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A8F1I9

- DAPF_RICM5

UniProt

A8F1I9 - DAPF_RICM5

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Rickettsia massiliae (strain Mtu5)
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 sitei15 – 151SubstrateUniRule annotation
Binding sitei49 – 491SubstrateUniRule annotation
Binding sitei66 – 661SubstrateUniRule annotation
Active sitei75 – 751Proton donor/acceptorUniRule annotation
Binding sitei155 – 1551SubstrateUniRule annotation
Sitei157 – 1571Important for catalytic activityUniRule annotation
Binding sitei187 – 1871SubstrateUniRule annotation
Sitei204 – 2041Important for catalytic activityUniRule annotation
Active sitei213 – 2131Proton 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

BioCyciRMAS416276:GJD3-604-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:RMA_0596
OrganismiRickettsia massiliae (strain Mtu5)
Taxonomic identifieri416276 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiaspotted fever group
ProteomesiUP000001311: 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 – 270270Diaminopimelate epimerasePRO_1000058544Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi75 ↔ 213

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi416276.RMA_0596.

Structurei

3D structure databases

ProteinModelPortaliA8F1I9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni12 – 132Substrate bindingUniRule annotation
Regioni75 – 773Substrate bindingUniRule annotation
Regioni204 – 2052Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiKDITVMV.
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.

A8F1I9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MISKINFVKM HGLGNDFVIV NKRDLSSSYD LSQLAKNMAE RHTGIGCDQF
60 70 80 90 100
IIYEEHNDFY EMIIYNIDGS SAKLCGNATR CLAKLIYLDT GKKDITVMVG
110 120 130 140 150
NKKLLCNVND ENNISVNVGS VSFNEAWMPS RDKVWAFAER YMIDLKETIC
160 170 180 190 200
VDIGNPHLII FSKLEPQDQK IVGEKLQAKE LFADGVNVNF AEVKDNKIYL
210 220 230 240 250
SVWERGAGLT LACGSGACGS FAAGLKLGFI HSPSTIVFKH GNLTMKEENG
260 270
NIIMQGAATL VARGEYYCEQ
Length:270
Mass (Da):29,957
Last modified:November 13, 2007 - v1
Checksum:i643AA4CF2B84CB12
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000683 Genomic DNA. Translation: ABV84775.1.
RefSeqiYP_001499322.1. NC_009900.1.

Genome annotation databases

EnsemblBacteriaiABV84775; ABV84775; RMA_0596.
GeneIDi5666104.
KEGGirms:RMA_0596.
PATRICi17895494. VBIRicMas83254_0730.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000683 Genomic DNA. Translation: ABV84775.1 .
RefSeqi YP_001499322.1. NC_009900.1.

3D structure databases

ProteinModelPortali A8F1I9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 416276.RMA_0596.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABV84775 ; ABV84775 ; RMA_0596 .
GeneIDi 5666104.
KEGGi rms:RMA_0596.
PATRICi 17895494. VBIRicMas83254_0730.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci RMAS416276:GJD3-604-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. "Lateral gene transfer between obligate intracellular bacteria: evidence from the Rickettsia massiliae genome."
    Blanc G., Ogata H., Robert C., Audic S., Claverie J.-M., Raoult D.
    Genome Res. 17:1657-1664(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Mtu5.

Entry informationi

Entry nameiDAPF_RICM5
AccessioniPrimary (citable) accession number: A8F1I9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: November 13, 2007
Last modified: October 29, 2014
This is version 45 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