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Protein

Diaminopimelate decarboxylase

Gene

lysA

Organism
Bifidobacterium animalis subsp. lactis (strain AD011)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Specifically catalyzes the decarboxylation of meso-diaminopimelate (meso-DAP) to L-lysine.UniRule annotation

Catalytic activityi

Meso-2,6-diaminoheptanedioate = L-lysine + CO2.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotationSAAS annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei330 – 3301Pyridoxal phosphate; via amide nitrogenUniRule annotation
Binding sitei375 – 3751SubstrateUniRule annotation
Binding sitei425 – 4251SubstrateUniRule annotation
Binding sitei429 – 4291SubstrateUniRule annotation
Binding sitei457 – 4571SubstrateUniRule annotation
Binding sitei486 – 4861Pyridoxal phosphateUniRule annotation
Binding sitei486 – 4861SubstrateUniRule annotation

GO - Molecular functioni

  1. diaminopimelate decarboxylase activity Source: UniProtKB-HAMAP
  2. pyridoxal phosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. lysine biosynthetic process via diaminopimelate Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

DecarboxylaseUniRule annotationSAAS annotation, Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesisUniRule annotation

Keywords - Ligandi

Pyridoxal phosphateUniRule annotationSAAS annotation

Enzyme and pathway databases

BioCyciBANI442563:GHG0-612-MONOMER.
UniPathwayiUPA00034; UER00027.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate decarboxylaseUniRule annotation (EC:4.1.1.20UniRule annotation)
Short name:
DAP decarboxylaseUniRule annotation
Short name:
DAPDCUniRule annotation
Gene namesi
Name:lysAUniRule annotationImported
Ordered Locus Names:BLA_0617Imported
OrganismiBifidobacterium animalis subsp. lactis (strain AD011)Imported
Taxonomic identifieri442563 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeBifidobacterialesBifidobacteriaceaeBifidobacterium
ProteomesiUP000002456: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei72 – 721N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi442563.BLA_0617.

Structurei

3D structure databases

ProteinModelPortaliB8DWQ9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni372 – 3754Pyridoxal phosphate bindingUniRule annotation

Sequence similaritiesi

Belongs to the Orn/Lys/Arg decarboxylase class-II family. LysA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG0019.
HOGENOMiHOG000045071.
KOiK01586.
OMAiHCFNVES.
OrthoDBiEOG6Z9B18.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 2 hits.
HAMAPiMF_02120. LysA.
InterProiIPR009006. Ala_racemase/Decarboxylase_C.
IPR002986. DAP_deCOOHase_LysA.
IPR022643. De-COase2_C.
IPR022657. De-COase2_CS.
IPR022644. De-COase2_N.
IPR022653. De-COase2_pyr-phos_BS.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 2 hits.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 2 hits.
PROSITEiPS00878. ODR_DC_2_1. 1 hit.
PS00879. ODR_DC_2_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B8DWQ9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAISPIWPAD TARNSNGELT FHGITASTLL DEFGSPLYVL DLDEVRARAS
60 70 80 90 100
HFVKAAAHAF TNNTTHVSYA AKAFLSKEMA RIVTEEGMFV DTCTLGEMKI
110 120 130 140 150
ALAAGVPGRR LVLHGNNKSD EEIELAIAEG FSKIVIDSPD EPARIAAIAE
160 170 180 190 200
RLGKRARVML RVTSGIHAGG HEYVSTAHED QKFGVALLPA GADTEIVDNI
210 220 230 240 250
DQLQDVSPAA TNALVHETEL ERGGETKQQA DRQLRYDVRY PYDLNAADVT
260 270 280 290 300
EGDRLLAAAM ELVANGPAIA VLREIAKYGN LELVGVHSHI GSNIHDAEAF
310 320 330 340 350
IQAAKRMMLL RKTFYATNAY TLPEVDLGGG YSVAYTDDED RMDVDRELGR
360 370 380 390 400
LADAVSKTNR LLGMPAPIIS FEPGRWIVAP AGVTLYRVGT VKTVQLGDGF
410 420 430 440 450
TNNAGERIRE RAYISVDGGM SDNIRPALYD AKYTAILANR ESAEPAKLSR
460 470 480 490 500
VVGIHCESGD IVVNEANLPA DVHRGDILAV PVTGAYGRSM ASNYNMALIP
510 520
AVVGIDGHGA HVMMRRQTID DLLALDVSE
Length:529
Mass (Da):57,114
Last modified:March 3, 2009 - v1
Checksum:iDF015C5601DA58D9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001213 Genomic DNA. Translation: ACL28910.1.
RefSeqiYP_002469486.1. NC_011835.1.

Genome annotation databases

EnsemblBacteriaiACL28910; ACL28910; BLA_0617.
GeneIDi7264024.
KEGGibla:BLA_0617.
PATRICi21104119. VBIBifAni98964_0648.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001213 Genomic DNA. Translation: ACL28910.1.
RefSeqiYP_002469486.1. NC_011835.1.

3D structure databases

ProteinModelPortaliB8DWQ9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi442563.BLA_0617.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL28910; ACL28910; BLA_0617.
GeneIDi7264024.
KEGGibla:BLA_0617.
PATRICi21104119. VBIBifAni98964_0648.

Phylogenomic databases

eggNOGiCOG0019.
HOGENOMiHOG000045071.
KOiK01586.
OMAiHCFNVES.
OrthoDBiEOG6Z9B18.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00027.
BioCyciBANI442563:GHG0-612-MONOMER.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 2 hits.
HAMAPiMF_02120. LysA.
InterProiIPR009006. Ala_racemase/Decarboxylase_C.
IPR002986. DAP_deCOOHase_LysA.
IPR022643. De-COase2_C.
IPR022657. De-COase2_CS.
IPR022644. De-COase2_N.
IPR022653. De-COase2_pyr-phos_BS.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 2 hits.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 2 hits.
PROSITEiPS00878. ODR_DC_2_1. 1 hit.
PS00879. ODR_DC_2_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Genome sequence of the probiotic bacterium Bifidobacterium animalis subsp. lactis AD011."
    Kim J.F., Jeong H., Yu D.S., Choi S.-H., Hur C.-G., Park M.-S., Yoon S.H., Kim D.-W., Ji G.E., Park H.-S., Oh T.K.
    J. Bacteriol. 191:678-679(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AD011Imported.

Entry informationi

Entry nameiB8DWQ9_BIFA0
AccessioniPrimary (citable) accession number: B8DWQ9
Entry historyi
Integrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: March 4, 2015
This is version 42 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

External Data

Dasty 3

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 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.