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Protein

Diaminopimelate decarboxylase

Gene

lysA

Organism
Cyclobacterium marinum (strain ATCC 25205 / DSM 745) (Flectobacillus marinus)
Status
Unreviewed-Annotation score: -Protein inferred from homologyi

Functioni

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

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation

Catalytic activityi

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

Cofactori

pyridoxal 5'-phosphateUniRule annotationSAAS 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)
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)DescriptionActionsGraphical viewLength
Binding sitei227Pyridoxal phosphate; via amide nitrogenUniRule annotation1
Binding sitei307SubstrateUniRule annotation1
Binding sitei311SubstrateUniRule annotation1
Binding sitei338SubstrateUniRule annotation1
Binding sitei365Pyridoxal phosphateUniRule annotation1
Binding sitei365SubstrateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDecarboxylaseUniRule annotation, Lyase
Biological processAmino-acid biosynthesis, Lysine biosynthesisUniRule annotation
LigandPyridoxal phosphateUniRule annotationSAAS annotation

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:Cycma_1046Imported
OrganismiCyclobacterium marinum (strain ATCC 25205 / DSM 745) (Flectobacillus marinus)Imported
Taxonomic identifieri880070 [NCBI]
Taxonomic lineageiBacteriaBacteroidetesCytophagiaCytophagalesCyclobacteriaceaeCyclobacterium
Proteomesi
  • UP000001635 Componenti: Chromosome

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei57N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi880070.Cycma_1046

Structurei

3D structure databases

ProteinModelPortaliG0IVQ1
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini27 – 363Orn_DAP_Arg_deCInterPro annotationAdd BLAST337
Domaini33 – 275Orn_Arg_deC_NInterPro annotationAdd BLAST243

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105CU5 Bacteria
COG0019 LUCA
KOiK01586
OMAiVVGYICE
OrthoDBiPOG091H013X

Family and domain databases

CDDicd06828 PLPDE_III_DapDC, 1 hit
Gene3Di2.40.37.10, 2 hits
3.20.20.10, 1 hit
HAMAPiMF_02120 LysA, 1 hit
InterProiView protein in InterPro
IPR009006 Ala_racemase/Decarboxylase_C
IPR002986 DAP_deCOOHase_LysA
IPR022643 De-COase2_C
IPR022644 De-COase2_N
IPR022653 De-COase2_pyr-phos_BS
IPR000183 Orn/DAP/Arg_de-COase
IPR029066 PLP-binding_barrel
PANTHERiPTHR43727:SF2 PTHR43727:SF2, 1 hit
PfamiView protein in Pfam
PF02784 Orn_Arg_deC_N, 1 hit
PF00278 Orn_DAP_Arg_deC, 1 hit
PRINTSiPR01181 DAPDCRBXLASE
PR01179 ODADCRBXLASE
SUPFAMiSSF50621 SSF50621, 1 hit
SSF51419 SSF51419, 1 hit
TIGRFAMsiTIGR01048 lysA, 1 hit
PROSITEiView protein in PROSITE
PS00878 ODR_DC_2_1, 1 hit

Sequencei

Sequence statusi: Complete.

G0IVQ1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEIKNQQYCI GGIPLLNIAE KYGSPVYVYD GEKILHQVES LKKAFADVKM
60 70 80 90 100
KIKYATKALS NINILKLMKK AGTGVDAVSI EEVKLCLHVG FSPEEIMYTP
110 120 130 140 150
NCVDFEEIKE AVAYGVMVNI DSIPMLEHFG TEYGNDVPIC IRLNPHILAG
160 170 180 190 200
GNAKISVGHI DSKFGISILQ LKHVIKVVQA YDLNVVGLHV HTGSDILDAE
210 220 230 240 250
VFLQGAEILF DAAREFKDLA FLDFGGGFKV AYKNGDITTD IQDVGKKVSA
260 270 280 290 300
AFKKFCKEYG RELEIWFEPG KFLVSECGYL LTKANVVKPT PATTFVGVNS
310 320 330 340 350
GLNHLLRPMM YDAYHSVVNI SKLDGPERVY TIVGYICETD TIAADRKIKE
360 370 380 390 400
VKEGDIIAIK NAGAYGYSMS SNYNSRFRPA EVLILNEKDY LIRKRESMED
410
ILKNQISIDF
Length:410
Mass (Da):45,651
Last modified:October 19, 2011 - v1
Checksum:i0E0AC58257A72972
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002955 Genomic DNA Translation: AEL24818.1
RefSeqiWP_014019115.1, NC_015914.1

Genome annotation databases

EnsemblBacteriaiAEL24818; AEL24818; Cycma_1046
KEGGicmr:Cycma_1046

Similar proteinsi

Entry informationi

Entry nameiG0IVQ1_CYCMS
AccessioniPrimary (citable) accession number: G0IVQ1
Entry historyiIntegrated into UniProtKB/TrEMBL: October 19, 2011
Last sequence update: October 19, 2011
Last modified: March 28, 2018
This is version 50 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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