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A4TRA3

- DAPF_YERPP

UniProt

A4TRA3 - DAPF_YERPP

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Protein
Diaminopimelate epimerase
Gene
dapF, YPDSF_3462
Organism
Yersinia pestis (strain Pestoides F)
Status
Reviewed - 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 By similarity.UniRule annotation

Catalytic activityi

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111Substrate By similarity
Binding sitei44 – 441Substrate By similarity
Binding sitei64 – 641Substrate By similarity
Active sitei73 – 731Proton donor/acceptor By similarity
Binding sitei157 – 1571Substrate By similarity
Sitei159 – 1591Important for catalytic activity By similarity
Binding sitei190 – 1901Substrate By similarity
Sitei208 – 2081Important for catalytic activity By similarity
Active sitei217 – 2171Proton donor/acceptor By similarity

GO - Molecular functioni

  1. diaminopimelate epimerase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. lysine biosynthetic process via diaminopimelate Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciYPES386656:GKD7-3537-MONOMER.
UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimerase (EC:5.1.1.7)
Short name:
DAP epimerase
Gene namesi
Name:dapF
Ordered Locus Names:YPDSF_3462
OrganismiYersinia pestis (strain Pestoides F)
Taxonomic identifieri386656 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeYersinia
ProteomesiUP000000236: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 274274Diaminopimelate epimeraseUniRule annotation
PRO_1000011989Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi73 ↔ 217UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi386656.YPDSF_3462.

Structurei

3D structure databases

ProteinModelPortaliA4TRA3.
SMRiA4TRA3. Positions 1-274.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 92Substrate binding By similarity
Regioni73 – 753Substrate binding By similarity
Regioni208 – 2092Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiLIVEPPY.
OrthoDBiEOG6ND0M5.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
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.

A4TRA3-1 [UniParc]FASTAAdd to Basket

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MQFSKMHGLG NDFMVVDAVT QNVYFSPELI RRLADRHTGV GFDQMLVVEP    50
PYDPELDFHY RIFNADGSEV SQCGNGARCF ARFVRLKGLT NKREISVSTQ 100
TGRMILSVTE DEQVCVNMGE PDFEPQTVPF RAAKAEKTYI LRAAEHTVLC 150
GVVSMGNPHC VMQVDDVSVA NVALLGPVLE NHERFPERAN IGFMQVVSRD 200
HIRLRVYERG AGETQACGSG ACAAVAVGVV QDLLNENVHV ELPGGSLHIR 250
WQGPGHPLYM TGPATHVYDG FIHL 274
Length:274
Mass (Da):30,252
Last modified:May 15, 2007 - v1
Checksum:i8B66E79E67EB9FF1
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000668 Genomic DNA. Translation: ABP41815.1.
RefSeqiYP_001164788.1. NC_009381.1.

Genome annotation databases

EnsemblBacteriaiABP41815; ABP41815; YPDSF_3462.
GeneIDi5062218.
KEGGiypp:YPDSF_3462.
PATRICi18616903. VBIYerPes122972_4320.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000668 Genomic DNA. Translation: ABP41815.1 .
RefSeqi YP_001164788.1. NC_009381.1.

3D structure databases

ProteinModelPortali A4TRA3.
SMRi A4TRA3. Positions 1-274.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 386656.YPDSF_3462.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABP41815 ; ABP41815 ; YPDSF_3462 .
GeneIDi 5062218.
KEGGi ypp:YPDSF_3462.
PATRICi 18616903. VBIYerPes122972_4320.

Phylogenomic databases

eggNOGi COG0253.
HOGENOMi HOG000220466.
KOi K01778.
OMAi LIVEPPY.
OrthoDBi EOG6ND0M5.

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci YPES386656:GKD7-3537-MONOMER.

Family and domain databases

HAMAPi MF_00197. DAP_epimerase.
InterProi IPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view ]
PANTHERi PTHR31689. PTHR31689. 1 hit.
Pfami PF01678. DAP_epimerase. 2 hits.
[Graphical view ]
TIGRFAMsi TIGR00652. DapF. 1 hit.
PROSITEi PS01326. DAP_EPIMERASE. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Pestoides F.

Entry informationi

Entry nameiDAPF_YERPP
AccessioniPrimary (citable) accession number: A4TRA3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: May 15, 2007
Last modified: June 11, 2014
This is version 50 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

Documents

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

External Data

Dasty 3

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