UniProt Q28943
Dihydropyrimidine dehydrogenase [NADP(+)] (Q28943)
Dihydropyrimidine dehydrogenase [NADP(+)] (UniProt Q28943), EC 1.3.1.2: 21 experimental structures and 1 predicted model on GenesisL1, 12 ligands bound, 100 pockets. Binding sites, druggability and experiment against prediction…
- UniProt
- Q28943
- Protein
- Dihydropyrimidine dehydrogenase [NADP(+)]
- EC
- 1.3.1.2
- Experimental structures
- 21
- Predicted models
- 1
- Ligands
- 12
- Pockets
- 100 · 5 records with a druggable one
Structures
22 records of Q28943 in the MolNFT archive: 21 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 1GT8 | Dihydropyrimidine dehydrogenase (dpd) from pig, ternary complex with NADPH and uracil-4-acetic acid | x-ray diffraction | A, B, C, D | — | — |
| 1GT8 | Dihydropyrimidine dehydrogenase (dpd) from pig, ternary complex with NADPH and uracil-4-acetic acid | x-ray diffraction | A, B, C, D | — | — |
| 1GTE | Dihydropyrimidine dehydrogenase (dpd) from pig, binary complex with 5-iodouracil | x-ray diffraction | A, B, C, D | — | — |
| 1GTE | Dihydropyrimidine dehydrogenase (dpd) from pig, binary complex with 5- iodouracil | x-ray diffraction | A, B, C, D | — | — |
| 1GTH | Dihydropyrimidine dehydrogenase (dpd) from pig, ternary complex with NADPH and 5-iodouracil | x-ray diffraction | A, B, C, D | — | — |
| 1GTH | Dihydropyrimidine dehydrogenase (dpd) from pig, ternary complex with NADPH and 5-iodouracil | x-ray diffraction | A, B, C, D | — | — |
| 1H7W | Dihydropyrimidine dehydrogenase (DPD) from pig | x-ray diffraction | A, B, C, D | — | — |
| 1H7W | Dihydropyrimidine dehydrogenase (dpd) from pig | x-ray diffraction | A, B, C, D | — | — |
| 1H7X | Dihydropyrimidine dehydrogenase (DPD) from pig, ternary complex of a mutant enzyme (C671A), NADPH… | x-ray diffraction | A, B, C, D | — | — |
| 1H7X | Dihydropyrimidine dehydrogenase (dpd) from pig, ternary complex of a mutant enzyme (C671A), NADPH… | x-ray diffraction | A, B, C, D | — | — |
| 7LJS | Porcine Dihydropyrimidine dehydrogenase (DPD) complexed with 5-Ethynyluracil (5EU) - Open Form | x-ray diffraction | A, B, C, D | SF4, FMN, FAD, Y3G | 20 (best 0.91) |
| 7LJS | Porcine dihydropyrimidine dehydrogenase (dpd) complexed with 5- ethynyluracil (5EU) - open form | x-ray diffraction | A, B, C, D | SF4, FMN, FAD, Y3G | — |
| 7LJT | Porcine dihydropyrimidine dehydrogenase (dpd) soaked with 5- ethynyluracil (5EU), NADPH - 20 minutes | x-ray diffraction | A, B, C, D | SF4, FAD, FMN, Y3G, NAP | — |
| 7LJU | Porcine Dihydropyrimidine Dehydrogenase (DPD) crosslinked with 5-Ethynyluracil (5EU) | x-ray diffraction | A, C, D, B | SF4, FAD, Y3G, NAP, FNR | — |
| 7LJU | Porcine dihydropyrimidine dehydrogenase (dpd) crosslinked with 5- ethynyluracil (5EU) | x-ray diffraction | A, C, D, B | SF4, FAD, Y3G, NAP, FNR | — |
| 7M31 | Dihydropyrimidine Dehydrogenase (DPD) C671S Mutant Soaked with Thymine and NADPH Anaerobically | x-ray diffraction | A, B, C, D | SF4, FAD, NAP, FMN, TDR, PRO | 20 (best 0.91) |
| 7M31 | Dihydropyrimidine dehydrogenase (dpd) C671S mutant soaked with thymine and NADPH anaerobically | x-ray diffraction | A, B, C, D | SF4, FAD, NAP, FMN, TDR | — |
| 7M32 | Dihydropyrimidine Dehydrogenase (DPD) C671A Mutant Soaked with Uracil and NADPH Anaerobically | x-ray diffraction | A, B, C, D | SF4, FAD, URA, FNR, ALA, LEU | 20 (best 0.89) |
| 7M32 | Dihydropyrimidine dehydrogenase (dpd) C671A mutant soaked with uracil and NADPH anaerobically | x-ray diffraction | A, B, C, D | SF4, FAD, URA, FNR | — |
| 8F61 | Dihydropyrimidine Dehydrogenase (DPD) C671S Mutant Soaked with Dihydrothymine Quasi-Anaerobically | x-ray diffraction | A, B, C, D | SF4, FAD, TDR, FNR, FMN, XH5 | 20 (best 0.90) |
| 8F6N | Dihydropyrimidine Dehydrogenase (DPD) C671S Mutant Soaked with Thymine Quasi-Anaerobically | x-ray diffraction | A, B, C, D | SF4, FMN, FAD, TDR | 20 (best 0.89) |
| Q28943 | AlphaFold monomer V2.0 prediction for dihydropyrimidine dehydrogenase [NADP(+)] (Q28943) | predicted | A | — | — |
Ligands
- FAD · Flavin-adenine dinucleotide · in 11 records
- SF4 · Iron/sulfur cluster · in 11 records
- FMN · Flavin mononucleotide · in 7 records
- FNR · 1-deoxy-1-(7,8-dimethyl-2,4-dioxo-3,4-dihydro-2H-benzo[g]pteridin-1-id-10(5H)-yl)-5-O-phosphonato-D-ribitol · in 5 records
- NAP · Nadp nicotinamide-adenine-dinucleotide phosphate · in 5 records
- Y3G · 5-ethynylpyrimidine-2,4(1H,3H)-dione · in 5 records
- TDR · Thymine · in 4 records
- PRO · Proline · in 2 records
- URA · Uracil · in 2 records
- ALA · Alanine · in 1 record
- LEU · Leucine · in 1 record
- XH5 · (5S)-5-methyl-1,3-diazinane-2,4-dione · in 1 record
Experiment against prediction
- 1GTH chain B against the predicted model Q28943: TM-score 1.00, RMSD 0.40 Å
- 1GTH chain B against the predicted model Q28943: TM-score 1.00, RMSD 0.40 Å
- 1GTH chain C against the predicted model Q28943: TM-score 1.00, RMSD 0.40 Å
- 1GTH chain C against the predicted model Q28943: TM-score 1.00, RMSD 0.40 Å
- 1GTH chain A against the predicted model Q28943: TM-score 1.00, RMSD 0.43 Å
- 1GTH chain A against the predicted model Q28943: TM-score 1.00, RMSD 0.43 Å
- 1GTH chain D against the predicted model Q28943: TM-score 1.00, RMSD 0.44 Å
- 1GTH chain D against the predicted model Q28943: TM-score 1.00, RMSD 0.44 Å
- 7LJU chain B against the predicted model Q28943: TM-score 1.00, RMSD 0.46 Å
- 7LJU chain B against the predicted model Q28943: TM-score 1.00, RMSD 0.46 Å
Elsewhere
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