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A4VGW5

- DAPF_PSEU5

UniProt

A4VGW5 - DAPF_PSEU5

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Protein
Diaminopimelate epimerase
Gene
dapF, PST_0510
Organism
Pseudomonas stutzeri (strain A1501)
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 By similarity.UniRule annotation

Catalytic activityi

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei13 – 131Substrate By similarity
Binding sitei46 – 461Substrate By similarity
Binding sitei66 – 661Substrate By similarity
Active sitei75 – 751Proton donor/acceptor By similarity
Binding sitei159 – 1591Substrate By similarity
Sitei161 – 1611Important for catalytic activity By similarity
Binding sitei192 – 1921Substrate By similarity
Sitei210 – 2101Important for catalytic activity By similarity
Active sitei219 – 2191Proton donor/acceptor By similarity

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

BioCyciPSTU379731:GJER-510-MONOMER.
UniPathwayiUPA00034; UER00025.

Names & Taxonomyi

Protein namesi
Recommended name:
Diaminopimelate epimerase (EC:5.1.1.7)
Short name:
DAP epimerase
Gene namesi
Name:dapF
Ordered Locus Names:PST_0510
OrganismiPseudomonas stutzeri (strain A1501)
Taxonomic identifieri379731 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
ProteomesiUP000000233: Chromosome

Subcellular locationi

Cytoplasm By similarity 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 – 276276Diaminopimelate epimeraseUniRule annotation
PRO_1000011937Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 219UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi379731.PST_0510.

Structurei

3D structure databases

ProteinModelPortaliA4VGW5.
SMRiA4VGW5. Positions 3-276.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate binding By similarity
Regioni75 – 773Substrate binding By similarity
Regioni210 – 2112Substrate binding By similarity
Regioni220 – 2212Substrate binding By similarity

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiLIVEPPY.
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.

A4VGW5-1 [UniParc]FASTAAdd to Basket

« Hide

MLLRFTKMHG LGNDFMVIDL VSQHAHIQPK HAKQWGDRHT GVGFDQLLIV    50
EPPQNPDVDF RYRIFNSDGS EVEQCGNGAR CFARFVVDKR LTVKRKIKVE 100
TKGGIIELDI RPDGQIRVDM GPPRLVPAEI PFQAEREALS YSLEVDGQQV 150
ELAAASMGNP HAVLRVDSVE RAPVHELGPK IEHHPRFPQR VNVGFLQVVD 200
RRHARLRVWE RGAGETQACG TGACAAAVAA IRQGWMDSPV QIELPGGRLS 250
IEWAGPGQPV MMTGPAVRVF EGQVRL 276
Length:276
Mass (Da):30,634
Last modified:May 29, 2007 - v1
Checksum:i1767C5F352337890
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000304 Genomic DNA. Translation: ABP78216.1.
RefSeqiYP_001171058.1. NC_009434.1.

Genome annotation databases

EnsemblBacteriaiABP78216; ABP78216; PST_0510.
GeneIDi5094860.
KEGGipsa:PST_0510.
PATRICi19961461. VBIPseStu31643_0526.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000304 Genomic DNA. Translation: ABP78216.1 .
RefSeqi YP_001171058.1. NC_009434.1.

3D structure databases

ProteinModelPortali A4VGW5.
SMRi A4VGW5. Positions 3-276.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 379731.PST_0510.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABP78216 ; ABP78216 ; PST_0510 .
GeneIDi 5094860.
KEGGi psa:PST_0510.
PATRICi 19961461. VBIPseStu31643_0526.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci PSTU379731:GJER-510-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. "Complete genome sequence of the metabolically versatile and root-associated nitrogen-fixing bacterium Pseudomonas stutzeri A1501."
    Yan Y., Yang J., Dou Y., Ping S., Chen M., Yao Z., Li H., Lu W., Zhang W., Peng J., Liu W., He S., Geng L., Zhang X., Yang F., Li D., Lin Z., Wang Y.
    , Elmerich C., Lin M., Jin Q.
    Submitted (APR-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: A1501.

Entry informationi

Entry nameiDAPF_PSEU5
AccessioniPrimary (citable) accession number: A4VGW5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: May 29, 2007
Last modified: June 11, 2014
This is version 48 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

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