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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Leptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
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 sitei65SubstrateUniRule annotation1
Active sitei74Proton donorUniRule annotation1
Binding sitei165SubstrateUniRule annotation1
Sitei167Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei198SubstrateUniRule annotation1
Sitei216Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei225Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciLINT189518:G1GL4-73-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:LA_0083
OrganismiLeptospira interrogans serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
Taxonomic identifieri189518 [NCBI]
Taxonomic lineageiBacteriaSpirochaetesLeptospiralesLeptospiraceaeLeptospira
Proteomesi
  • UP000001408 Componenti: Chromosome I

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001498481 – 281Diaminopimelate epimeraseAdd BLAST281

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi189518.LA_0083

Structurei

3D structure databases

ProteinModelPortaliQ8F9V5
SMRiQ8F9V5
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni75 – 76Substrate bindingUniRule annotation2
Regioni216 – 217Substrate bindingUniRule annotation2
Regioni226 – 227Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105E4Z Bacteria
COG0253 LUCA
HOGENOMiHOG000220466
InParanoidiQ8F9V5
KOiK01778
OMAiSMCGNGG

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.

Q8F9V5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASLKFTKME GIGNDYVYID STRNDIRLTP EQIQKISDRN FGIGSDGVIF
60 70 80 90 100
IRNSKQGDFM MDMYNSDGSS SEMCGNGIRC VAKYIYDHGL TSSKNPKIET
110 120 130 140 150
GAGILEVDLK IGSGNKVDLV SVDMGKPVLV PSQIPVVWKN EETIIDQPLE
160 170 180 190 200
IGDKNLKFTA VSMGNPHCVI FVDDSDEFPV RGIGPLIERH SIFPKRVNVE
210 220 230 240 250
FVTIRGKDHL YQRTWERGAG ETLACGTGAC AVMVAGNLTR RSGKDVQIDL
260 270 280
RGGTLRIQWQ ESGNILMTGP AREIFSGEIE I
Length:281
Mass (Da):30,966
Last modified:March 1, 2003 - v1
Checksum:iDBECCC0E63DE1151
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE010300 Genomic DNA Translation: AAN47282.1
RefSeqiNP_710264.1, NC_004342.2
WP_000157609.1, NC_004342.2

Genome annotation databases

EnsemblBacteriaiAAN47282; AAN47282; LA_0083
GeneIDi1149426
KEGGilil:LA_0083
PATRICifig|189518.3.peg.89

Similar proteinsi

Entry informationi

Entry nameiDAPF_LEPIN
AccessioniPrimary (citable) accession number: Q8F9V5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 11, 2003
Last sequence update: March 1, 2003
Last modified: March 28, 2018
This is version 85 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