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A4J568

- DAPF_DESRM

UniProt

A4J568 - DAPF_DESRM

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Desulfotomaculum reducens (strain MI-1)
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.UniRule annotation

Catalytic activityi

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

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei11 – 111SubstrateUniRule annotation
Binding sitei46 – 461SubstrateUniRule annotation
Binding sitei64 – 641SubstrateUniRule annotation
Active sitei73 – 731Proton donor/acceptorUniRule annotation
Binding sitei162 – 1621SubstrateUniRule annotation
Sitei164 – 1641Important for catalytic activityUniRule annotation
Binding sitei195 – 1951SubstrateUniRule annotation
Sitei213 – 2131Important for catalytic activityUniRule annotation
Active sitei222 – 2221Proton 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

BioCyciDRED349161:GHP6-1750-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:Dred_1694
OrganismiDesulfotomaculum reducens (strain MI-1)
Taxonomic identifieri349161 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptococcaceaeDesulfotomaculum
ProteomesiUP000001556: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 284284Diaminopimelate epimerasePRO_1000099232Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi73 ↔ 222

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi349161.Dred_1694.

Structurei

3D structure databases

ProteinModelPortaliA4J568.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 92Substrate bindingUniRule annotation
Regioni73 – 753Substrate bindingUniRule annotation
Regioni213 – 2142Substrate bindingUniRule annotation
Regioni223 – 2242Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiKMRIFNN.
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.

A4J568-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MYFTKVHGLG NDFILVNAGT GQGFTDDCST LAKEVCDRKF GIGADGLVLL
60 70 80 90 100
YDSGVADVRM KIVNSDGSEA EMCGNAIRCV AKYLYDHGII KKDEIKVETL
110 120 130 140 150
AGIIVPQIIQ QEGSVKAVRV DMGEPRVERA EIPMIGPPGQ VIGEELAVNG
160 170 180 190 200
KVYLVTAVSM GNPHCIIFVP DLEDISLTQV GPQIEVHPAF PKKTNVEFVQ
210 220 230 240 250
VLGPNEVRMV VWERGAGPTM ACGTGACAVA VAGVLNGFTE RMVTVHLPGG
260 270 280
SLMIEWAENG RIYMTGPATE VFSGEYTVYN PSRR
Length:284
Mass (Da):30,534
Last modified:May 1, 2007 - v1
Checksum:i51EF0695062005F2
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000612 Genomic DNA. Translation: ABO50221.1.
RefSeqiYP_001113046.1. NC_009253.1.

Genome annotation databases

EnsemblBacteriaiABO50221; ABO50221; Dred_1694.
GeneIDi4956201.
KEGGidrm:Dred_1694.
PATRICi21729575. VBIDesRed82656_1861.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000612 Genomic DNA. Translation: ABO50221.1 .
RefSeqi YP_001113046.1. NC_009253.1.

3D structure databases

ProteinModelPortali A4J568.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 349161.Dred_1694.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABO50221 ; ABO50221 ; Dred_1694 .
GeneIDi 4956201.
KEGGi drm:Dred_1694.
PATRICi 21729575. VBIDesRed82656_1861.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci DRED349161:GHP6-1750-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: MI-1.

Entry informationi

Entry nameiDAPF_DESRM
AccessioniPrimary (citable) accession number: A4J568
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: May 1, 2007
Last modified: October 29, 2014
This is version 58 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, Reference proteome

Documents

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

External Data

Dasty 3