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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Chlamydia trachomatis serovar L2b (strain UCH-1/proctitis)
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

Pathway: L-lysine biosynthesis via DAP pathway

This protein is involved in step 1 of the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Diaminopimelate epimerase (dapF)
This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes DL-2,6-diaminopimelate from LL-2,6-diaminopimelate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei20 – 201SubstrateUniRule annotation
Binding sitei45 – 451SubstrateUniRule annotation
Binding sitei63 – 631SubstrateUniRule annotation
Active sitei72 – 721Proton donor/acceptorUniRule annotation
Sitei147 – 1471Important for catalytic activityUniRule annotation
Binding sitei179 – 1791SubstrateUniRule annotation
Sitei197 – 1971Important for catalytic activityUniRule annotation
Active sitei207 – 2071Proton donor/acceptorUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Keywords - Biological processi

Amino-acid biosynthesis, Lysine biosynthesis

Enzyme and pathway databases

BioCyciCTRA471473:GHJK-719-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:CTLon_0685
OrganismiChlamydia trachomatis serovar L2b (strain UCH-1/proctitis)
Taxonomic identifieri471473 [NCBI]
Taxonomic lineageiBacteriaChlamydiaeChlamydialesChlamydiaceaeChlamydia/Chlamydophila groupChlamydia

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 275275Diaminopimelate epimerasePRO_1000099227Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi72 ↔ 207

Keywords - PTMi

Disulfide bond

Structurei

3D structure databases

ProteinModelPortaliB0BC67.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni72 – 743Substrate bindingUniRule annotation
Regioni197 – 1982Substrate bindingUniRule annotation
Regioni208 – 2092Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiNGLRCVI.
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.

B0BC67-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGFSSLLTTC RYLLYSGAGN SFILGESMPS LEDVLFLCQE EMVDGFLCVE
60 70 80 90 100
SSEIADAKLT VFNSDGSIAS MCGNGLRCAM AHVAQCFGLE DVSIETERGV
110 120 130 140 150
YQGKFFSMNR VLVDMTLPDW KKAERKLTHV LPGMPEQVFF IDTGVPHVVV
160 170 180 190 200
FVSDLSKVPV QEWGSFLRYH EDFAPEGVNV DFVQRKKDDL LLVYTYERGC
210 220 230 240 250
ERETLSCGTG MLASALVAAD IFSLGQDFSI AVCSRSRNLI KIFSEKGKVF
260 270
LEGPVSLLNR SENFGWLEPK SRRFG
Length:275
Mass (Da):30,576
Last modified:February 26, 2008 - v1
Checksum:i38882BBA95327335
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM884177 Genomic DNA. Translation: CAP07082.1.
RefSeqiWP_009871784.1. NC_010280.2.
YP_001653773.1. NC_010280.2.

Genome annotation databases

EnsemblBacteriaiCAP07082; CAP07082; CTLon_0685.
KEGGictl:CTLon_0685.
PATRICi20383033. VBIChlTra68089_0742.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AM884177 Genomic DNA. Translation: CAP07082.1.
RefSeqiWP_009871784.1. NC_010280.2.
YP_001653773.1. NC_010280.2.

3D structure databases

ProteinModelPortaliB0BC67.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAP07082; CAP07082; CTLon_0685.
KEGGictl:CTLon_0685.
PATRICi20383033. VBIChlTra68089_0742.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiNGLRCVI.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciCTRA471473:GHJK-719-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: UCH-1/proctitis.

Entry informationi

Entry nameiDAPF_CHLTB
AccessioniPrimary (citable) accession number: B0BC67
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: February 26, 2008
Last modified: June 24, 2015
This is version 53 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

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.