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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Mycobacterium leprae (strain TN)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-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

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:ML0996
ORF Names:B2235_C3_233
OrganismiMycobacterium leprae (strain TN)
Taxonomic identifieri272631 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000000806 Componenti: Chromosome

Organism-specific databases

LepromaiML0996.

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001498521 – 296Diaminopimelate epimeraseAdd BLAST296

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi272631.ML0996.

Structurei

3D structure databases

ProteinModelPortaliP46814.
SMRiP46814.
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.
HOGENOMiHOG000220467.
KOiK01778.
OMAiRFTKMQG.
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.

P46814-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIFAKGHGTQ NDFVVLPDVE ADVTFTAAQV AALCNRRQGL GADGVLRVTT
60 70 80 90 100
AGAAVTAGVL EHLPDGVSCS DWYMDYRNAD GSVAQMCGNG VRVFAHYLRA
110 120 130 140 150
SGLESCDEFV VGSLAGPRLV NVHHVDELNA DVTVDMGKAN LLGSGGPAFA
160 170 180 190 200
VTVGGRRFSG VAVDVGNPHL ACMDPQLSLE ELAALDLGAP VHLDRVQFPD
210 220 230 240 250
GVNIEVLTAP VDGMVQMRVH ERGVGETRSC GTGTVAAAVA ALASAGADTG
260 270 280 290
TLTVRVPGGD VVITITDVTS YLRGPSVLVA HGELADAWWY SLARSC
Length:296
Mass (Da):30,640
Last modified:November 1, 1995 - v1
Checksum:iF0FBD68A0D5BAF5C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00019 Genomic DNA. Translation: AAA17279.1.
AL583920 Genomic DNA. Translation: CAC31377.1.
PIRiS72943.
RefSeqiNP_301738.1. NC_002677.1.
WP_010908062.1. NC_002677.1.

Genome annotation databases

EnsemblBacteriaiCAC31377; CAC31377; CAC31377.
GeneIDi910020.
KEGGimle:ML0996.
PATRICi18053718. VBIMycLep78757_1804.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00019 Genomic DNA. Translation: AAA17279.1.
AL583920 Genomic DNA. Translation: CAC31377.1.
PIRiS72943.
RefSeqiNP_301738.1. NC_002677.1.
WP_010908062.1. NC_002677.1.

3D structure databases

ProteinModelPortaliP46814.
SMRiP46814.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272631.ML0996.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAC31377; CAC31377; CAC31377.
GeneIDi910020.
KEGGimle:ML0996.
PATRICi18053718. VBIMycLep78757_1804.

Organism-specific databases

LepromaiML0996.

Phylogenomic databases

eggNOGiENOG4105E4Z. Bacteria.
COG0253. LUCA.
HOGENOMiHOG000220467.
KOiK01778.
OMAiRFTKMQG.
OrthoDBiPOG091H01QC.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.

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.
ProtoNetiSearch...

Entry informationi

Entry nameiDAPF_MYCLE
AccessioniPrimary (citable) accession number: P46814
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: November 1, 1995
Last modified: March 15, 2017
This is version 98 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

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.