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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Bartonella quintana (strain Toulouse) (Rochalimaea quintana)
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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei13 – 131SubstrateUniRule annotation
Binding sitei45 – 451SubstrateUniRule annotation
Binding sitei65 – 651SubstrateUniRule annotation
Active sitei74 – 741Proton donor/acceptorUniRule annotation
Binding sitei156 – 1561SubstrateUniRule annotation
Sitei158 – 1581Important for catalytic activityUniRule annotation
Binding sitei190 – 1901SubstrateUniRule annotation
Sitei208 – 2081Important for catalytic activityUniRule annotation
Active sitei217 – 2171Proton donor/acceptorUniRule annotation

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

BioCyciBQUI283165:GHZA-1346-MONOMER.
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:BQ13480
OrganismiBartonella quintana (strain Toulouse) (Rochalimaea quintana)
Taxonomic identifieri283165 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBartonellaceaeBartonella
ProteomesiUP000000597 Componenti: Chromosome

Subcellular locationi

Cytoplasm 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 – 283283Diaminopimelate epimerasePRO_1000011847Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 217

Keywords - PTMi

Disulfide bond

Proteomic databases

PRIDEiQ6FYC7.

Interactioni

Protein-protein interaction databases

STRINGi283165.BQ13480.

Structurei

3D structure databases

ProteinModelPortaliQ6FYC7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni74 – 763Substrate bindingUniRule annotation
Regioni208 – 2092Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiENHPMFP.
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.

Q6FYC7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKTPFRKMDG LGNQIIVADM RESTHALTPQ AILALAADPQ THFDQIMTIH
60 70 80 90 100
SSTQKEADFR IEIWNADGSM AKACGNGTRC VIAWLTDHNL GESFRLETPA
110 120 130 140 150
GIIEGKRQTD NLISVDMGCP NFNAKEMPVS REIADTNYVK ITAGPLKDAC
160 170 180 190 200
LVSIGNLHAI FFVEDNIQQI PLEKYGPKLE HDPLFPERCN ISIASVTSHK
210 220 230 240 250
SLNLRTWERG AGLTKACGSA ACASAVAAYR RGLTQRHIDV NLPGGTLNIV
260 270 280
YREDNHIVMT GPTKYEFGGF LNPLTGTYKK DHF
Length:283
Mass (Da):31,158
Last modified:July 18, 2004 - v1
Checksum:i14EFF366FAAA94C9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX897700 Genomic DNA. Translation: CAF26806.1.
RefSeqiYP_032862.1. NC_005955.1.

Genome annotation databases

EnsemblBacteriaiCAF26806; CAF26806; BQ13480.
KEGGibqu:BQ13480.
PATRICi31954173. VBIBarQui58630_1483.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX897700 Genomic DNA. Translation: CAF26806.1.
RefSeqiYP_032862.1. NC_005955.1.

3D structure databases

ProteinModelPortaliQ6FYC7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi283165.BQ13480.

Proteomic databases

PRIDEiQ6FYC7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAF26806; CAF26806; BQ13480.
KEGGibqu:BQ13480.
PATRICi31954173. VBIBarQui58630_1483.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiENHPMFP.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciBQUI283165:GHZA-1346-MONOMER.

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]
ProtoNetiSearch...

Publicationsi

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

Entry informationi

Entry nameiDAPF_BARQU
AccessioniPrimary (citable) accession number: Q6FYC7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 14, 2008
Last sequence update: July 18, 2004
Last modified: March 31, 2015
This is version 68 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

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 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.