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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Listeria welshimeri serovar 6b (strain ATCC 35897 / DSM 20650 / SLCC5334)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

Catalyzes the stereoinversion of LL-2,6-diaminoheptanedioate (L,L-DAP) to meso-diaminoheptanedioate (meso-DAP), a precursor of L-lysine and an essential component of the bacterial peptidoglycan.UniRule annotation

Catalytic activityi

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

Pathwayi: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Diaminopimelate epimerase (dapF)
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 DL-2,6-diaminopimelate from LL-2,6-diaminopimelate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei14SubstrateUniRule annotation1
Binding sitei73SubstrateUniRule annotation1
Active sitei82Proton donorUniRule annotation1
Binding sitei170SubstrateUniRule annotation1
Sitei172Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei206SubstrateUniRule annotation1
Sitei224Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei233Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciLWEL386043:G1GJF-2097-MONOMER
UniPathwayiUPA00034; UER00025

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimeraseUniRule annotation (EC:5.1.1.7UniRule annotation)
Short name:
DAP epimeraseUniRule annotation
Alternative name(s):
PLP-independent amino acid racemaseUniRule annotation
Gene namesi
Name:dapFUniRule annotation
Ordered Locus Names:lwe2038
OrganismiListeria welshimeri serovar 6b (strain ATCC 35897 / DSM 20650 / SLCC5334)
Taxonomic identifieri386043 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesListeriaceaeListeria
Proteomesi
  • UP000000779 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000118991 – 328Diaminopimelate epimeraseAdd BLAST328

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi386043.lwe2038

Structurei

3D structure databases

ProteinModelPortaliA0AKC4
SMRiA0AKC4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni83 – 84Substrate bindingUniRule annotation2
Regioni224 – 225Substrate bindingUniRule annotation2
Regioni234 – 235Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105E4Z Bacteria
COG0253 LUCA
HOGENOMiHOG000220466
KOiK01778
OMAiSMCGNGG
OrthoDBiPOG091H01QC

Family and domain databases

HAMAPiMF_00197 DAP_epimerase, 1 hit
InterProiView protein in InterPro
IPR018510 DAP_epimerase_AS
IPR001653 DAP_epimerase_DapF
PANTHERiPTHR31689 PTHR31689, 1 hit
PfamiView protein in Pfam
PF01678 DAP_epimerase, 2 hits
TIGRFAMsiTIGR00652 DapF, 1 hit
PROSITEiView protein in PROSITE
PS01326 DAP_EPIMERASE, 1 hit

Sequencei

Sequence statusi: Complete.

A0AKC4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAIIHFTKVH GSQNDFFLVD EEENHITAWS DTKRADFAIK LCDRSHSLGG
60 70 80 90 100
ADGILYVAKS NKAGAIGQMR VVNSDGSIAS MCGNGLRTVA RYLLEKHALT
110 120 130 140 150
DAKVETMKAI LDVRKATSLG FDIPTYQVEI SPVKFNPESL PMYVGVEKLF
160 170 180 190 200
NQVIPELDEE LAFSAVSVPN PHLITFVDQT VLDSDKQEKL ASFLNSENPY
210 220 230 240 250
FPDGVNVSFV KRLNEDAIYV RTFERGVGFT NACGTAMSAC SLIKKMLDQD
260 270 280 290 300
TLETPLNVYN DGGRVQVTAK KDETGDISLQ LIGNATFVST GSVRYDDIVT
310 320
ELTNEATVEQ AQYQELVQEV KHFLKTTG
Length:328
Mass (Da):36,147
Last modified:November 28, 2006 - v1
Checksum:i40947317DDE3C747
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM263198 Genomic DNA Translation: CAK21456.1
RefSeqiWP_011702802.1, NC_008555.1

Genome annotation databases

EnsemblBacteriaiCAK21456; CAK21456; lwe2038
KEGGilwe:lwe2038

Similar proteinsi

Entry informationi

Entry nameiDAPF_LISW6
AccessioniPrimary (citable) accession number: A0AKC4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: November 28, 2006
Last modified: March 28, 2018
This is version 67 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome
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Main funding by: National Institutes of Health