UniProt Q9UBN7
Histone deacetylase 6 (Q9UBN7)
Histone deacetylase 6 (UniProt Q9UBN7), EC 3.5.1.-, 3.5.1.98: 38 experimental structures and 1 predicted model on GenesisL1, 22 ligands bound, 5 pockets. Binding sites, druggability and experiment against prediction (TM-score) in…
- UniProt
- Q9UBN7
- Protein
- Histone deacetylase 6
- EC
- 3.5.1.-, 3.5.1.98
- Experimental structures
- 38
- Predicted models
- 1
- Ligands
- 22
- Pockets
- 5 · 1 record with a druggable one
Structures
39 records of Q9UBN7 in the MolNFT archive: 38 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 3C5K | Crystal structure of human HDAC6 zinc finger domain | x-ray diffraction | A | — | — |
| 3C5K | Crystal structure of human HDAC6 zinc finger domain | x-ray diffraction | A | — | — |
| 3GV4 | Crystal structure of human HDAC6 zinc finger domain and ubiquitin C-terminal peptide RLRGG | x-ray diffraction | A | — | — |
| 3GV4 | Crystal structure of human HDAC6 zinc finger domain and ubiquitin C- terminal peptide rlrgg | x-ray diffraction | A | — | — |
| 3PHD | Crystal structure of human HDAC6 in complex with ubiquitin | x-ray diffraction | A, B, C, D | — | — |
| 3PHD | Crystal structure of human HDAC6 in complex with ubiquitin | x-ray diffraction | A, B, C, D | — | — |
| 5B8D | Crystal structure of a low occupancy fragment candidate (N-(4-Methyl-1,3-thiazol-2-yl)propanamide)… | x-ray diffraction | A | — | — |
| 5B8D | Crystal structure of a low occupancy fragment candidate (N-(4-methyl- 1,3-thiazol-2-YL)PROPANAMIDE)… | x-ray diffraction | A | — | — |
| 5EDU | Crystal structure of human histone deacetylase 6 catalytic domain 2 in complex with trichostatin A | x-ray diffraction | B, A | GLC, TSN, ZN, K | — |
| 5EDU | Crystal structure of human histone deacetylase 6 catalytic domain 2 in complex with trichostatin a | x-ray diffraction | B, A | — | — |
| 5KH3 | Crystal structure of fragment (3-(5-Chloro-1,3-benzothiazol-2-yl)propanoic acid) bound in the… | x-ray diffraction | A | ZN, UNX, 6U6 | — |
| 5KH3 | Crystal structure of fragment (3-(5-chloro-1,3-benzothiazol-2-yl) propanoic acid) bound in the… | x-ray diffraction | A | ZN, UNX, 6U6 | — |
| 5KH7 | Crystal structure of fragment (3-[6-Oxo-3-(3-pyridinyl)-1(6H)-pyridazinyl]propanoic acid) bound in… | x-ray diffraction | A | ZN, 6T7, UNX | — |
| 5KH7 | Crystal structure of fragment (3-[6-oxo-3-(3-pyridinyl)-1(6H)- PYRIDAZINYL]PROPANOIC acid) bound in… | x-ray diffraction | A | ZN, 6T7, UNX | — |
| 5KH9 | Crystal structure of a low occupancy fragment candidate… | x-ray diffraction | A | ZN, 6T5, UNX, NA | — |
| 5KH9 | Crystal structure of a low occupancy fragment candidate (5-[(4… | x-ray diffraction | A | ZN, 6T5, UNX, NA | — |
| 5WBN | Crystal structure of fragment 3-(3-Benzyl-2-oxo-2H-[1,2,4]triazino[2,3-c]quinazolin-6-yl)propanoic… | x-ray diffraction | A | ZN, 9ZV, UNX, CL | — |
| 5WBN | Crystal structure of fragment 3-(3-benzyl-2-oxo-2H-[1,2,4]TRIAZINO[2, 3-C]QUINAZOLIN-6-YL)PROPANOIC… | x-ray diffraction | A | ZN, 9ZV, UNX, CL | — |
| 5WPB | Crystal structure of fragment 3-(3-(pyridin-2-ylmethoxy)quinoxalin-2-yl)propanoic acid bound in the… | x-ray diffraction | A | ZN, B8P, UNX | — |
| 5WPB | Crystal structure of fragment 3-(3-(pyridin-2-YLMETHOXY)QUINOXALIN-2- YL)PROPANOIC acid bound in… | x-ray diffraction | A | ZN, B8P, UNX | — |
| 6CE6 | Structure of HDAC6 zinc-finger ubiquitin binding domain soaked with… | x-ray diffraction | A | ZN, UNX, EYP | — |
| 6CE6 | Structure of HDAC6 zinc-finger ubiquitin binding domain soaked with 3… | x-ray diffraction | A | ZN, UNX, EYP | — |
| 6CE8 | Crystal structure of fragment 2-(Benzo[d]thiazol-2-yl)acetic acid bound in the ubiquitin binding… | x-ray diffraction | A | ZN, UNX, EYV | — |
| 6CE8 | Crystal structure of fragment 2-(BENZO[D]THIAZOL-2-YL)ACETIC acid bound in the ubiquitin binding… | x-ray diffraction | A | ZN, UNX, EYV | — |
| 6CEA | Crystal structure of fragment 3-(quinolin-2-yl)propanoic acid bound in the ubiquitin binding pocket… | x-ray diffraction | A | ZN, UNX, EYY | — |
| 6CEA | Crystal structure of fragment 3-(quinolin-2-YL)PROPANOIC acid bound in the ubiquitin binding pocket… | x-ray diffraction | A | ZN, UNX, EYY | — |
| 6CEC | Crystal structure of fragment 3-(3-Methoxy-2-quinoxalinyl)propanoic acid bound in the ubiquitin… | x-ray diffraction | A | ZN, UNX, EY7 | — |
| 6CEC | Crystal structure of fragment 3-(3-methoxy-2-QUINOXALINYL)PROPANOIC acid bound in the ubiquitin… | x-ray diffraction | A | ZN, UNX, EY7 | — |
| 6CED | Crystal structure of fragment 3-(3-methyl-4-oxo-3,4-dihydroquinazolin- 2-YL)PROPANOIC acid bound in… | x-ray diffraction | A | ZN, EYA, UNX | — |
| 6CEE | Crystal structure of fragment 3-(1-Methyl-2-oxo-1,2-dihydroquinoxalin-3-yl)propionic acid bound in… | x-ray diffraction | A | ZN, EYM, UNX | — |
| 6CEE | Crystal structure of fragment 3-(1-methyl-2-oxo-1,2-dihydroquinoxalin- 3-YL)PROPIONIC acid bound in… | x-ray diffraction | A | ZN, EYM, UNX | — |
| 6CEF | Crystal structure of fragment 3-(1,3-Benzothiazol-2-yl)propanoic acid bound in the ubiquitin… | x-ray diffraction | A | ZN, UNX, EYJ | — |
| 6CEF | Crystal structure of fragment 3-(1,3-benzothiazol-2-YL)PROPANOIC acid bound in the ubiquitin… | x-ray diffraction | A | ZN, UNX, EYJ | — |
| 7ZYU | HDAC6 ZnF domain inhibitor - DARPin (Designed Ankyrin repeat protein) F10 | x-ray diffraction | A | ZN | 2 (best 0.71) |
| 7ZYU | HDAC6 znf domain inhibitor - darpin (designed ankyrin repeat protein) F10 | x-ray diffraction | A | ZN | — |
| 8G43 | Structure of HDAC6 zinc-finger ubiquitin binding domain in complex with… | x-ray diffraction | A | ZN, ZU6 | 1 (best 0.36) |
| 8G44 | Structure of HDAC6 zinc-finger ubiquitin binding domain in complex with… | x-ray diffraction | A | ZN, ZU9 | 1 (best 0.38) |
| 8G45 | Structure of HDAC6 zinc-finger ubiquitin binding domain in complex with SGC-UBD253 chemical probe | x-ray diffraction | A | ZN, ZUE | 1 (best 0.37) |
| Q9UBN7 | AlphaFold monomer V2.0 prediction for histone deacetylase 6 (Q9UBN7) | predicted | A | — | — |
Ligands
- ZN · Zinc ion · in 29 records
- UNX · Unknown atom or ion · in 23 records
- 6T5 · 6-methyl-5-[(4-propan-2-ylphenyl)amino]-2~{H}-1,2,4-triazin-3-one · in 2 records
- 6T7 · 3-(6-oxidanylidene-3-pyridin-3-yl-pyridazin-1-yl) propanoic acid · in 2 records
- 6U6 · 3-(5-chloranyl-1,3-benzothiazol-2-yl)propanoic acid · in 2 records
- 9ZV · 3-(3-benzyl-2-oxo-2H-[1,2,4]triazino[2,3-c]quinazolin-6-yl)propanoic acid · in 2 records
- B8P · 3-{3-[(pyridin-2-yl)methoxy]quinoxalin-2-yl}propanoic acid · in 2 records
- CL · Chloride ion · in 2 records
- EY7 · 3-(3-methoxyquinoxalin-2-yl)propanoic acid · in 2 records
- EYJ · 3-(1,3-benzothiazol-2-yl)propanoic acid · in 2 records
- EYM · 3-(4-methyl-3-oxo-3,4-dihydroquinoxalin-2-yl)propanoic acid · in 2 records
- EYP · 3,3'-(benzo[1,2-D:5,4-d']bis[1,3]thiazole-2,6-diyl) dipropanoic acid · in 2 records
- EYV · (1,3-benzothiazol-2-yl)acetic acid · in 2 records
- EYY · 3-(quinolin-2-yl)propanoic acid · in 2 records
- NA · Sodium ion · in 2 records
- EYA · 3-(3-methyl-4-oxo-3,4-dihydroquinazolin-2-yl)propanoic acid · in 1 record
- GLC · alpha-D-glucopyranose · in 1 record
- K · Potassium ion · in 1 record
- TSN · Trichostatin A · in 1 record
- ZU6 · 3-{3-[2-(methylamino)-2-oxoethyl]-4-oxo-3,4-dihydroquinazolin-2-yl}propanoic acid · in 1 record
- ZU9 · 3-{3-[2-(benzylamino)-2-oxoethyl]-4-oxo-3,4-dihydroquinazolin-2-yl}propanoic acid · in 1 record
- ZUE · 3-[8-chloro-3-(2-{[(2-methoxyphenyl)methyl]amino}-2-oxoethyl)-4-oxo-3,4-dihydroquinazolin-2-yl]propanoic acid · in 1 record
Experiment against prediction
- 8G43 chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.36 Å
- 6CEA chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.37 Å
- 6CEA chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.37 Å
- 6CED chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.37 Å
- 5KH7 chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.38 Å
- 5KH7 chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.38 Å
- 3PHD chain B against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.38 Å
- 3PHD chain B against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.38 Å
- 8G45 chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.38 Å
- 3PHD chain A against the predicted model Q9UBN7: TM-score 0.99, RMSD 0.40 Å
Elsewhere
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.