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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
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.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 sitei64SubstrateUniRule annotation1
Active sitei73Proton donorUniRule annotation1
Sitei136Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Binding sitei170SubstrateUniRule annotation1
Sitei187Could be important to modulate the pK values of the two catalytic cysteine residuesUniRule annotation1
Active sitei196Proton 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:MK0434
OrganismiMethanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Taxonomic identifieri190192 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanopyriMethanopyralesMethanopyraceaeMethanopyrus
Proteomesi
  • UP000001826 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001498871 – 279Diaminopimelate epimeraseAdd BLAST279

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi190192.MK0434

Structurei

3D structure databases

ProteinModelPortaliQ8TY71
SMRiQ8TY71
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni74 – 75Substrate bindingUniRule annotation2
Regioni187 – 188Substrate bindingUniRule annotation2
Regioni197 – 198Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiarCOG02255 Archaea
COG0253 LUCA
HOGENOMiHOG000220466
KOiK01778
OMAiSMCGNGG
OrthoDBiPOG093Z085A

Family and domain databases

HAMAPiMF_00197 DAP_epimerase, 1 hit
InterProiView protein in InterPro
IPR018510 DAP_epimerase_AS
IPR001653 DAP_epimerase_DapF
PANTHERiPTHR31689 PTHR31689, 2 hits
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.

Q8TY71-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQFWKVHGAR NDFVLVDETE EEVVPESDKP DFARWACDRR SGVGADGVVF
60 70 80 90 100
IRSDPPSVEM RIFNRDGSEA EFCGNAARCV VKYVTEVRGE NVKILRTLSG
110 120 130 140 150
AHRVEVQGGW IAVEVPEAEI KKVVELGYEV DAGVPHFVRL TERDPIHDFG
160 170 180 190 200
GLTDEAKTIF SEYEPKGGVN VTYAAPSVDE LRVRTFERGV GWTPACGSGV
210 220 230 240 250
VAASLVYSEI FGPFEEVSVR TAGGCLRVSL SDGPLLIGRA EIVYKGELRG
260 270
DWRENTDHQR RRHSLSRSPS GRPRLQECR
Length:279
Mass (Da):30,994
Last modified:June 1, 2002 - v1
Checksum:i64603E6D480EAB6D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA Translation: AAM01649.1

Genome annotation databases

EnsemblBacteriaiAAM01649; AAM01649; MK0434
KEGGimka:MK0434
PATRICifig|190192.8.peg.463

Entry informationi

Entry nameiDAPF_METKA
AccessioniPrimary (citable) accession number: Q8TY71
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 25, 2002
Last sequence update: June 1, 2002
Last modified: April 25, 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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