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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Methanosaeta thermophila (strain DSM 6194 / PT) (Methanothrix thermophila (strain DSM 6194 / PT))
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.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 sitei50 – 501SubstrateUniRule annotation
Binding sitei68 – 681SubstrateUniRule annotation
Active sitei77 – 771Proton donor/acceptorUniRule annotation
Sitei161 – 1611Important for catalytic activityUniRule annotation
Binding sitei191 – 1911SubstrateUniRule annotation
Sitei207 – 2071Important 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

BioCyciMMET349307:GHKI-462-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:Mthe_0454
OrganismiMethanosaeta thermophila (strain DSM 6194 / PT) (Methanothrix thermophila (strain DSM 6194 / PT))
Taxonomic identifieri349307 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanomicrobiaMethanosarcinalesMethanosaetaceaeMethanosaeta
ProteomesiUP000000674 Componenti: Chromosome

Subcellular locationi

  1. 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 – 279279Diaminopimelate epimerasePRO_1000011905Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi77 ↔ 217

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi349307.Mthe_0454.

Structurei

3D structure databases

ProteinModelPortaliA0B6C1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni77 – 793Substrate bindingUniRule annotation
Regioni207 – 2082Substrate bindingUniRule annotation
Regioni218 – 2192Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
InterProiIPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.

Sequencei

Sequence statusi: Complete.

A0B6C1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNQLEFVKLH GNGNDFILID ELNGERIPED EKSEASRILC HRNFGIGGDG
60 70 80 90 100
VLFLVPSERA DIGMRLFQPD GSEAEMCGNG IRCLAKHAWE SGYVGERFSV
110 120 130 140 150
ETLAGVIPIQ VRRDRKGFWA RVEMGIPRFE RSEIPADGEG TFLKVPLHGF
160 170 180 190 200
EVSAVNTGVP HAVIFVENLD IPVEQIAPKI RHSSCFPEGA NVNFVRLGNH
210 220 230 240 250
LEVRTFERGV EAETLSCGTG SVAAAAVARR LGLVGETVEV MTKGGPLRIS
260 270
FAGEKAFMEG PAVTVCRGVV SDEILQTLQ
Length:279
Mass (Da):30,386
Last modified:November 28, 2006 - v1
Checksum:iF1CF018283554695
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000477 Genomic DNA. Translation: ABK14245.1.
RefSeqiYP_842885.1. NC_008553.1.

Genome annotation databases

EnsemblBacteriaiABK14245; ABK14245; Mthe_0454.
GeneIDi4462611.
KEGGimtp:Mthe_0454.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000477 Genomic DNA. Translation: ABK14245.1.
RefSeqiYP_842885.1. NC_008553.1.

3D structure databases

ProteinModelPortaliA0B6C1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi349307.Mthe_0454.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK14245; ABK14245; Mthe_0454.
GeneIDi4462611.
KEGGimtp:Mthe_0454.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciMMET349307:GHKI-462-MONOMER.

Family and domain databases

HAMAPiMF_00197. DAP_epimerase.
InterProiIPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERiPTHR31689. PTHR31689. 1 hit.
PfamiPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsiTIGR00652. DapF. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 6194 / PT.

Entry informationi

Entry nameiDAPF_METTP
AccessioniPrimary (citable) accession number: A0B6C1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: November 28, 2006
Last modified: February 4, 2015
This is version 56 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

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.