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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)
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 sitei46 – 461SubstrateUniRule annotation
Binding sitei66 – 661SubstrateUniRule annotation
Active sitei75 – 751Proton donor/acceptorUniRule annotation
Binding sitei160 – 1601SubstrateUniRule annotation
Sitei162 – 1621Important for catalytic activityUniRule annotation
Binding sitei193 – 1931SubstrateUniRule annotation
Sitei211 – 2111Important for catalytic activityUniRule annotation
Active sitei220 – 2201Proton 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

BioCyciLPNE272624:GHDI-366-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:lpg0366
OrganismiLegionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513)
Taxonomic identifieri272624 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaLegionellalesLegionellaceaeLegionella
ProteomesiUP000000609: 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 – 277277Diaminopimelate epimerasePRO_1000011895Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 220

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi272624.lpg0366.

Structurei

3D structure databases

ProteinModelPortaliQ5ZYK6.
SMRiQ5ZYK6. Positions 3-276.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni211 – 2122Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.
OrthoDBiEOG6ND0M5.

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.

Q5ZYK6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGIKFTKMHG LGNDFIVLDG VNQSIQLTVE QIQKLANRHT GIGFDQCLLI
60 70 80 90 100
ESSQTEGIDF NYRIFNADGQ EVGQCGNGAR CIALFARYYG LTAKNKLTVA
110 120 130 140 150
TKTTLMDLII NEDNSVSVNM GVPRLAPGEI PLLADRQSPE YSLELNNGNT
160 170 180 190 200
VNLHAISVGN PHAVLLVENI DTAPVNSLGQ QISFHPQFPE QVNVGFMQII
210 220 230 240 250
NHEKINLRVY ERGCGETIAC GSGAVAAAAI ARLFYNLSDK ITVHLPGGDL
260 270
CIQWPCPTAP IILTGPAAFV YEGTLLS
Length:277
Mass (Da):29,953
Last modified:November 23, 2004 - v1
Checksum:iDE73BE862397C9A7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017354 Genomic DNA. Translation: AAU26463.1.
RefSeqiYP_094410.1. NC_002942.5.

Genome annotation databases

EnsemblBacteriaiAAU26463; AAU26463; lpg0366.
GeneIDi19831932.
KEGGilpn:lpg0366.
PATRICi22327672. VBILegPne29832_0373.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE017354 Genomic DNA. Translation: AAU26463.1.
RefSeqiYP_094410.1. NC_002942.5.

3D structure databases

ProteinModelPortaliQ5ZYK6.
SMRiQ5ZYK6. Positions 3-276.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi272624.lpg0366.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAU26463; AAU26463; lpg0366.
GeneIDi19831932.
KEGGilpn:lpg0366.
PATRICi22327672. VBILegPne29832_0373.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciLPNE272624:GHDI-366-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: Philadelphia 1 / ATCC 33152 / DSM 7513.

Entry informationi

Entry nameiDAPF_LEGPH
AccessioniPrimary (citable) accession number: Q5ZYK6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: November 23, 2004
Last modified: February 4, 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, 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.