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B8FSD4

- DAPF_DESHD

UniProt

B8FSD4 - DAPF_DESHD

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Desulfitobacterium hafniense (strain DCB-2 / DSM 10664)
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 sitei11 – 111SubstrateUniRule annotation
Binding sitei47 – 471SubstrateUniRule annotation
Binding sitei65 – 651SubstrateUniRule annotation
Active sitei74 – 741Proton donor/acceptorUniRule annotation
Binding sitei163 – 1631SubstrateUniRule annotation
Sitei165 – 1651Important for catalytic activityUniRule annotation
Binding sitei196 – 1961SubstrateUniRule annotation
Sitei214 – 2141Important for catalytic activityUniRule annotation
Active sitei223 – 2231Proton 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

BioCyciDHAF272564:GCV8-3984-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:Dhaf_3907
OrganismiDesulfitobacterium hafniense (strain DCB-2 / DSM 10664)
Taxonomic identifieri272564 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesPeptococcaceaeDesulfitobacterium
ProteomesiUP000007726: 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 – 283283Diaminopimelate epimerasePRO_1000124411Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 223

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi272564.Dhaf_3907.

Structurei

3D structure databases

ProteinModelPortaliB8FSD4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 92Substrate bindingUniRule annotation
Regioni74 – 763Substrate bindingUniRule annotation
Regioni214 – 2152Substrate bindingUniRule annotation
Regioni224 – 2252Substrate 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.

B8FSD4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MEIVKMHGLG NDFVFIDHFQ GAPAELPDYP ELARKLCHRQ FGVGGDGLIM
60 70 80 90 100
VLPSDKADAR MRILNSDGSE PEMCGNGIRC FARYIYDQGY VSQNPLQVET
110 120 130 140 150
LAGILTLQLS ITGDQVTGVR VDMGEPILKS EQVPVLIQGD PVVGARLDVD
160 170 180 190 200
GQEFEFTAVS MGNPHCVLFV EDYETLDFER IGPAIEKHPL FPRKTNVEFI
210 220 230 240 250
IVNSPRELTM KVWERGAGPT LACGTGACAS VVAAVLNGRT ERKVTVHLPG
260 270 280
GDLLIEWGED NRVYMTGPAA YVFKGVLLED ALS
Length:283
Mass (Da):30,935
Last modified:March 3, 2009 - v1
Checksum:i6D12D739AED191F3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001336 Genomic DNA. Translation: ACL21922.1.
RefSeqiYP_002460358.1. NC_011830.1.

Genome annotation databases

EnsemblBacteriaiACL21922; ACL21922; Dhaf_3907.
GeneIDi7260928.
KEGGidhd:Dhaf_3907.
PATRICi21665821. VBIDesHaf15223_4067.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001336 Genomic DNA. Translation: ACL21922.1 .
RefSeqi YP_002460358.1. NC_011830.1.

3D structure databases

ProteinModelPortali B8FSD4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 272564.Dhaf_3907.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACL21922 ; ACL21922 ; Dhaf_3907 .
GeneIDi 7260928.
KEGGi dhd:Dhaf_3907.
PATRICi 21665821. VBIDesHaf15223_4067.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci DHAF272564:GCV8-3984-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. "Genome sequence of Desulfitobacterium hafniense DCB-2, a Gram-positive anaerobe capable of dehalogenation and metal reduction."
    Kim S.H., Harzman C., Davis J.K., Hutcheson R., Broderick J.B., Marsh T.L., Tiedje J.M.
    BMC Microbiol. 12:21-21(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DCB-2 / DSM 10664.

Entry informationi

Entry nameiDAPF_DESHD
AccessioniPrimary (citable) accession number: B8FSD4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: March 3, 2009
Last modified: November 26, 2014
This is version 38 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