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B9JUB9 (DAPF_AGRVS) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 36. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Diaminopimelate epimerase

Short name=DAP epimerase
EC=5.1.1.7
Gene names
Name:dapF
Ordered Locus Names:Avi_4198
OrganismAgrobacterium vitis (strain S4 / ATCC BAA-846) (Rhizobium vitis (strain S4)) [Complete proteome] [HAMAP]
Taxonomic identifier311402 [NCBI]
Taxonomic lineageBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupAgrobacterium

Protein attributes

Sequence length303 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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. HAMAP-Rule MF_00197

Catalytic activity

LL-2,6-diaminoheptanedioate = meso-diaminoheptanedioate. HAMAP-Rule MF_00197

Pathway

Amino-acid biosynthesis; L-lysine biosynthesis via DAP pathway; DL-2,6-diaminopimelate from LL-2,6-diaminopimelate: step 1/1. HAMAP-Rule MF_00197

Subcellular location

Cytoplasm By similarity HAMAP-Rule MF_00197.

Sequence similarities

Belongs to the diaminopimelate epimerase family.

Ontologies

Keywords
   Biological processAmino-acid biosynthesis
Lysine biosynthesis
   Cellular componentCytoplasm
   Molecular functionIsomerase
   PTMDisulfide bond
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processlysine biosynthetic process via diaminopimelate

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functiondiaminopimelate epimerase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 303303Diaminopimelate epimerase HAMAP-Rule MF_00197
PRO_1000124397

Regions

Region12 – 132Substrate binding By similarity
Region76 – 783Substrate binding By similarity
Region215 – 2162Substrate binding By similarity

Sites

Active site761Proton donor/acceptor By similarity
Active site2241Proton donor/acceptor By similarity
Binding site151Substrate By similarity
Binding site471Substrate By similarity
Binding site671Substrate By similarity
Binding site1631Substrate By similarity
Binding site1971Substrate By similarity
Site1651Important for catalytic activity By similarity
Site2151Important for catalytic activity By similarity

Amino acid modifications

Disulfide bond76 ↔ 224 HAMAP-Rule MF_00197

Sequences

Sequence LengthMass (Da)Tools
B9JUB9 [UniParc].

Last modified March 24, 2009. Version 1.
Checksum: 576CE7C264678232

FASTA30332,938
        10         20         30         40         50         60 
MGNRVEFAKM NGLGNKILVV DMRGRADRVM PQAAIALAGN AETHFDQIMA IHDPKLAGTF 

        70         80         90        100        110        120 
AYIDIINCDG TLAQACGNGT RCVVQALSAE TGLKAFTFQT LAGILNAVEH DDRTVSVDMG 

       130        140        150        160        170        180 
SPVFDWNRIP LSEEFHDTSR IELQIGPIDA PVLHSPAVMS MGNPHAVFWV DRDPMSYDLE 

       190        200        210        220        230        240 
RFGPLLENHP LFPEKANITL AQVTSRTTMT TRTWERGAGL TLACGSAACA AGVSAARTGR 

       250        260        270        280        290        300 
AERKVTITVA SSPNRQALDI EWRERDGHVI MTGAAEWEWA GQLDPQTGDW QREQQAGHEA 


SVS 

« Hide

References

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000633 Genomic DNA. Translation: ACM38042.1.
RefSeqYP_002551054.1. NC_011989.1.

3D structure databases

ProteinModelPortalB9JUB9.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING311402.Avi_4198.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACM38042; ACM38042; Avi_4198.
GeneID7386963.
KEGGavi:Avi_4198.
PATRIC20831920. VBIAgrVit37146_5599.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0253.
HOGENOMHOG000220466.
KOK01778.
OMADGVWMTG.
OrthoDBEOG6ND0M5.

Enzyme and pathway databases

BioCycAVIT311402:GH2Y-3159-MONOMER.
UniPathwayUPA00034; UER00025.

Family and domain databases

HAMAPMF_00197. DAP_epimerase.
InterProIPR018510. DAP_epimerase_AS.
IPR001653. DAP_epimerase_DapF.
[Graphical view]
PANTHERPTHR31689. PTHR31689. 1 hit.
PfamPF01678. DAP_epimerase. 2 hits.
[Graphical view]
TIGRFAMsTIGR00652. DapF. 1 hit.
PROSITEPS01326. DAP_EPIMERASE. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameDAPF_AGRVS
AccessionPrimary (citable) accession number: B9JUB9
Entry history
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 24, 2009
Last modified: June 11, 2014
This is version 36 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways