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A2SKV9

- DAPF_METPP

UniProt

A2SKV9 - DAPF_METPP

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Protein
Diaminopimelate epimerase
Gene
dapF, Mpe_A3245
Organism
Methylibium petroleiphilum (strain PM1)
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 sitei166 – 1661Substrate By similarity
Sitei168 – 1681Important for catalytic activity By similarity
Binding sitei204 – 2041Substrate By similarity
Sitei222 – 2221Important for catalytic activity By similarity
Active sitei231 – 2311Proton 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

BioCyciMPET420662:GHBE-3283-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:Mpe_A3245
OrganismiMethylibium petroleiphilum (strain PM1)
Taxonomic identifieri420662 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesMethylibium
ProteomesiUP000000366: 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 – 296296Diaminopimelate epimeraseUniRule annotation
PRO_1000011904Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 231UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi420662.Mpe_A3245.

Structurei

3D structure databases

ProteinModelPortaliA2SKV9.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni75 – 773Substrate binding By similarity
Regioni222 – 2232Substrate binding By similarity
Regioni232 – 2332Substrate 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.

A2SKV9-1 [UniParc]FASTAAdd to Basket

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MKLRFTKMQG AGNDFVVLDA TREPLTLSPA QYRYLADRRF GVGADQVLIV    50
GASDEPGIDF TYRIVNADGS EVEQCGNGAR CFVRYVREAG LTKKSAIRVR 100
TAGGVIEPRW LVDGRVTVDM GAPVFEPARV PFDAAGLQPR ELNGFALWPL 150
DAADRTVEAA VVSMGNPHAV MNVAQFGSGG VDEAPVAELG PLVERHTRFP 200
QRVNAGFLQV LSDTHVKLRV YERGAGETLA CGTGACAAVV AGIRLGWLRA 250
GTPVDVDTRG GELTIEWAGR SDAPVWMTGP AESVYVGEID LPEQGD 296
Length:296
Mass (Da):31,697
Last modified:March 6, 2007 - v1
Checksum:i7AB9E380A6C0A088
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000555 Genomic DNA. Translation: ABM96198.1.
RefSeqiYP_001022433.1. NC_008825.1.

Genome annotation databases

EnsemblBacteriaiABM96198; ABM96198; Mpe_A3245.
GeneIDi4786524.
KEGGimpt:Mpe_A3245.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000555 Genomic DNA. Translation: ABM96198.1 .
RefSeqi YP_001022433.1. NC_008825.1.

3D structure databases

ProteinModelPortali A2SKV9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 420662.Mpe_A3245.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABM96198 ; ABM96198 ; Mpe_A3245 .
GeneIDi 4786524.
KEGGi mpt:Mpe_A3245.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci MPET420662:GHBE-3283-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. "Whole-genome analysis of the methyl tert-butyl ether-degrading beta-proteobacterium Methylibium petroleiphilum PM1."
    Kane S.R., Chakicherla A.Y., Chain P.S.G., Schmidt R., Shin M.W., Legler T.C., Scow K.M., Larimer F.W., Lucas S.M., Richardson P.M., Hristova K.R.
    J. Bacteriol. 189:1931-1945(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PM1.

Entry informationi

Entry nameiDAPF_METPP
AccessioniPrimary (citable) accession number: A2SKV9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 6, 2007
Last modified: June 11, 2014
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

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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