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B4U9P0

- DAPF_HYDS0

UniProt

B4U9P0 - DAPF_HYDS0

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Protein

Diaminopimelate epimerase

Gene

dapF

Organism
Hydrogenobaculum sp. (strain Y04AAS1)
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 sitei52 – 521SubstrateUniRule annotation
Binding sitei72 – 721SubstrateUniRule annotation
Active sitei81 – 811Proton donor/acceptorUniRule annotation
Sitei155 – 1551Important for catalytic activityUniRule annotation
Binding sitei189 – 1891SubstrateUniRule annotation
Sitei207 – 2071Important for catalytic activityUniRule annotation
Active sitei217 – 2171Proton 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

BioCyciHSP380749:GH30-1204-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:HY04AAS1_1165
OrganismiHydrogenobaculum sp. (strain Y04AAS1)
Taxonomic identifieri380749 [NCBI]
Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeHydrogenobaculum
ProteomesiUP000001872: 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 – 277277Diaminopimelate epimerasePRO_1000099243Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi81 ↔ 217

Keywords - PTMi

Disulfide bond

Interactioni

Protein-protein interaction databases

STRINGi380749.HY04AAS1_1165.

Structurei

3D structure databases

ProteinModelPortaliB4U9P0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni81 – 833Substrate bindingUniRule annotation
Regioni207 – 2082Substrate bindingUniRule annotation
Regioni218 – 2192Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the diaminopimelate epimerase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0253.
HOGENOMiHOG000220466.
KOiK01778.
OMAiLIVEPPY.
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.

B4U9P0 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLITKYQGSG NDFIIIDNRD NFVYKEIEKL GLSINEFVRK LCEQHTSVGA
60 70 80 90 100
DGVILIEKAR NTKNHFSWAF FNADGSAAEM CGNGSRCAAR FAYEKDIAPK
110 120 130 140 150
DIVFETIAGE IEAHIMDSKR VKVQLTPYHS HQKNIEIKTE YGTFKGHFVN
160 170 180 190 200
TGVPHFVIFV DEDELDNLDV EKVGRAIRYH EYFAPKGTNV NFVAKTKNGS
210 220 230 240 250
FRIRTYERGV EGETLACGTG SAACGINAYL LGLSASNIVD IITKSGELLK
260 270
ITIENDKVFL EGPTTKVFEG MLSYEIF
Length:277
Mass (Da):30,932
Last modified:September 23, 2008 - v1
Checksum:i2A43015B831A96A9
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001130 Genomic DNA. Translation: ACG57851.1.
RefSeqiWP_012514207.1. NC_011126.1.
YP_002121829.1. NC_011126.1.

Genome annotation databases

EnsemblBacteriaiACG57851; ACG57851; HY04AAS1_1165.
GeneIDi6743982.
KEGGihya:HY04AAS1_1165.
PATRICi22137028. VBIHydSp64203_1172.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001130 Genomic DNA. Translation: ACG57851.1 .
RefSeqi WP_012514207.1. NC_011126.1.
YP_002121829.1. NC_011126.1.

3D structure databases

ProteinModelPortali B4U9P0.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 380749.HY04AAS1_1165.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACG57851 ; ACG57851 ; HY04AAS1_1165 .
GeneIDi 6743982.
KEGGi hya:HY04AAS1_1165.
PATRICi 22137028. VBIHydSp64203_1172.

Phylogenomic databases

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

Enzyme and pathway databases

UniPathwayi UPA00034 ; UER00025 .
BioCyci HSP380749:GH30-1204-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Y04AAS1.

Entry informationi

Entry nameiDAPF_HYDS0
AccessioniPrimary (citable) accession number: B4U9P0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: September 23, 2008
Last modified: October 29, 2014
This is version 44 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