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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Blochmannia floridanus
Status
Reviewed-Annotation score: 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 sitei11 – 111SubstrateUniRule annotation
Binding sitei44 – 441SubstrateUniRule annotation
Binding sitei64 – 641SubstrateUniRule annotation
Active sitei73 – 731Proton donor/acceptorUniRule annotation
Binding sitei157 – 1571SubstrateUniRule annotation
Sitei159 – 1591Important for catalytic activityUniRule annotation
Binding sitei190 – 1901SubstrateUniRule annotation
Sitei208 – 2081Important for catalytic activityUniRule annotation
Active sitei217 – 2171Proton 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

BioCyciBFLO203907:GHF7-579-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:Bfl579
OrganismiBlochmannia floridanus
Taxonomic identifieri203907 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeant endosymbiontsCandidatus Blochmannia
ProteomesiUP000002192 Componenti: Chromosome

Subcellular locationi

Cytoplasm 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 – 276276Diaminopimelate epimerasePRO_1000058539Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi73 ↔ 217

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi203907.Bfl579.

Structurei

3D structure databases

ProteinModelPortaliQ7VRM5.
SMRiQ7VRM5. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 92Substrate bindingUniRule annotation
Regioni73 – 753Substrate bindingUniRule annotation
Regioni208 – 2092Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.
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.

Q7VRM5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MRFSKMHGLG NDFVIIDSIT QKVYFNSDKI RSLSNRFYGI GFDQLLVVEP
60 70 80 90 100
PYDPNIDFHC RIYNADGSEV YQCGNGIRCV ARFVCIKKLT NKQHIKISTD
110 120 130 140 150
TYSMMLSVLD SEFISVNMGE PIFDPIKIPF FSTQYQKMYV LFVPNFTILC
160 170 180 190 200
GVVSIGNPHC VILVEQVDLV PVTVLGSILE NHHCFPKKAN ISFMQIISQN
210 220 230 240 250
NIKLRVYERG SGETKACGSA ACAAVAIGIQ QGLLKKNISV QVNLPGGDLF
260 270
ISWKGLGYPL YMIGSATYIY DGCINL
Length:276
Mass (Da):30,812
Last modified:September 30, 2003 - v1
Checksum:i8E7AA9A2E4E0C950
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248583 Genomic DNA. Translation: CAD83261.1.
RefSeqiNP_878854.1. NC_005061.1.
WP_011126837.1. NC_005061.1.

Genome annotation databases

EnsemblBacteriaiCAD83261; CAD83261; Bfl579.
KEGGibfl:Bfl579.
PATRICi31964779. VBICanBlo38691_0566.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248583 Genomic DNA. Translation: CAD83261.1.
RefSeqiNP_878854.1. NC_005061.1.
WP_011126837.1. NC_005061.1.

3D structure databases

ProteinModelPortaliQ7VRM5.
SMRiQ7VRM5. Positions 1-276.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi203907.Bfl579.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAD83261; CAD83261; Bfl579.
KEGGibfl:Bfl579.
PATRICi31964779. VBICanBlo38691_0566.

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiMKFTKMH.
OrthoDBiEOG6ND0M5.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00025.
BioCyciBFLO203907:GHF7-579-MONOMER.

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]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiDAPF_BLOFL
AccessioniPrimary (citable) accession number: Q7VRM5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 4, 2008
Last sequence update: September 30, 2003
Last modified: March 31, 2015
This is version 71 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.