SAM superfamily. Biotin synthase family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 320320Biotin synthase 2 HAMAP-Rule MF_01694
PRO_0000381516

Sites

Metal binding491Iron-sulfur 1 (4Fe-4S-S-AdoMet) By similarity
Metal binding531Iron-sulfur 1 (4Fe-4S-S-AdoMet) By similarity
Metal binding561Iron-sulfur 1 (4Fe-4S-S-AdoMet) By similarity
Metal binding931Iron-sulfur 2 (2Fe-2S) By similarity
Metal binding1241Iron-sulfur 2 (2Fe-2S) By similarity
Metal binding1841Iron-sulfur 2 (2Fe-2S) By similarity
Metal binding2561Iron-sulfur 2 (2Fe-2S) By similarity

Sequences

Sequence LengthMass (Da)Tools
A1B656 [UniParc].

Last modified January 23, 2007. Version 1.
Checksum: 48800D3D05F55D23

FASTA32034,800
        10         20         30         40         50         60 
MPQQSRSAAE IYHQPLMDLL FQAQTVHRAH FDPNVVQCSK LLSIKTGGCP EDCAYCSQSA 

        70         80         90        100        110        120 
RNGSELSASK LMEVQRVLAE ARRAKEAGAT RYCMGAAWRS PKERDMPAVL AMIRGVKAMG 

       130        140        150        160        170        180 
METCMTLGML DADQALRLKD AGLDYYNHNI DTSERYYSEI ITTRTFQDRI ETLERVQAAG 

       190        200        210        220        230        240 
INVCAGGIVG MGETAEDRIS MLETLAGLEV PPQSVPINML MPMAGTPLAD VPRLDAIEMV 

       250        260        270        280        290        300 
RTIATARILM PASYVRLSAG RSEMSDEMQA MCFFAGANSI FVGDTLLTAG NPDEDKDALL 

       310        320 
FAKLGLRAEV PEASQEGCAA 

« Hide

References

[1]"Complete sequence of chromosome 2 of Paracoccus denitrificans PD1222."
Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Munk A.C., Brettin T., Bruce D., Han C., Tapia R., Gilna P., Schmutz J. expand/collapse author list , Larimer F., Land M., Hauser L., Kyrpides N., Lykidis A., Spiro S., Richardson D.J., Moir J.W.B., Ferguson S.J., van Spanning R.J.M., Richardson P.
Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Pd 1222.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000490 Genomic DNA. Translation: ABL71000.1.
RefSeqYP_916696.1. NC_008687.1.

3D structure databases

ProteinModelPortalA1B656.
SMRA1B656. Positions 10-309.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING318586.Pden_2916.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaABL71000; ABL71000; Pden_2916.
GeneID4581483.
KEGGpde:Pden_2916.
PATRIC22856986. VBIParDen97112_2857.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0502.
HOGENOMHOG000239957.
KOK01012.
OMADETQALC.
OrthoDBEOG622PMP.

Enzyme and pathway databases

BioCycPDEN318586:GCVQ-2958-MONOMER.
UniPathwayUPA00078; UER00162.

Family and domain databases

Gene3D3.20.20.70. 1 hit.
HAMAPMF_01694. BioB.
InterProIPR013785. Aldolase_TIM.
IPR010722. BATS_dom.
IPR002684. Biotin_synth/BioAB.
IPR024177. Biotin_synthase.
IPR006638. Elp3/MiaB/NifB.
IPR007197. rSAM.
[Graphical view]
PfamPF06968. BATS. 1 hit.
PF04055. Radical_SAM. 1 hit.
[Graphical view]
PIRSFPIRSF001619. Biotin_synth. 1 hit.
SMARTSM00876. BATS. 1 hit.
SM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsTIGR00433. bioB. 1 hit.
ProtoNetSearch...

Entry information

Entry nameBIOB2_PARDP
AccessionPrimary (citable) accession number: A1B656
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: January 23, 2007
Last modified: May 14, 2014
This is version 52 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways