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Q13DT7

- DAPF_RHOPS

UniProt

Q13DT7 - DAPF_RHOPS

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Rhodopseudomonas palustris (strain BisB5)
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 sitei17 – 171SubstrateUniRule annotation
Binding sitei47 – 471SubstrateUniRule annotation
Binding sitei67 – 671SubstrateUniRule annotation
Active sitei76 – 761Proton donor/acceptorUniRule annotation
Binding sitei164 – 1641SubstrateUniRule annotation
Sitei166 – 1661Important for catalytic activityUniRule annotation
Binding sitei197 – 1971SubstrateUniRule annotation
Sitei215 – 2151Important for catalytic activityUniRule annotation
Active sitei224 – 2241Proton 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

BioCyciRPAL316057:GHDC-528-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:RPD_0514
OrganismiRhodopseudomonas palustris (strain BisB5)
Taxonomic identifieri316057 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeRhodopseudomonas
ProteomesiUP000001818: 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 – 293293Diaminopimelate epimerasePRO_1000011950Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi76 ↔ 224

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi316057.RPD_0514.

Structurei

3D structure databases

ProteinModelPortaliQ13DT7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni14 – 152Substrate bindingUniRule annotation
Regioni76 – 783Substrate bindingUniRule annotation
Regioni215 – 2162Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiRPAENGA.
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.

Q13DT7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSALDNRLFA KMNGIGNEIV VVDLRDQPAP VTPDDARAVA AHLPYDQLML
60 70 80 90 100
LQPARLPGTE AFVRIYNNDG SEAGACGNGM RCVARQMFAS TDKQGLTFET
110 120 130 140 150
RAGLLNCWRG PADGLYTVDM GEPKFGWKDI PLAEEFRDTR SIELQIGPID
160 170 180 190 200
APLLHTPSVV SMGNPHAIFW VDDIEAHDLG RFGPLLENHP IFPERANITL
210 220 230 240 250
AHIVDRDHIT MRTWERGAGL TRACGSAACA TAVAAARLKR ADRVVEMTLP
260 270 280 290
GGQLSIAWRE SDNHVLMTGG ATFEFEGRFD PALFARSRDK TSA
Length:293
Mass (Da):32,066
Last modified:October 31, 2006 - v1
Checksum:i9D95DB1E9C5114EE
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000283 Genomic DNA. Translation: ABE37752.1.
RefSeqiYP_567653.1. NC_007958.1.

Genome annotation databases

EnsemblBacteriaiABE37752; ABE37752; RPD_0514.
GeneIDi4020982.
KEGGirpd:RPD_0514.
PATRICi23275891. VBIRhoPal120395_0532.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000283 Genomic DNA. Translation: ABE37752.1 .
RefSeqi YP_567653.1. NC_007958.1.

3D structure databases

ProteinModelPortali Q13DT7.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 316057.RPD_0514.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABE37752 ; ABE37752 ; RPD_0514 .
GeneIDi 4020982.
KEGGi rpd:RPD_0514.
PATRICi 23275891. VBIRhoPal120395_0532.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci RPAL316057:GHDC-528-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: BisB5.

Entry informationi

Entry nameiDAPF_RHOPS
AccessioniPrimary (citable) accession number: Q13DT7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: October 31, 2006
Last modified: October 29, 2014
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

Documents

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

External Data

Dasty 3