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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)
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 sitei167SubstrateUniRule annotation1
Sitei169Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei203SubstrateUniRule annotation1
Sitei221Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei230Proton acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionIsomerase
Biological processAmino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciMAVI262316:G1G0E-2966-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:MAP_2840c
OrganismiMycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)
Taxonomic identifieri262316 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium avium complex (MAC)
Proteomesi
  • UP000000580 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000119081 – 294Diaminopimelate epimeraseAdd BLAST294

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi262316.MAP2840c

Structurei

3D structure databases

ProteinModelPortaliQ73W21
SMRiQ73W21
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni88 – 89Substrate bindingUniRule annotation2
Regioni221 – 222Substrate bindingUniRule annotation2
Regioni231 – 232Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105E4Z Bacteria
COG0253 LUCA
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.

Q73W21-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKFAKGHGTE NDFVLLCDPP AELRLTGAGV AALCDRRRGL GADGVLRVTA
60 70 80 90 100
AAAAAAAGVL DRLPDGVAGD DWYMDYRNAD GSVAQMCGNG VRVFAHYLRA
110 120 130 140 150
SGLETRDEFV VGSLAGPRPV TVHAADATGA DVSVDMGKAN TLGGGGEAFE
160 170 180 190 200
ATVGGRRFAG LAVDVGNPHL ACLDPELSVD ELAALDVAAP VSFDAAQFPD
210 220 230 240 250
GVNIEVLTAP AAGVVHMRVH ERGVGETRSC GTGTVAAVVA ALAAAGADTG
260 270 280 290
TLTVRVPGGD VVVTVTDATS YLRGPSVLVA HGEISEEWWQ QAQR
Length:294
Mass (Da):29,958
Last modified:July 5, 2004 - v1
Checksum:iDFBB58E0EB873277
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016958 Genomic DNA Translation: AAS05157.1
RefSeqiWP_003878625.1, NC_002944.2

Genome annotation databases

EnsemblBacteriaiAAS05157; AAS05157; MAP_2840c
GeneIDi2717509
KEGGimpa:MAP_2840c
PATRICifig|262316.17.peg.3009

Similar proteinsi

Entry informationi

Entry nameiDAPF_MYCPA
AccessioniPrimary (citable) accession number: Q73W21
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 5, 2004
Last modified: March 28, 2018
This is version 81 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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