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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS) (Chlorobium tepidum)
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 sitei6SubstrateUniRule annotation1
Binding sitei57SubstrateUniRule annotation1
Active sitei66Proton donorUniRule annotation1
Sitei138Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei170SubstrateUniRule annotation1
Sitei188Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei198Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciCTEP194439:G1FZE-2061-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:CT2021
OrganismiChlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS) (Chlorobium tepidum)
Taxonomic identifieri194439 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobaculum
Proteomesi
  • UP000001007 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001498321 – 257Diaminopimelate epimeraseAdd BLAST257

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi194439.CT2021

Structurei

3D structure databases

ProteinModelPortaliQ8KAX9
SMRiQ8KAX9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni67 – 68Substrate bindingUniRule annotation2
Regioni188 – 189Substrate bindingUniRule annotation2
Regioni199 – 200Substrate 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.

Q8KAX9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGAGNDFIV IDNRQGLFNL THEQVRAMCT RRTGIGADGL ILLETSETAD
60 70 80 90 100
FRMNYHNADG FPGTMCGNGG RCAVWFAHLI GIRPTGKHYR FEAGPSTYEA
110 120 130 140 150
EVTGEESVRL HMLPPSDFRD GLQAGAWNCH FVDTGSPHAI AYVNNLDQLD
160 170 180 190 200
VLTEGGNIRH NKELFPDGTN VNFLEITAPD ALSIRTFERG VEDETLACGT
210 220 230 240 250
GTVAAALMSF RLGKVTSSLV RVKVKSGETL MVGFNEMMDE IYLEGPARAV

YRGTITL
Length:257
Mass (Da):28,053
Last modified:October 1, 2002 - v1
Checksum:iA25BD74CE3A5E9A5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE006470 Genomic DNA Translation: AAM73238.1
RefSeqiNP_662896.1, NC_002932.3
WP_010933676.1, NC_002932.3

Genome annotation databases

EnsemblBacteriaiAAM73238; AAM73238; CT2021
GeneIDi1007540
KEGGicte:CT2021
PATRICifig|194439.7.peg.1831

Similar proteinsi

Entry informationi

Entry nameiDAPF_CHLTE
AccessioniPrimary (citable) accession number: Q8KAX9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 11, 2003
Last sequence update: October 1, 2002
Last modified: March 28, 2018
This is version 86 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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