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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Wolbachia sp. subsp. Brugia malayi (strain TRS)
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 sitei14 – 141SubstrateUniRule annotation
Binding sitei42 – 421SubstrateUniRule annotation
Binding sitei60 – 601SubstrateUniRule annotation
Active sitei69 – 691Proton donor/acceptorUniRule annotation
Binding sitei151 – 1511SubstrateUniRule annotation
Sitei153 – 1531Important for catalytic activityUniRule annotation
Binding sitei184 – 1841SubstrateUniRule annotation
Sitei202 – 2021Important for catalytic activityUniRule annotation
Active sitei211 – 2111Proton 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

BioCyciWEND292805:GH18-592-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:Wbm0518
OrganismiWolbachia sp. subsp. Brugia malayi (strain TRS)
Taxonomic identifieri292805 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesAnaplasmataceaeWolbachieaeWolbachia
ProteomesiUP000000534 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 – 259259Diaminopimelate epimerasePRO_1000058546Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi69 ↔ 211

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi292805.Wbm0518.

Structurei

3D structure databases

ProteinModelPortaliQ5GSB8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 713Substrate bindingUniRule annotation
Regioni202 – 2032Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiILECFKV.
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.

Q5GSB8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSQSPKRMY GTGNNFVIID SRSINNLNWN YREIANQNGC DQIIVITNSS
60 70 80 90 100
AADCFMHIYN ADGGEVEMCG NAARCVGYLI MSEKSTEYAT IELVNKRILE
110 120 130 140 150
CFKVGGRSIK VNMGKPLFKW HEIPLSAKCD PLHLPIELEM LKDPVAVNIG
160 170 180 190 200
NPHMVFFVDN ISEIPLQSLG PKLEKHTLFP KKVNVNIAQV EKSGEISLRV
210 220 230 240 250
WERGTGITAS CGSAACAALI ASVLRGYLIT RQTSVNLPGG KLLIEWPDNI

FMTGDIGFL
Length:259
Mass (Da):28,565
Last modified:March 1, 2005 - v1
Checksum:i07C9AC6E02AF14DB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017321 Genomic DNA. Translation: AAW71106.1.
RefSeqiYP_198348.1. NC_006833.1.

Genome annotation databases

EnsemblBacteriaiAAW71106; AAW71106; Wbm0518.
KEGGiwbm:Wbm0518.
PATRICi24032887. VBIWolEnd7741_0814.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017321 Genomic DNA. Translation: AAW71106.1.
RefSeqiYP_198348.1. NC_006833.1.

3D structure databases

ProteinModelPortaliQ5GSB8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi292805.Wbm0518.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAW71106; AAW71106; Wbm0518.
KEGGiwbm:Wbm0518.
PATRICi24032887. VBIWolEnd7741_0814.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiILECFKV.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciWEND292805:GH18-592-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: TRS.

Entry informationi

Entry nameiDAPF_WOLTR
AccessioniPrimary (citable) accession number: Q5GSB8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: March 1, 2005
Last modified: April 1, 2015
This is version 69 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.