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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Mycobacterium ulcerans (strain Agy99)
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 sitei11SubstrateUniRule annotation1
Binding sitei78SubstrateUniRule annotation1
Active sitei87Proton donorUniRule annotation1
Binding sitei163SubstrateUniRule annotation1
Sitei165Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei199SubstrateUniRule annotation1
Sitei217Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei226Proton 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:MUL_3369
OrganismiMycobacterium ulcerans (strain Agy99)
Taxonomic identifieri362242 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000000765 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000119131 – 290Diaminopimelate epimeraseAdd BLAST290

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Structurei

3D structure databases

ProteinModelPortaliA0PT80
SMRiA0PT80
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni88 – 89Substrate bindingUniRule annotation2
Regioni217 – 218Substrate bindingUniRule annotation2
Regioni227 – 228Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000220467
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.

A0PT80-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIFAKGHGTQ NDFVLLPDVA ARLSLTAAQV AALCDRRRGL GADGILRVTT
60 70 80 90 100
ADAAVAAGVL HRLPDGVSPG DWYMDYRNAD GSTAQMCGNG VRVFAHYLRA
110 120 130 140 150
SGLETRDEFV VGSLAGPRPV TVHHADQTHA DVTVDMGKAN KLGPGEAVVG
160 170 180 190 200
GRRLSGVAVD VGNPHLACLD PGLTPEQLAA LDVGAPVSFD HAQFPEGVNV
210 220 230 240 250
EVLTARAAGV VCMRVHERGV GETRSCGTGT VAAAVAALAS AGQETGTLTV
260 270 280 290
RIPGGDVTVN ITDATSLLRG PSVLVASGEI SEEWWRDQRR
Length:290
Mass (Da):30,071
Last modified:January 9, 2007 - v1
Checksum:i48269BB5129D8719
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000325 Genomic DNA Translation: ABL05549.1
RefSeqiWP_011741157.1, NC_008611.1

Genome annotation databases

EnsemblBacteriaiABL05549; ABL05549; MUL_3369
KEGGimul:MUL_3369

Similar proteinsi

Entry informationi

Entry nameiDAPF_MYCUA
AccessioniPrimary (citable) accession number: A0PT80
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 9, 2007
Last modified: March 28, 2018
This is version 66 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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