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B8D8F1

- DAPF_BUCA5

UniProt

B8D8F1 - DAPF_BUCA5

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
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 sitei21 – 211SubstrateUniRule annotation
Binding sitei54 – 541SubstrateUniRule annotation
Binding sitei74 – 741SubstrateUniRule annotation
Active sitei83 – 831Proton donor/acceptorUniRule annotation
Binding sitei167 – 1671SubstrateUniRule annotation
Sitei169 – 1691Important for catalytic activityUniRule annotation
Binding sitei200 – 2001SubstrateUniRule annotation
Sitei218 – 2181Important for catalytic activityUniRule annotation
Active sitei227 – 2271Proton 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

BioCyciBAPH563178:GHDF-582-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:BUAP5A_582
OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain 5A)
Taxonomic identifieri563178 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000006904: 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 – 284284Diaminopimelate epimerasePRO_1000124403Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi83 ↔ 227

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi107806.BU589.

Structurei

3D structure databases

ProteinModelPortaliB8D8F1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni18 – 192Substrate bindingUniRule annotation
Regioni83 – 853Substrate bindingUniRule annotation
Regioni218 – 2192Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

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.

B8D8F1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDSYYKNKKK INFSKMHGLK NDFMVINCIK KNVFLTSHII KKLSNRYTGI
60 70 80 90 100
GFDQLLLVEK SNSLLTDFHY RIFNANGNEV EQCGNGARCF GLFLLLKGLT
110 120 130 140 150
NKKKILISTK KKPLTIEFLT ENMIKVNMNE PDFKFYNLSS LQNVLDNNFS
160 170 180 190 200
IKLINENLIC NLVSIGNPHC IIKVQSIKNA PVNIIGDNIE KNPIFPEGVN
210 220 230 240 250
VSFMEILNKK HIKLRVYERN VGETKACGSA ACAAVAVGIA QKLLSDTVHV
260 270 280
ELLGGKLIII WKGFGTPLYM VGPAKHVYDG YIYI
Length:284
Mass (Da):31,995
Last modified:March 3, 2009 - v1
Checksum:iC4AF9116AE63FE21
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001161 Genomic DNA. Translation: ACL30927.1.
RefSeqiYP_002468315.1. NC_011833.1.

Genome annotation databases

EnsemblBacteriaiACL30927; ACL30927; BUAP5A_582.
GeneIDi7262344.
KEGGibap:BUAP5A_582.
PATRICi21243435. VBIBucAph51993_0577.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001161 Genomic DNA. Translation: ACL30927.1 .
RefSeqi YP_002468315.1. NC_011833.1.

3D structure databases

ProteinModelPortali B8D8F1.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 107806.BU589.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL30927 ; ACL30927 ; BUAP5A_582 .
GeneIDi 7262344.
KEGGi bap:BUAP5A_582.
PATRICi 21243435. VBIBucAph51993_0577.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci BAPH563178:GHDF-582-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. "The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria."
    Moran N.A., McLaughlin H.J., Sorek R.
    Science 323:379-382(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 5A.

Entry informationi

Entry nameiDAPF_BUCA5
AccessioniPrimary (citable) accession number: B8D8F1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: October 29, 2014
This is version 41 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