UniProtKB - Q9X1K9 (DAPA_THEMA)
Protein
4-hydroxy-tetrahydrodipicolinate synthase
Gene
dapA
Organism
Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
Status
Functioni
Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).1 Publication
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
Catalytic activityi
- L-aspartate 4-semialdehyde + pyruvate = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + H+ + H2OUniRule annotationEC:4.3.3.7UniRule annotation
Activity regulationi
Is not inhibited by (S)-lysine, in contrast to E.coli DapA.1 Publication
Kineticsi
kcat is 136 sec(-1) and 465 sec (-1) at 30 and 45 degrees Celsius, respectively.1 Publication
- KM=0.053 mM for pyruvate (at 30 degrees Celsius)1 Publication
- KM=0.08 mM for pyruvate (at 30 degrees Celsius)1 Publication
- KM=0.15 mM for pyruvate (at 45 degrees Celsius)1 Publication
- KM=0.16 mM for L-aspartate-4-semialdehyde (at 30 degrees Celsius)1 Publication
- KM=0.23 mM for L-aspartate-4-semialdehyde (at 30 degrees Celsius)1 Publication
- KM=0.36 mM for L-aspartate-4-semialdehyde (at 45 degrees Celsius)1 Publication
- Vmax=1.01 µmol/sec/mg enzyme (at 30 degrees Celsius)1 Publication
Temperature dependencei
Highly thermostable. Retains over 60% of the activity after 7 hours incubation at 90 degrees Celsius.1 Publication
: L-lysine biosynthesis via DAP pathway Pathwayi
This protein is involved in step 3 of the subpathway that synthesizes (S)-tetrahydrodipicolinate from L-aspartate.UniRule annotationProteins known to be involved in the 4 steps of the subpathway in this organism are:
- Aspartokinase (TM_1518), Aspartokinase (Tmari_0544), Aspartokinase (Tmari_1526), Aspartokinase (TM_0547)
- no protein annotated in this organism
- 4-hydroxy-tetrahydrodipicolinate synthase (dapA), 4-hydroxy-tetrahydrodipicolinate synthase (dapA)
- 4-hydroxy-tetrahydrodipicolinate reductase (dapB), 4-hydroxy-tetrahydrodipicolinate reductase (dapB)
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 key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sitei | 43 | Part of a proton relay during catalysisUniRule annotation | 1 | |
Binding sitei | 44 | PyruvateUniRule annotation | 1 | |
Sitei | 106 | Part of a proton relay during catalysisUniRule annotation | 1 | |
Active sitei | 132 | Proton donor/acceptorUniRule annotation | 1 | |
Active sitei | 161 | Schiff-base intermediate with substrateUniRule annotation | 1 | |
Binding sitei | 206 | Pyruvate; via carbonyl oxygenUniRule annotation | 1 |
GO - Molecular functioni
- 4-hydroxy-tetrahydrodipicolinate synthase activity Source: UniProtKB-UniRule
GO - Biological processi
- diaminopimelate biosynthetic process Source: UniProtKB-UniRule
- lysine biosynthetic process via diaminopimelate Source: UniProtKB-UniPathway
Keywordsi
Molecular function | Lyase |
Biological process | Amino-acid biosynthesis, Diaminopimelate biosynthesis, Lysine biosynthesis |
Ligand | Schiff base |
Enzyme and pathway databases
BRENDAi | 4.3.3.7, 6331 |
UniPathwayi | UPA00034;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:TM_1521 |
Organismi | Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) |
Taxonomic identifieri | 243274 [NCBI] |
Taxonomic lineagei | Bacteria › Thermotogae › Thermotogales › Thermotogaceae › Thermotoga › |
Proteomesi |
|
Subcellular locationi
Cytoplasm and Cytosol
- Cytoplasm UniRule annotation
Other locations
- cytoplasm Source: UniProtKB-SubCell
Keywords - Cellular componenti
CytoplasmPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 166 – 168 | DID → AAA: Exists as a monomer in solution. Decreased activity and substrate affinity. Reduced thermal stability. 1 Publication | 3 |
Chemistry databases
DrugBanki | DB02370, Nz-(1-Carboxyethyl)-Lysine |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000103175 | 1 – 294 | 4-hydroxy-tetrahydrodipicolinate synthaseAdd BLAST | 294 |
Interactioni
Subunit structurei
Homotetramer; dimer of dimers.
UniRule annotation2 PublicationsProtein-protein interaction databases
STRINGi | 243274.THEMA_06695 |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | Q9X1K9 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q9X1K9 |
Family & Domainsi
Sequence similaritiesi
Belongs to the DapA family.UniRule annotation
Phylogenomic databases
eggNOGi | COG0329, Bacteria |
InParanoidi | Q9X1K9 |
OMAi | GMDACVP |
OrthoDBi | 1438588at2 |
Family and domain databases
CDDi | cd00950, DHDPS, 1 hit |
Gene3Di | 3.20.20.70, 1 hit |
HAMAPi | MF_00418, DapA, 1 hit |
InterProi | View protein in InterPro IPR013785, Aldolase_TIM IPR005263, DapA IPR002220, DapA-like IPR020625, Schiff_base-form_aldolases_AS IPR020624, Schiff_base-form_aldolases_CS |
PANTHERi | PTHR12128, PTHR12128, 1 hit |
Pfami | View protein in Pfam PF00701, DHDPS, 1 hit |
PIRSFi | PIRSF001365, DHDPS, 1 hit |
PRINTSi | PR00146, DHPICSNTHASE |
SMARTi | View protein in SMART SM01130, DHDPS, 1 hit |
TIGRFAMsi | TIGR00674, dapA, 1 hit |
PROSITEi | View protein in PROSITE PS00665, DHDPS_1, 1 hit PS00666, DHDPS_2, 1 hit |
i Sequence
Sequence statusi: Complete.
Q9X1K9-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MFRGVGTAIV TPFKNGELDL ESYERLVRYQ LENGVNALIV LGTTGESPTV
60 70 80 90 100
NEDEREKLVS RTLEIVDGKI PVIVGAGTNS TEKTLKLVKQ AEKLGANGVL
110 120 130 140 150
VVTPYYNKPT QEGLYQHYKY ISERTDLGIV VYNVPGRTGV NVLPETAARI
160 170 180 190 200
AADLKNVVGI KEANPDIDQI DRTVSLTKQA RSDFMVWSGN DDRTFYLLCA
210 220 230 240 250
GGDGVISVVS NVAPKQMVEL CAEYFSGNLE KSREVHRKLR PLMKALFVET
260 270 280 290
NPIPVKAALN LMGFIENELR LPLVPASEKT VELLRNVLKE SGLL
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AE000512 Genomic DNA Translation: AAD36588.1 |
PIRi | B72246 |
RefSeqi | NP_229321.1, NC_000853.1 WP_004081879.1, NZ_CP011107.1 |
Genome annotation databases
EnsemblBacteriai | AAD36588; AAD36588; TM_1521 |
KEGGi | tma:TM1521 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AE000512 Genomic DNA Translation: AAD36588.1 |
PIRi | B72246 |
RefSeqi | NP_229321.1, NC_000853.1 WP_004081879.1, NZ_CP011107.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1O5K | X-ray | 1.80 | A/B | 1-294 | [»] | |
3PB0 | X-ray | 2.00 | A/B/C/D | 1-294 | [»] | |
3PB2 | X-ray | 1.90 | A/B/C/D/E/F | 1-294 | [»] | |
SMRi | Q9X1K9 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
STRINGi | 243274.THEMA_06695 |
Chemistry databases
DrugBanki | DB02370, Nz-(1-Carboxyethyl)-Lysine |
Genome annotation databases
EnsemblBacteriai | AAD36588; AAD36588; TM_1521 |
KEGGi | tma:TM1521 |
Phylogenomic databases
eggNOGi | COG0329, Bacteria |
InParanoidi | Q9X1K9 |
OMAi | GMDACVP |
OrthoDBi | 1438588at2 |
Enzyme and pathway databases
UniPathwayi | UPA00034;UER00017 |
BRENDAi | 4.3.3.7, 6331 |
Miscellaneous databases
EvolutionaryTracei | Q9X1K9 |
Family and domain databases
CDDi | cd00950, DHDPS, 1 hit |
Gene3Di | 3.20.20.70, 1 hit |
HAMAPi | MF_00418, DapA, 1 hit |
InterProi | View protein in InterPro IPR013785, Aldolase_TIM IPR005263, DapA IPR002220, DapA-like IPR020625, Schiff_base-form_aldolases_AS IPR020624, Schiff_base-form_aldolases_CS |
PANTHERi | PTHR12128, PTHR12128, 1 hit |
Pfami | View protein in Pfam PF00701, DHDPS, 1 hit |
PIRSFi | PIRSF001365, DHDPS, 1 hit |
PRINTSi | PR00146, DHPICSNTHASE |
SMARTi | View protein in SMART SM01130, DHDPS, 1 hit |
TIGRFAMsi | TIGR00674, dapA, 1 hit |
PROSITEi | View protein in PROSITE PS00665, DHDPS_1, 1 hit PS00666, DHDPS_2, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | DAPA_THEMA | |
Accessioni | Q9X1K9Primary (citable) accession number: Q9X1K9 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2000 |
Last sequence update: | November 1, 1999 | |
Last modified: | April 7, 2021 | |
This is version 140 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families