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B6JLE8

- DAPF_HELP2

UniProt

B6JLE8 - DAPF_HELP2

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Helicobacter pylori (strain P12)
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 sitei42 – 421SubstrateUniRule annotation
Binding sitei60 – 601SubstrateUniRule annotation
Active sitei69 – 691Proton donor/acceptorUniRule annotation
Sitei152 – 1521Important for catalytic activityUniRule annotation
Binding sitei181 – 1811SubstrateUniRule annotation
Sitei199 – 1991Important for catalytic activityUniRule annotation
Active sitei209 – 2091Proton 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

BioCyciHPYL570508:GJ8D-586-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:HPP12_0572
OrganismiHelicobacter pylori (strain P12)
Taxonomic identifieri570508 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000008198: 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 – 272272Diaminopimelate epimerasePRO_1000099239Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi69 ↔ 209

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi570508.HPP12_0572.

Structurei

3D structure databases

ProteinModelPortaliB6JLE8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni69 – 713Substrate bindingUniRule annotation
Regioni199 – 2002Substrate bindingUniRule annotation
Regioni210 – 2112Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiINTGSPH.
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.

B6JLE8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVFYKYSGSG NDFLITQSFK KKDFSNLAKQ VCHRHEGFGA DGLVIVLPSK
60 70 80 90 100
DYDYEWDFYN SDGSKAGMCG NASRCVGLFA YQHAIAPKEH VFLAGKREIS
110 120 130 140 150
ICIEEPNIIE SNLGNYKILD TIPNLRCKKF FTNNSVLENI LTFYLIDTGV
160 170 180 190 200
PHLVGFVKNK EWLNSLNTLE LRALRHAFNA NINIAFIENE ETIFLQTYER
210 220 230 240 250
GVEDFTLACG TGMAAVFIAA RLFYNAPKKA TLIPKSNESL ELSLKNDGIF
260 270
YKGIVRYIGM SVLGSVFENG CF
Length:272
Mass (Da):30,589
Last modified:December 16, 2008 - v1
Checksum:i2D6F88EA0AAFD36D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001217 Genomic DNA. Translation: ACJ07726.1.
RefSeqiYP_002301206.1. NC_011498.1.

Genome annotation databases

EnsemblBacteriaiACJ07726; ACJ07726; HPP12_0572.
GeneIDi7010947.
KEGGihpp:HPP12_0572.
PATRICi20609116. VBIHelPyl2824_0598.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001217 Genomic DNA. Translation: ACJ07726.1 .
RefSeqi YP_002301206.1. NC_011498.1.

3D structure databases

ProteinModelPortali B6JLE8.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 570508.HPP12_0572.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACJ07726 ; ACJ07726 ; HPP12_0572 .
GeneIDi 7010947.
KEGGi hpp:HPP12_0572.
PATRICi 20609116. VBIHelPyl2824_0598.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci HPYL570508:GJ8D-586-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 complete genome sequence of Helicobacter pylori strain P12."
    Fischer W., Windhager L., Karnholz A., Zeiller M., Zimmer R., Haas R.
    Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: P12.

Entry informationi

Entry nameiDAPF_HELP2
AccessioniPrimary (citable) accession number: B6JLE8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: December 16, 2008
Last modified: October 29, 2014
This is version 40 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