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Q0BAY6

- DAPF_BURCM

UniProt

Q0BAY6 - DAPF_BURCM

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Protein
Diaminopimelate epimerase
Gene
dapF, Bamb_3131
Organism
Burkholderia ambifaria (strain ATCC BAA-244 / AMMD) (Burkholderia cepacia (strain AMMD))
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 sitei47 – 471Substrate By similarity
Binding sitei67 – 671Substrate By similarity
Active sitei76 – 761Proton donor/acceptor By similarity
Binding sitei167 – 1671Substrate By similarity
Sitei169 – 1691Important for catalytic activity By similarity
Binding sitei200 – 2001Substrate By similarity
Sitei218 – 2181Important for catalytic activity By similarity
Active sitei227 – 2271Proton 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

BioCyciBAMB339670:GH48-3198-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:Bamb_3131
OrganismiBurkholderia ambifaria (strain ATCC BAA-244 / AMMD) (Burkholderia cepacia (strain AMMD))
Taxonomic identifieri339670 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiaBurkholderia cepacia complex
ProteomesiUP000000662: Chromosome 1

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 – 289289Diaminopimelate epimeraseUniRule annotation
PRO_1000011853Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi76 ↔ 227UniRule annotation

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi339670.Bamb_3131.

Structurei

3D structure databases

ProteinModelPortaliQ0BAY6.
SMRiQ0BAY6. Positions 3-287.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni76 – 783Substrate binding By similarity
Regioni218 – 2192Substrate binding By similarity
Regioni228 – 2292Substrate 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.

Q0BAY6-1 [UniParc]FASTAAdd to Basket

« Hide

MKLSFTKMHG AGNDFVVLDG YSRALPPLTE AQVRALANRH FGIGADQLLL    50
VEKPTVDGAD FKYRIFNCDG GEVEHCGNGA RCFVKFVSDR GLTDKRSVRV 100
QVMKGLITLT LQDNGEVVVD MGAPVFAPAQ VPFDVSGLDG RAEGRDTLWP 150
LDVGGATRWI SAVSMGNPHA VQVVDDVEAY PVLEEGPLIE RHARFPQRVN 200
AGFMQIVSRH EVKLRVYERG AGETLACGTG ACAAVAAGIR RGLLDSPVTV 250
HTHGGTLTIG WDGARDEAAA LMMAGPAATV FEGEIDLTA 289
Length:289
Mass (Da):30,854
Last modified:October 17, 2006 - v1
Checksum:iAA542A2B345C3F1D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000440 Genomic DNA. Translation: ABI88687.1.
RefSeqiYP_775021.1. NC_008390.1.

Genome annotation databases

EnsemblBacteriaiABI88687; ABI88687; Bamb_3131.
GeneIDi4310613.
KEGGibam:Bamb_3131.
PATRICi19022044. VBIBurAmb61564_3283.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000440 Genomic DNA. Translation: ABI88687.1 .
RefSeqi YP_775021.1. NC_008390.1.

3D structure databases

ProteinModelPortali Q0BAY6.
SMRi Q0BAY6. Positions 3-287.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 339670.Bamb_3131.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABI88687 ; ABI88687 ; Bamb_3131 .
GeneIDi 4310613.
KEGGi bam:Bamb_3131.
PATRICi 19022044. VBIBurAmb61564_3283.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci BAMB339670:GH48-3198-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 sequence of chromosome 1 of Burkholderia cepacia AMMD."
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Pitluck S., Bruce D., Chain P., Malfatti S., Shin M., Vergez L., Schmutz J., Larimer F., Land M., Hauser L.
    , Kyrpides N., Kim E., Parke J., Coenye T., Konstantinidis K., Ramette A., Tiedje J., Richardson P.
    Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-244 / AMMD.

Entry informationi

Entry nameiDAPF_BURCM
AccessioniPrimary (citable) accession number: Q0BAY6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: October 17, 2006
Last modified: June 11, 2014
This is version 59 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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