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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Prochlorococcus marinus (strain NATL2A)
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 sitei13SubstrateUniRule annotation1
Binding sitei70SubstrateUniRule annotation1
Active sitei79Proton donorUniRule annotation1
Binding sitei167SubstrateUniRule annotation1
Sitei169Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei200SubstrateUniRule annotation1
Sitei218Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei227Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciPMAR59920:G1G4T-916-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:PMN2A_0322
OrganismiProchlorococcus marinus (strain NATL2A)
Taxonomic identifieri59920 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaSynechococcalesProchloraceaeProchlorococcus
Proteomesi
  • UP000002535 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000119271 – 284Diaminopimelate epimeraseAdd BLAST284

Proteomic databases

PRIDEiQ46L14

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliQ46L14
SMRiQ46L14
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni80 – 81Substrate bindingUniRule annotation2
Regioni218 – 219Substrate bindingUniRule annotation2
Regioni228 – 229Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000220466
KOiK01778
OMAiSMCGNGG
OrthoDBiPOG091H01QC
PhylomeDBiQ46L14

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.

Q46L14-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKNNFSKYQG LGNDFIIFDA RSNNLDHLFS KNKDNFIEHL CNRNFGIGAD
60 70 80 90 100
GIILILESNN KCFVRMKIYN SDGSEPEMCG NGIRCLIAFL NDNNEINELS
110 120 130 140 150
EIPIETKAGL ILTYIDGNEN IKVNMGEPIL SPLDIPTKLL MNSLKVPNGV
160 170 180 190 200
ITLKDQILNV YAASMGNPHM IVFVNDIEGI PFQEWGSFLE KHNTFPNDTN
210 220 230 240 250
VHFVEIIDKS NIKVKVWERG CGPTLACGTG ACACLVVTSK LGKTLNNANV
260 270 280
YLPGGKLEVE WPNQSGPVFM QGPALKVFSG EIDI
Length:284
Mass (Da):31,399
Last modified:September 13, 2005 - v1
Checksum:i54EF02E4E37FD568
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000095 Genomic DNA Translation: AAZ57814.1
RefSeqiWP_011293856.1, NC_007335.2

Genome annotation databases

EnsemblBacteriaiAAZ57814; AAZ57814; PMN2A_0322
KEGGipmn:PMN2A_0322

Similar proteinsi

Entry informationi

Entry nameiDAPF_PROMT
AccessioniPrimary (citable) accession number: Q46L14
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: September 13, 2005
Last modified: May 23, 2018
This is version 76 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, Reference proteome
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Main funding by: National Institutes of Health