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Q1CTW0

- DAPF_HELPH

UniProt

Q1CTW0 - DAPF_HELPH

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Helicobacter pylori (strain HPAG1)
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

BioCyciHPYL357544:GH1F-555-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:HPAG1_0545
OrganismiHelicobacter pylori (strain HPAG1)
Taxonomic identifieri357544 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
ProteomesiUP000008835: 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 – 273273Diaminopimelate epimerasePRO_1000011890Add
BLAST

Amino acid modifications

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

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi357544.HPAG1_0545.

Structurei

3D structure databases

ProteinModelPortaliQ1CTW0.
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.
OMAiDETHEIH.
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.

Q1CTW0-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVFYKYSGSG NDFLIVQSFK KKDFSNLAKQ VCHRHEGFGA DGLVVVLPSK
60 70 80 90 100
DYDYEWDFYN SDGSKAGMCG NASRCVGLFA YQHAIAPKEH VFLAGKREIS
110 120 130 140 150
IRIEEPNIIE SNLGNYKILD VIPALRCEKF FTNDSVLENI PTFYLIDTGV
160 170 180 190 200
PHLVGFVKNK EGLNSLNTLE LRALRHEFNA NINIAFIENK ETIFLQTYER
210 220 230 240 250
GVEDFTLACG TGMAAVFIAA RIFYNTPKKA ALIPKSNESL ELSLKNDGIF
260 270
YKGAVRYIGM SVLGMRVFEN GCF
Length:273
Mass (Da):30,653
Last modified:July 11, 2006 - v1
Checksum:iBB05D1335A4A1C30
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000241 Genomic DNA. Translation: ABF84612.1.
RefSeqiWP_000232448.1. NC_008086.1.
YP_627286.1. NC_008086.1.

Genome annotation databases

EnsemblBacteriaiABF84612; ABF84612; HPAG1_0545.
GeneIDi4098162.
KEGGihpa:HPAG1_0545.
PATRICi20602433. VBIHelPyl56048_0565.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000241 Genomic DNA. Translation: ABF84612.1 .
RefSeqi WP_000232448.1. NC_008086.1.
YP_627286.1. NC_008086.1.

3D structure databases

ProteinModelPortali Q1CTW0.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 357544.HPAG1_0545.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABF84612 ; ABF84612 ; HPAG1_0545 .
GeneIDi 4098162.
KEGGi hpa:HPAG1_0545.
PATRICi 20602433. VBIHelPyl56048_0565.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci HPYL357544:GH1F-555-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 a chronic atrophic gastritis Helicobacter pylori strain: evolution during disease progression."
    Oh J.D., Kling-Baeckhed H., Giannakis M., Xu J., Fulton R.S., Fulton L.A., Cordum H.S., Wang C., Elliott G., Edwards J., Mardis E.R., Engstrand L.G., Gordon J.I.
    Proc. Natl. Acad. Sci. U.S.A. 103:9999-10004(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: HPAG1.

Entry informationi

Entry nameiDAPF_HELPH
AccessioniPrimary (citable) accession number: Q1CTW0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: July 11, 2006
Last modified: November 26, 2014
This is version 59 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