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Protein

4-hydroxy-tetrahydrodipicolinate synthase

Gene

dapA

Organism
Aquifex aeolicus (strain VF5)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

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: L-lysine biosynthesis via DAP pathway

This protein is involved in step 3 of the subpathway that synthesizes (S)-tetrahydrodipicolinate from L-aspartate.UniRule annotation
Proteins known to be involved in the 4 steps of the subpathway in this organism are:
  1. Aspartokinase (lysC)
  2. Aspartate-semialdehyde dehydrogenase (asd)
  3. 4-hydroxy-tetrahydrodipicolinate synthase (dapA)
  4. 4-hydroxy-tetrahydrodipicolinate reductase (dapB)
This subpathway is part of the pathway L-lysine biosynthesis via DAP pathway, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes (S)-tetrahydrodipicolinate from L-aspartate, the pathway L-lysine biosynthesis via DAP pathway and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei43 – 431Part of a proton relay during catalysisUniRule annotation
Binding sitei44 – 441PyruvateUniRule annotation
Sitei106 – 1061Part of a proton relay during catalysisUniRule annotation
Active sitei132 – 1321Proton donor/acceptorUniRule annotation
Active sitei161 – 1611Schiff-base intermediate with substrateUniRule annotation
Binding sitei203 – 2031Pyruvate; via carbonyl oxygenUniRule annotation

GO - Molecular functioni

GO - Biological processi

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

BioCyciAAEO224324:GJBH-815-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:aq_1143
OrganismiAquifex aeolicus (strain VF5)
Taxonomic identifieri224324 [NCBI]
Taxonomic lineageiBacteriaAquificaeAquificalesAquificaceaeAquifex
Proteomesi
  • UP000000798 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 2942944-hydroxy-tetrahydrodipicolinate synthasePRO_0000103081Add
BLAST

Interactioni

Subunit structurei

Homotetramer; dimer of dimers.UniRule annotation

Protein-protein interaction databases

STRINGi224324.aq_1143.

Structurei

Secondary structure

1
294
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 85Combined sources
Helixi20 – 3112Combined sources
Turni32 – 343Combined sources
Beta strandi37 – 426Combined sources
Turni43 – 464Combined sources
Helixi47 – 493Combined sources
Helixi52 – 6615Combined sources
Beta strandi69 – 757Combined sources
Helixi81 – 9313Combined sources
Beta strandi97 – 1026Combined sources
Helixi111 – 12414Combined sources
Beta strandi129 – 1335Combined sources
Helixi135 – 1384Combined sources
Helixi144 – 15310Combined sources
Beta strandi157 – 1626Combined sources
Helixi167 – 17711Combined sources
Beta strandi181 – 1877Combined sources
Helixi188 – 1903Combined sources
Helixi191 – 1966Combined sources
Beta strandi201 – 2055Combined sources
Helixi206 – 2083Combined sources
Helixi211 – 22313Combined sources
Helixi226 – 24217Combined sources
Beta strandi245 – 2473Combined sources
Helixi250 – 2589Combined sources
Helixi275 – 28713Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2EHHX-ray1.90A/C/D/E1-294[»]
ProteinModelPortaliO67216.
SMRiO67216. Positions 1-294.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO67216.

Family & Domainsi

Sequence similaritiesi

Belongs to the DapA family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CDP. Bacteria.
COG0329. LUCA.
HOGENOMiHOG000173604.
InParanoidiO67216.
KOiK01714.
OMAiGMDACVP.
OrthoDBiPOG091H00C1.

Family and domain databases

CDDicd00950. DHDPS. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020625. Schiff_base-form_aldolases_AS.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
SMARTiSM01130. DHDPS. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O67216-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFQGSIVALI TPFKEGEVDY EALGNLIEFH VDNGTDAILV CGTTGESPTL
60 70 80 90 100
TFEEHEKVIE FAVKRAAGRI KVIAGTGGNA THEAVHLTAH AKEVGADGAL
110 120 130 140 150
VVVPYYNKPT QRGLYEHFKT VAQEVDIPII IYNIPSRTCV EISVDTMFKL
160 170 180 190 200
ASECENIVAS KESTPNMDRI SEIVKRLGES FSVLSGDDSL TLPMMALGAK
210 220 230 240 250
GVISVANNVM PREVKELIRA ALEGDFRRAR EIHYYLHDLF KVLFIETNPI
260 270 280 290
PVKTACWMLG MCEKEFRLPL TEMSPENENK LREVLKKYNL PLKN
Length:294
Mass (Da):32,670
Last modified:August 1, 1998 - v1
Checksum:i0778B824E6619E31
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000657 Genomic DNA. Translation: AAC07169.1.
PIRiE70398.
RefSeqiNP_213780.1. NC_000918.1.
WP_010880718.1. NC_000918.1.

Genome annotation databases

EnsemblBacteriaiAAC07169; AAC07169; aq_1143.
GeneIDi1192562.
KEGGiaae:aq_1143.
PATRICi20959542. VBIAquAeo85532_0891.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE000657 Genomic DNA. Translation: AAC07169.1.
PIRiE70398.
RefSeqiNP_213780.1. NC_000918.1.
WP_010880718.1. NC_000918.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2EHHX-ray1.90A/C/D/E1-294[»]
ProteinModelPortaliO67216.
SMRiO67216. Positions 1-294.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi224324.aq_1143.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC07169; AAC07169; aq_1143.
GeneIDi1192562.
KEGGiaae:aq_1143.
PATRICi20959542. VBIAquAeo85532_0891.

Phylogenomic databases

eggNOGiENOG4105CDP. Bacteria.
COG0329. LUCA.
HOGENOMiHOG000173604.
InParanoidiO67216.
KOiK01714.
OMAiGMDACVP.
OrthoDBiPOG091H00C1.

Enzyme and pathway databases

UniPathwayiUPA00034; UER00017.
BioCyciAAEO224324:GJBH-815-MONOMER.

Miscellaneous databases

EvolutionaryTraceiO67216.

Family and domain databases

CDDicd00950. DHDPS. 1 hit.
Gene3Di3.20.20.70. 1 hit.
HAMAPiMF_00418. DapA. 1 hit.
InterProiIPR013785. Aldolase_TIM.
IPR005263. DapA.
IPR002220. DapA-like.
IPR020625. Schiff_base-form_aldolases_AS.
IPR020624. Schiff_base-form_aldolases_CS.
[Graphical view]
PANTHERiPTHR12128. PTHR12128. 1 hit.
PfamiPF00701. DHDPS. 1 hit.
[Graphical view]
PIRSFiPIRSF001365. DHDPS. 1 hit.
PRINTSiPR00146. DHPICSNTHASE.
SMARTiSM01130. DHDPS. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00674. dapA. 1 hit.
PROSITEiPS00665. DHDPS_1. 1 hit.
PS00666. DHDPS_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDAPA_AQUAE
AccessioniPrimary (citable) accession number: O67216
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: August 1, 1998
Last modified: September 7, 2016
This is version 111 of the entry and version 1 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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 one 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.