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A7N0W0

- DAPF_VIBCB

UniProt

A7N0W0 - DAPF_VIBCB

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Vibrio campbellii (strain ATCC BAA-1116 / BB120)
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 sitei13 – 131SubstrateUniRule annotation
Binding sitei46 – 461SubstrateUniRule annotation
Binding sitei66 – 661SubstrateUniRule annotation
Active sitei75 – 751Proton donor/acceptorUniRule annotation
Binding sitei159 – 1591SubstrateUniRule annotation
Sitei161 – 1611Important for catalytic activityUniRule annotation
Binding sitei192 – 1921SubstrateUniRule annotation
Sitei210 – 2101Important for catalytic activityUniRule annotation
Active sitei219 – 2191Proton 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

BioCyciVHAR338187:GJCH-304-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:VIBHAR_00309
OrganismiVibrio campbellii (strain ATCC BAA-1116 / BB120)
Taxonomic identifieri338187 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000008152: Chromosome I

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 – 276276Diaminopimelate epimerasePRO_1000011982Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 219

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi338187.VIBHAR_00309.

Structurei

3D structure databases

ProteinModelPortaliA7N0W0.
SMRiA7N0W0. Positions 4-272.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni10 – 112Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni210 – 2112Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
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.

A7N0W0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MHFHFSKMHG LGNDFMVVDC ITQNVFFSQD LIRRLADRHT GVGFDQLLVV
60 70 80 90 100
EAPYDPETDF HYRIFNADGS EVEQCGNGAR CFARFVRLKG LTNRYSISVS
110 120 130 140 150
TKKGKMILDV EDDGEVTVNM GVPEFEPNKI PFKAKQKEKT YIMRAGDKTL
160 170 180 190 200
FCGAVSMGNP HVVTVVDDVD TAEVETLGPL LESHERFPER VNAGFMQVVN
210 220 230 240 250
RNHIRLRVYE RGAGETQACG SGACGAVAVG ILQGLLDENV KVSLPGGDLR
260 270
ISWQGPGKPL FMTGPATHVF DGQLSC
Length:276
Mass (Da):30,429
Last modified:October 2, 2007 - v1
Checksum:i99FA627236A07670
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000789 Genomic DNA. Translation: ABU69337.1.
RefSeqiYP_001443564.1. NC_009783.1.
YP_008526960.1. NC_022269.1.

Genome annotation databases

EnsemblBacteriaiABU69337; ABU69337; VIBHAR_00309.
GeneIDi16816394.
5555309.
KEGGivca:M892_11145.
vha:VIBHAR_00309.
PATRICi20127507. VBIVibHar24526_0349.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000789 Genomic DNA. Translation: ABU69337.1 .
RefSeqi YP_001443564.1. NC_009783.1.
YP_008526960.1. NC_022269.1.

3D structure databases

ProteinModelPortali A7N0W0.
SMRi A7N0W0. Positions 4-272.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 338187.VIBHAR_00309.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABU69337 ; ABU69337 ; VIBHAR_00309 .
GeneIDi 16816394.
5555309.
KEGGi vca:M892_11145.
vha:VIBHAR_00309.
PATRICi 20127507. VBIVibHar24526_0349.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci VHAR338187:GJCH-304-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: ATCC BAA-1116 / BB120.

Entry informationi

Entry nameiDAPF_VIBCB
AccessioniPrimary (citable) accession number: A7N0W0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: October 2, 2007
Last modified: October 29, 2014
This is version 48 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