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A4YKA5

- DAPF_BRASO

UniProt

A4YKA5 - DAPF_BRASO

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Bradyrhizobium sp. (strain ORS278)
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 sitei198 – 1981SubstrateUniRule annotation
Sitei216 – 2161Important for catalytic activityUniRule annotation
Active sitei225 – 2251Proton 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

BioCyciBSP114615:GJN5-363-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:BRADO0383
OrganismiBradyrhizobium sp. (strain ORS278)
Taxonomic identifieri114615 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesBradyrhizobiaceaeBradyrhizobium
ProteomesiUP000001994: 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 – 289289Diaminopimelate epimerasePRO_1000011849Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi76 ↔ 225

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi114615.BRADO0383.

Structurei

3D structure databases

ProteinModelPortaliA4YKA5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni14 – 152Substrate bindingUniRule annotation
Regioni76 – 783Substrate bindingUniRule annotation
Regioni216 – 2172Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiKMRIFNN.
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.

A4YKA5 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSPLANHSFV KMNGIGNEIV VLDLRDVKHV VTPDEARAVA SRVPYDQMMV
60 70 80 90 100
LQRPRFDGTE AFIRIYNNDG SESGACGNGM RCVVSQVFGK TGQTSATFET
110 120 130 140 150
RAGLLNCWQG PAPDLYTVDM GVPRFGWQDI PLAEEFRDTR YIELQIGPID
160 170 180 190 200
APILHSPSVV SMGNPHAVFW VDNDVNSYDL ERFGPLLENH PIFPERANIT
210 220 230 240 250
LAQIVDRDHI TMRTWERGAG LTRACGSAAC ATAVAAARLK RANRLVHMTL
260 270 280
PGGELTIEWR ERDDHVLMTG TATFEFEGRF EPALFASVA
Length:289
Mass (Da):32,004
Last modified:May 29, 2007 - v1
Checksum:i9F77FD055754825C
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CU234118 Genomic DNA. Translation: CAL74331.1.
RefSeqiWP_011923612.1. NC_009445.1.
YP_001202577.1. NC_009445.1.

Genome annotation databases

EnsemblBacteriaiCAL74331; CAL74331; BRADO0383.
GeneIDi5116208.
KEGGibra:BRADO0383.
PATRICi21217074. VBIBraSp122330_0370.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CU234118 Genomic DNA. Translation: CAL74331.1 .
RefSeqi WP_011923612.1. NC_009445.1.
YP_001202577.1. NC_009445.1.

3D structure databases

ProteinModelPortali A4YKA5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 114615.BRADO0383.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAL74331 ; CAL74331 ; BRADO0383 .
GeneIDi 5116208.
KEGGi bra:BRADO0383.
PATRICi 21217074. VBIBraSp122330_0370.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci BSP114615:GJN5-363-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: ORS278.

Entry informationi

Entry nameiDAPF_BRASO
AccessioniPrimary (citable) accession number: A4YKA5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: May 29, 2007
Last modified: October 29, 2014
This is version 50 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, Reference proteome

Documents

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

External Data

Dasty 3