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B0TGR9

- DAPF_HELMI

UniProt

B0TGR9 - DAPF_HELMI

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Heliobacterium modesticaldum (strain ATCC 51547 / Ice1)
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 sitei164 – 1641SubstrateUniRule annotation
Sitei166 – 1661Important for catalytic activityUniRule annotation
Binding sitei197 – 1971SubstrateUniRule annotation
Sitei215 – 2151Important for catalytic activityUniRule annotation
Active sitei224 – 2241Proton 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

BioCyciHMOD498761:GI46-2115-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:Helmi_20550
ORF Names:HM1_2123
OrganismiHeliobacterium modesticaldum (strain ATCC 51547 / Ice1)
Taxonomic identifieri498761 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesHeliobacteriaceaeHeliobacterium
ProteomesiUP000008550: 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 – 281281Diaminopimelate epimerasePRO_1000099238Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi74 ↔ 224

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi498761.HM1_2123.

Structurei

3D structure databases

ProteinModelPortaliB0TGR9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni8 – 92Substrate bindingUniRule annotation
Regioni74 – 763Substrate bindingUniRule annotation
Regioni215 – 2162Substrate bindingUniRule annotation
Regioni225 – 2262Substrate 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.

B0TGR9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MEFVKMHGLG NDFIVVNAME PPLLDREDWE EIAVRICDRH YGIGGDGLIL
60 70 80 90 100
LFPSDKADIR WRILNSDGSE PEMCGNGIRC LARYVYERGI VAKRRIEVET
110 120 130 140 150
LAGIIVPEII TDAAGAVTGV CVDMGEPRLQ RHQIPMVGPE GPAVNQELVV
160 170 180 190 200
GDAVVRVTAL SMGNPHCLIY VNDIDEAPVT TLGPKVEVHP AFPAKTNVEF
210 220 230 240 250
VQVVAPDEVQ MRVWERGAGP TLACGTGACA TVVGSVLNGY TDRKVTVHLA
260 270 280
GGPLHIEWRE ENNRVYMTGP AVEVFRGELP L
Length:281
Mass (Da):30,627
Last modified:April 8, 2008 - v1
Checksum:i6412759EBF2E3EEE
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000930 Genomic DNA. Translation: ABZ84680.1.
RefSeqiYP_001680691.1. NC_010337.2.

Genome annotation databases

EnsemblBacteriaiABZ84680; ABZ84680; HM1_2123.
GeneIDi5909192.
KEGGihmo:HM1_2123.
PATRICi22108313. VBIHelMod36755_1917.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000930 Genomic DNA. Translation: ABZ84680.1 .
RefSeqi YP_001680691.1. NC_010337.2.

3D structure databases

ProteinModelPortali B0TGR9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 498761.HM1_2123.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABZ84680 ; ABZ84680 ; HM1_2123 .
GeneIDi 5909192.
KEGGi hmo:HM1_2123.
PATRICi 22108313. VBIHelMod36755_1917.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci HMOD498761:GI46-2115-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 genome of Heliobacterium modesticaldum, a phototrophic representative of the Firmicutes containing the simplest photosynthetic apparatus."
    Sattley W.M., Madigan M.T., Swingley W.D., Cheung P.C., Clocksin K.M., Conrad A.L., Dejesa L.C., Honchak B.M., Jung D.O., Karbach L.E., Kurdoglu A., Lahiri S., Mastrian S.D., Page L.E., Taylor H.L., Wang Z.T., Raymond J., Chen M., Blankenship R.E., Touchman J.W.
    J. Bacteriol. 190:4687-4696(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51547 / Ice1.

Entry informationi

Entry nameiDAPF_HELMI
AccessioniPrimary (citable) accession number: B0TGR9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: April 8, 2008
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, 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