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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Paraburkholderia ribeironis
Status
Unreviewed-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 annotationSAAS 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 annotationSAAS 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 sitei46SubstrateUniRule annotation1
Binding sitei66SubstrateUniRule annotation1
Active sitei75PROSITE-ProRule annotation1
Active sitei75Proton donorUniRule annotation1
Binding sitei166SubstrateUniRule annotation1
Sitei168Could 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 functionIsomeraseUniRule annotationSAAS annotationImported
Biological processAmino-acid biosynthesis, Lysine biosynthesisUniRule annotationSAAS annotation

Enzyme and pathway databases

UniPathwayi
UPA00034;UER00025

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimeraseUniRule annotationSAAS annotation (EC:5.1.1.7UniRule annotationSAAS annotation)
Short name:
DAP epimeraseUniRule annotation
Alternative name(s):
PLP-independent amino acid racemaseUniRule annotation
Gene namesi
Name:dapFUniRule annotationImported
ORF Names:BN2475_40109Imported
OrganismiParaburkholderia ribeironisImported
Taxonomic identifieri1247936 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeParaburkholderia
Proteomesi
  • UP000187012 Componenti: Unassembled WGS sequence

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Subunit structurei

Homodimer.UniRule annotationSAAS annotation

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni76 – 77Substrate bindingUniRule annotation2
Regioni217 – 218Substrate bindingUniRule annotation2
Regioni227 – 228Substrate bindingUniRule annotation2

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotationSAAS annotation

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.

A0A1N7RJN4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKLKFTKMHG AGNDFVVLDG YTQALNLTPA QVRALADRHF GIGADQLLLV
60 70 80 90 100
EKPTVDGVEF RYRIFNCDGG EVEHCGNGAR CFVKFVRDRG LTDQRSVRVQ
110 120 130 140 150
VQKGTITLTM QDNGEVLVDM GAPVFEPERL PFATKGLEGR REGADTLWPL
160 170 180 190 200
DVNGTTRWIS AVSMGNPHAV QVVDDVEAFP VRVEGAVIER HARFPQRVNA
210 220 230 240 250
GFMQIVGRSE IKLRVYERGA GETLACGTGA CAAVAAGIRR GLLDAPVRVH
260 270 280 290 300
THGGDLTISW DSTQQGEPLL MAGPAATVFE GEIELADSLA DSLADSLASS

PAA
Length:303
Mass (Da):32,612
Last modified:March 15, 2017 - v1
Checksum:i6E34046D10D68188
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CYGX02000004 Genomic DNA Translation: SIT35309.1

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CYGX02000004 Genomic DNA Translation: SIT35309.1

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

UniPathwayi
UPA00034;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 nameiA0A1N7RJN4_9BURK
AccessioniPrimary (citable) accession number: A0A1N7RJN4
Entry historyiIntegrated into UniProtKB/TrEMBL: March 15, 2017
Last sequence update: March 15, 2017
Last modified: September 27, 2017
This is version 5 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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