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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Enterococcus faecalis (strain ATCC 700802 / V583)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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 sitei13SubstrateUniRule annotation1
Binding sitei52SubstrateUniRule annotation1
Binding sitei72SubstrateUniRule annotation1
Active sitei81Proton donor/acceptorUniRule annotation1
Binding sitei169SubstrateUniRule annotation1
Sitei171Important for catalytic activityUniRule annotation1
Binding sitei205SubstrateUniRule annotation1
Sitei223Important for catalytic activityUniRule annotation1
Active sitei232Proton donor/acceptorUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-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
Gene namesi
Name:dapFUniRule annotation
Ordered Locus Names:EF_0464
OrganismiEnterococcus faecalis (strain ATCC 700802 / V583)
Taxonomic identifieri226185 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliLactobacillalesEnterococcaceaeEnterococcus
Proteomesi
  • UP000001415 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10000118761 – 326Diaminopimelate epimeraseAdd BLAST326

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi81 ↔ 232

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi226185.EF0464.

Structurei

3D structure databases

ProteinModelPortaliQ838I3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni81 – 83Substrate bindingUniRule annotation3
Regioni223 – 224Substrate bindingUniRule annotation2
Regioni233 – 234Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105E4Z. Bacteria.
COG0253. LUCA.
KOiK01778.
OMAiFILDQTE.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase. 1 hit.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q838I3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNVMMQKVHG SENDFFLLDE TQFERSLTAE EIEQLRIQLC SRETGLLAGA
60 70 80 90 100
DGLLLVGEGT HGTSNARMRV INSDGSEASM CGNGLRTVAR YLAEKNQEKS
110 120 130 140 150
FTVETMFADL KVRQAPNLAE EVATYQVEIS PVSFEAVTIP MHLGVQTLID
160 170 180 190 200
EIVPALSNTI RFTAVAVPNP HLVAFVDHET LNGPEFERIA TYVNNENPYF
210 220 230 240 250
PEGINVSFVE ILGKNQLFVR TYERGVGFTS ACGTAMCASS LLYTLLKDGV
260 270 280 290 300
FYEEITVKNT GGMVKTVVHE TSDGSYWMEL IGNATITHLI EGSLTDLLNG
310 320
AFEKITITET NEQKHYQEFL QTLSQK
Length:326
Mass (Da):36,095
Last modified:June 1, 2003 - v1
Checksum:iF89F02A0783A3BDA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016830 Genomic DNA. Translation: AAO80319.1.
RefSeqiNP_814248.1. NC_004668.1.
WP_002387689.1. NZ_KE136524.1.

Genome annotation databases

EnsemblBacteriaiAAO80319; AAO80319; EF_0464.
GeneIDi1199379.
KEGGiefa:EF0464.
PATRICi21851353. VBIEntFae7065_0429.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016830 Genomic DNA. Translation: AAO80319.1.
RefSeqiNP_814248.1. NC_004668.1.
WP_002387689.1. NZ_KE136524.1.

3D structure databases

ProteinModelPortaliQ838I3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi226185.EF0464.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAO80319; AAO80319; EF_0464.
GeneIDi1199379.
KEGGiefa:EF0464.
PATRICi21851353. VBIEntFae7065_0429.

Phylogenomic databases

eggNOGiENOG4105E4Z. Bacteria.
COG0253. LUCA.
KOiK01778.
OMAiFILDQTE.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase. 1 hit.
InterProiIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
PROSITEiPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDAPF_ENTFA
AccessioniPrimary (citable) accession number: Q838I3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: June 1, 2003
Last modified: November 2, 2016
This is version 73 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.