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Protein

Diaminopimelate decarboxylase

Gene

lysA

Organism
Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
Status
Reviewed-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 annotation

Pathwayi: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes L-lysine from DL-2,6-diaminopimelate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Diaminopimelate decarboxylase (lysA), Diaminopimelate decarboxylase (lysA)
This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-lysine from DL-2,6-diaminopimelate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei234 – 2341Pyridoxal phosphate; via amide nitrogenUniRule annotation
Binding sitei278 – 2781SubstrateUniRule annotation
Binding sitei314 – 3141SubstrateUniRule annotation
Binding sitei318 – 3181SubstrateUniRule annotation
Active sitei348 – 3481Proton donorSequence analysis
Binding sitei349 – 3491SubstrateUniRule annotation
Binding sitei384 – 3841Pyridoxal phosphateUniRule annotation
Binding sitei384 – 3841SubstrateUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

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 annotation
Ordered Locus Names:SCO6438
ORF Names:SC9B5.05
OrganismiStreptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
Taxonomic identifieri100226 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaStreptomycetalesStreptomycetaceaeStreptomycesStreptomyces albidoflavus group
Proteomesi
  • UP000001973 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 440440Diaminopimelate decarboxylasePRO_0000149935Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei61 – 611N6-(pyridoxal phosphate)lysineUniRule annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi100226.SCO6438.

Structurei

3D structure databases

ProteinModelPortaliQ9ZBH5.
SMRiQ9ZBH5. Positions 19-417.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni275 – 2784Pyridoxal phosphate bindingUniRule annotation

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4107TFS. Bacteria.
COG0019. LUCA.
HOGENOMiHOG000045070.
InParanoidiQ9ZBH5.
KOiK01586.
OMAiSVDMLEQ.
OrthoDBiEOG6Z9B18.
PhylomeDBiQ9ZBH5.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 1 hit.
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.
IPR000183. Orn/DAP/Arg_de-COase.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 1 hit.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
PRINTSiPR01181. DAPDCRBXLASE.
PR01179. ODADCRBXLASE.
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR01048. lysA. 1 hit.
PROSITEiPS00878. ODR_DC_2_1. 1 hit.
PS00879. ODR_DC_2_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9ZBH5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTSPSAPSSA ERPRLPGALD GPRLAAAAAE HGTPLWLYDA ATIRAQIDRL
60 70 80 90 100
RRFDVIRYAQ KACSNLHILR LMREEGVHVD AVSEGEIERA LAAGYRVGGD
110 120 130 140 150
DEPIVFTADL LNRSTLRRVV ELGIPVNAGS PQMLDQVGRA APGHPVWIRI
160 170 180 190 200
NPGFGHGHSR KTNTGGEHSK HGIWHEHLEE SLALVDRHGL DLVGLHMHIG
210 220 230 240 250
SGVDYGHLES VCETMVKQVR MAGRDIRAIS AGGGLSVPYT PGDPEIDTDR
260 270 280 290 300
YFELWDAARR ELVSELGHPV RLEIEPGRFL VAGAGVLAAE VRAQKPVGSN
310 320 330 340 350
YFVLVDAGFN DLMRPAMYGS NHRVSVLDAD GAPRASDARD TVLAGPLCES
360 370 380 390 400
GDVFTQVEGG DVEPVPVPRT DVGDLVVFHD TGAYGASMSS TYNSRPLIPE
410 420 430 440
VLVDGAETRL IRRRQTVAEL LAPELEPGPA LSPRPSRDPR
Length:440
Mass (Da):47,549
Last modified:May 1, 1999 - v1
Checksum:i8DC03E8650DB3921
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL939127 Genomic DNA. Translation: CAA22747.1.
PIRiT35925.
RefSeqiNP_630523.1. NC_003888.3.
WP_011030919.1. NC_003888.3.

Genome annotation databases

EnsemblBacteriaiCAA22747; CAA22747; CAA22747.
GeneIDi1101877.
KEGGisco:SCO6438.
PATRICi23742783. VBIStrCoe124346_6538.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL939127 Genomic DNA. Translation: CAA22747.1.
PIRiT35925.
RefSeqiNP_630523.1. NC_003888.3.
WP_011030919.1. NC_003888.3.

3D structure databases

ProteinModelPortaliQ9ZBH5.
SMRiQ9ZBH5. Positions 19-417.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi100226.SCO6438.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAA22747; CAA22747; CAA22747.
GeneIDi1101877.
KEGGisco:SCO6438.
PATRICi23742783. VBIStrCoe124346_6538.

Phylogenomic databases

eggNOGiENOG4107TFS. Bacteria.
COG0019. LUCA.
HOGENOMiHOG000045070.
InParanoidiQ9ZBH5.
KOiK01586.
OMAiSVDMLEQ.
OrthoDBiEOG6Z9B18.
PhylomeDBiQ9ZBH5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00027.

Family and domain databases

Gene3Di2.40.37.10. 1 hit.
3.20.20.10. 1 hit.
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.
IPR000183. Orn/DAP/Arg_de-COase.
IPR029066. PLP-binding_barrel.
[Graphical view]
PfamiPF02784. Orn_Arg_deC_N. 1 hit.
PF00278. Orn_DAP_Arg_deC. 1 hit.
[Graphical view]
PRINTSiPR01181. DAPDCRBXLASE.
PR01179. ODADCRBXLASE.
SUPFAMiSSF50621. SSF50621. 1 hit.
SSF51419. SSF51419. 1 hit.
TIGRFAMsiTIGR01048. lysA. 1 hit.
PROSITEiPS00878. ODR_DC_2_1. 1 hit.
PS00879. ODR_DC_2_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-471 / A3(2) / M145.

Entry informationi

Entry nameiDCDA_STRCO
AccessioniPrimary (citable) accession number: Q9ZBH5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: November 11, 2015
This is version 102 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.