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Protein

4-hydroxy-tetrahydrodipicolinate synthase

Gene

dapA

Organism
Gluconobacter oxydans (strain 621H) (Gluconobacter suboxydans)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).UniRule annotation

Catalytic activityi

Pyruvate + L-aspartate-4-semialdehyde = (4S)-4-hydroxy-2,3,4,5-tetrahydro-(2S)-dipicolinate + H2O.UniRule annotation

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei49 – 491Part of a proton relay during catalysisUniRule annotation
Binding sitei50 – 501PyruvateUniRule annotation
Sitei112 – 1121Part of a proton relay during catalysisUniRule annotation
Active sitei138 – 1381Proton donor/acceptorUniRule annotation
Active sitei166 – 1661Schiff-base intermediate with substrateUniRule annotation
Binding sitei208 – 2081Pyruvate; via carbonyl oxygenUniRule annotation

GO - Molecular functioni

  1. 4-hydroxy-tetrahydrodipicolinate synthase Source: UniProtKB-HAMAP

GO - Biological processi

  1. diaminopimelate biosynthetic process Source: UniProtKB-HAMAP
  2. lysine biosynthetic process via diaminopimelate Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Diaminopimelate biosynthesis, Lysine biosynthesis

Keywords - Ligandi

Schiff base

Enzyme and pathway databases

BioCyciGOXY290633:GHB3-61-MONOMER.
UniPathwayiUPA00034; UER00017.

Names & Taxonomyi

Protein namesi
Recommended name:
4-hydroxy-tetrahydrodipicolinate synthaseUniRule annotation (EC:4.3.3.7UniRule annotation)
Short name:
HTPA synthaseUniRule annotation
Gene namesi
Name:dapAUniRule annotation
Ordered Locus Names:GOX0061
OrganismiGluconobacter oxydans (strain 621H) (Gluconobacter suboxydans)
Taxonomic identifieri290633 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodospirillalesAcetobacteraceaeGluconobacter
ProteomesiUP000006375 Componenti: Chromosome

Subcellular locationi

Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2972974-hydroxy-tetrahydrodipicolinate synthasePRO_0000340955Add
BLAST

Interactioni

Subunit structurei

Homotetramer; dimer of dimers.UniRule annotation

Protein-protein interaction databases

STRINGi290633.GOX0061.

Structurei

3D structure databases

ProteinModelPortaliQ5FUW9.
SMRiQ5FUW9. Positions 6-296.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the DapA family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
KOiK01714.
OrthoDBiEOG6W7235.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5FUW9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADTSMYQGS LTALVTPMHT DGRIDFDVSA KLIERQIEAG TTALIPAGTT
60 70 80 90 100
GESPTLSHEE HGRVVAHCVE TANGRVRVMA GAGSNSTSEA VLMAKHAHSV
110 120 130 140 150
GADSVLVVVP YYNKPTQEGL YRHFMTIADA TPLPMFLYCI PGRSVVDISV
160 170 180 190 200
ATMARLAEHP NIVGTKDATA NMARPIAVRR AVDKPFNQLS GDDNSVLSFL
210 220 230 240 250
AAGGDGCIGV TSNVVPHLCA DMHLAWQEGR IEDAIAIQDH LTPLHDAMFM
260 270 280 290
ESNPGPVKYA LSRLGLCNAT LRLPLVEPQE ETRRAIDAAL RSLELLD
Length:297
Mass (Da):31,818
Last modified:June 10, 2008 - v2
Checksum:iE4EF224207A45146
GO

Sequence cautioni

The sequence AAW59858.1 differs from that shown. Reason: Erroneous initiation. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000009 Genomic DNA. Translation: AAW59858.1. Different initiation.
RefSeqiYP_190514.1. NC_006677.1.

Genome annotation databases

EnsemblBacteriaiAAW59858; AAW59858; GOX0061.
KEGGigox:GOX0061.
PATRICi32607784. VBIGluOxy81109_0286.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000009 Genomic DNA. Translation: AAW59858.1. Different initiation.
RefSeqiYP_190514.1. NC_006677.1.

3D structure databases

ProteinModelPortaliQ5FUW9.
SMRiQ5FUW9. Positions 6-296.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi290633.GOX0061.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAW59858; AAW59858; GOX0061.
KEGGigox:GOX0061.
PATRICi32607784. VBIGluOxy81109_0286.

Phylogenomic databases

eggNOGiCOG0329.
HOGENOMiHOG000173604.
KOiK01714.
OrthoDBiEOG6W7235.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00017.
BioCyciGOXY290633:GHB3-61-MONOMER.

Family and domain databases

Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the acetic acid bacterium Gluconobacter oxydans."
    Prust C., Hoffmeister M., Liesegang H., Wiezer A., Fricke W.F., Ehrenreich A., Gottschalk G., Deppenmeier U.
    Nat. Biotechnol. 23:195-200(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 621H.

Entry informationi

Entry nameiDAPA_GLUOX
AccessioniPrimary (citable) accession number: Q5FUW9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: June 10, 2008
Last modified: April 1, 2015
This is version 70 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Caution

Was originally thought to be a dihydrodipicolinate synthase (DHDPS), catalyzing the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to dihydrodipicolinate (DHDP). However, it was shown in E.coli that the product of the enzymatic reaction is not dihydrodipicolinate but in fact (4S)-4-hydroxy-2,3,4,5-tetrahydro-(2S)-dipicolinic acid (HTPA), and that the consecutive dehydration reaction leading to DHDP is not spontaneous but catalyzed by DapB.Curated

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.