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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
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 sitei66SubstrateUniRule annotation1
Active sitei75Proton donorUniRule annotation1
Binding sitei162SubstrateUniRule annotation1
Sitei164Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei195SubstrateUniRule annotation1
Sitei213Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei222Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

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:slr1665
OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
Taxonomic identifieri1111708 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaSynechococcalesMerismopediaceaeSynechocystis
Proteomesi
  • UP000001425 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001498731 – 279Diaminopimelate epimeraseAdd BLAST279

Proteomic databases

PaxDbiP74667

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi1148.SYNGTS_3079

Structurei

3D structure databases

ProteinModelPortaliP74667
SMRiP74667
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni76 – 77Substrate bindingUniRule annotation2
Regioni213 – 214Substrate bindingUniRule annotation2
Regioni223 – 224Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000220467
InParanoidiP74667
KOiK01778
OMAiSMCGNGG
PhylomeDBiP74667

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.

P74667-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALSFSKYHG LGNDFILVDN RQSTEPCLTP DQAQQLCDRH FGIGADGVIF
60 70 80 90 100
ALPGQGGTDY TMRIFNSDGS EPEMCGNGIR CLAKFLADLE GVEEKTYRIH
110 120 130 140 150
TLAGVITPQL LADGQVKVDM GEPQLLAELI PTTLAPAGEK VVDLPLAVAG
160 170 180 190 200
QTWAVTCVSM GNPHCLTFVD DVDSLNLTEI GPLFEHHPQF SQRTNTEFIQ
210 220 230 240 250
VLGSDRLKMR VWERGAGITL ACGTGACATV VAAVLTGRGD RRCTVELPGG
260 270
NLEIEWSAQD NRLYMTGPAQ RVFSGQAEI
Length:279
Mass (Da):30,096
Last modified:February 1, 1997 - v1
Checksum:i9E7EF1DEF5C63A02
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA Translation: BAA18785.1
PIRiS76873

Genome annotation databases

EnsemblBacteriaiBAA18785; BAA18785; BAA18785
KEGGisyn:slr1665

Similar proteinsi

Entry informationi

Entry nameiDAPF_SYNY3
AccessioniPrimary (citable) accession number: P74667
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: March 28, 2018
This is version 108 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