UniProt P07339
Cathepsin D (P07339)
Cathepsin D (UniProt P07339), EC 3.4.23.5: 17 experimental structures and 1 predicted model on GenesisL1, 6 ligands bound, 4 pockets. Binding sites, druggability and experiment against prediction (TM-score) in GL1X.
- UniProt
- P07339
- Protein
- Cathepsin D
- EC
- 3.4.23.5
- Experimental structures
- 17
- Predicted models
- 1
- Ligands
- 6
- Pockets
- 4 · 2 records with a druggable one
Structures
18 records of P07339 in the MolNFT archive: 17 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 1LYA | Crystal structures of native and inhibited forms of human cathepsin D: implications for lysosomal… | x-ray diffraction | A, B, C, D | — | — |
| 1LYA | Crystal structures of native and inhibited forms of human cathepsin D: implications for lysosomal… | x-ray diffraction | A, B, C, D | — | — |
| 1LYB | Crystal structures of native and inhibited forms of human cathepsin D: implications for lysosomal… | x-ray diffraction | A, B, C, D | — | — |
| 1LYB | Crystal structures of native and inhibited forms of human cathepsin D: implications for lysosomal… | x-ray diffraction | A, B, C, D | — | — |
| 1LYW | Cathepsin D at pH 7.5 | x-ray diffraction | A, B, C, D, E, F, G, H | — | — |
| 1LYW | Cathepsin D at pH 7.5 | x-ray diffraction | A, B, C, D, E, F, G, H | — | — |
| 4OBZ | Structure of Cathepsin D with inhibitor 2-(3,4-dimethoxyphenyl)-N-[N-(4-methylbenzyl)carbamimidoyl]a… | x-ray diffraction | A, B, C, D | — | — |
| 4OBZ | Structure of cathepsin D with inhibitor 2-(3,4-dimethoxyphenyl)-N-[N… | x-ray diffraction | A, B, C, D | — | — |
| 4OC6 | Structure of Cathepsin D with inhibitor 2-bromo-N-[(2S,3S)-4-{[2-(2,4-dichlorophenyl)ethyl][3-(1,3-d… | x-ray diffraction | A, B | — | — |
| 4OC6 | Structure of cathepsin D with inhibitor 2-bromo-N-[(2S,3S)-4-{[2-(2,4… | x-ray diffraction | A, B | — | — |
| 4OD9 | Structure of Cathepsin D with inhibitor N-(3,4-dimethoxybenzyl)-Nalpha-{N-[(3,4-dimethoxyphenyl)acet… | x-ray diffraction | A, B, C, D | — | — |
| 4OD9 | Structure of cathepsin D with inhibitor N-(3,4-dimethoxybenzyl)… | x-ray diffraction | A, B, C, D | — | — |
| 6QBG | Crystal structure of human cathepsin D in complex with macrocyclic inhibitor 14 | x-ray diffraction | A, B | NAG, HVT, SO4 | 2 (best 0.70) |
| 6QBG | Crystal structure of human cathepsin D in complex with macrocyclic inhibitor 14 | x-ray diffraction | A, B | NAG, SO4 | — |
| 6QBH | Crystal structure of human cathepsin D in complex with macrocyclic inhibitor 33 | x-ray diffraction | A, B | NAG, S43, SO4 | — |
| 6QCB | Crystal structure of human cathepsin D in complex with macrocyclic inhibitor 9 | x-ray diffraction | A, B | NAG, PO3, HWE, SO4 | 2 (best 0.71) |
| 6QCB | Crystal structure of human cathepsin D in complex with macrocyclic inhibitor 9 | x-ray diffraction | A, B | NAG, PO3, HWE, SO4 | — |
| P07339 | AlphaFold monomer V2.0 prediction for cathepsin D (P07339) | predicted | A | — | — |
Ligands
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · in 5 records
- SO4 · Sulfate ion · in 5 records
- HWE · (3~{S},7~{S},8~{S})-7-oxidanyl-8-(phenylmethyl)-3-propan-2-yl-1,4,9-triazacyclohenicosane-2,5,10-trione · in 2 records
- PO3 · Phosphite ion · in 2 records
- HVT · (3~{S},7~{S},8~{S})-8-(naphthalen-2-ylmethyl)-7-oxidanyl-3-propan-2-yl-1,4,9-triazacyclohenicosane-2,5,10-trione · in 1 record
- S43 · (4~{S},5~{S},9~{S})-5-oxidanyl-4-(phenylmethyl)-9-propan-2-yl-1-oxa-3,8,11-triazacyclodocosane-2,7,10-trione · in 1 record
Experiment against prediction
- 4OBZ chain B against the predicted model P07339: TM-score 0.99, RMSD 0.60 Å
- 4OBZ chain B against the predicted model P07339: TM-score 0.99, RMSD 0.60 Å
- 4OBZ chain D against the predicted model P07339: TM-score 0.99, RMSD 0.64 Å
- 4OBZ chain D against the predicted model P07339: TM-score 0.99, RMSD 0.64 Å
- 4OD9 chain D against the predicted model P07339: TM-score 0.99, RMSD 0.66 Å
- 4OD9 chain D against the predicted model P07339: TM-score 0.99, RMSD 0.66 Å
- 4OD9 chain B against the predicted model P07339: TM-score 0.99, RMSD 0.69 Å
- 4OD9 chain B against the predicted model P07339: TM-score 0.99, RMSD 0.69 Å
- 1LYA chain D against the predicted model P07339: TM-score 0.99, RMSD 0.73 Å
- 1LYA chain D against the predicted model P07339: TM-score 0.99, RMSD 0.73 Å
Elsewhere
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