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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Leifsonia xyli subsp. xyli (strain CTCB07)
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 sitei47 – 471SubstrateUniRule annotation
Binding sitei78 – 781SubstrateUniRule annotation
Active sitei87 – 871Proton donor/acceptorUniRule annotation
Binding sitei164 – 1641SubstrateUniRule annotation
Sitei166 – 1661Important for catalytic activityUniRule annotation
Binding sitei197 – 1971SubstrateUniRule annotation
Sitei221 – 2211Important for catalytic activityUniRule annotation
Active sitei230 – 2301Proton 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

BioCyciLXYL281090:GH0X-1519-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:Lxx15970
OrganismiLeifsonia xyli subsp. xyli (strain CTCB07)
Taxonomic identifieri281090 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesMicrococcineaeMicrobacteriaceaeLeifsonia
ProteomesiUP000001306 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 – 292292Diaminopimelate epimerasePRO_0000149846Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi87 ↔ 230

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi281090.Lxx15970.

Structurei

3D structure databases

ProteinModelPortaliQ6AE05.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni87 – 893Substrate bindingUniRule annotation
Regioni221 – 2222Substrate bindingUniRule annotation
Regioni231 – 2322Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
KOiK01778.
OMAiAIRHWAG.
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.

Q6AE05-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATLHFTKGQ GTGNDFVLYA DPDGTLPLSA GQIAEICDRH FGVGADGVIR
60 70 80 90 100
AVRSKRLPEG AEALADDEAA EWFMDYYNAD GSAAEMCGNG IRVYVRYLIE
110 120 130 140 150
SRLVQLADGD TLPIGTRSGV RDVQRTLSGF QVDLGRWRLA GGEPLVRAKE
160 170 180 190 200
LPVARLGLGI DLGNPHVVVA LADESELESA DLTYIPHLEP APQGGANVEF
210 220 230 240 250
VVPHEPLVKD GVGRIRMRVH ERGSGETLSC GTGAAAAALA VRHWAGENAP
260 270 280 290
GQWWVDVPGG TVGVRMFPTE DGEHVALSGP AELVYTGALE LA
Length:292
Mass (Da):30,987
Last modified:September 12, 2004 - v1
Checksum:i9A7944AB9769542C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016822 Genomic DNA. Translation: AAT89391.1.
RefSeqiWP_011186380.1. NC_006087.1.
YP_062496.1. NC_006087.1.

Genome annotation databases

EnsemblBacteriaiAAT89391; AAT89391; Lxx15970.
KEGGilxx:Lxx15970.
PATRICi22336840. VBILeiXyl11655_1662.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016822 Genomic DNA. Translation: AAT89391.1.
RefSeqiWP_011186380.1. NC_006087.1.
YP_062496.1. NC_006087.1.

3D structure databases

ProteinModelPortaliQ6AE05.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi281090.Lxx15970.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAT89391; AAT89391; Lxx15970.
KEGGilxx:Lxx15970.
PATRICi22336840. VBILeiXyl11655_1662.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220467.
KOiK01778.
OMAiAIRHWAG.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciLXYL281090:GH0X-1519-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: CTCB07.

Entry informationi

Entry nameiDAPF_LEIXX
AccessioniPrimary (citable) accession number: Q6AE05
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 2005
Last sequence update: September 12, 2004
Last modified: March 31, 2015
This is version 67 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.