UniProt Q9NXA8
NAD-dependent protein deacylase sirtuin-5, mitochondrial (Q9NXA8)
NAD-dependent protein deacylase sirtuin-5, mitochondrial (UniProt Q9NXA8), EC 2.3.1.-, 3.5.1.-: 43 experimental structures and 1 predicted model on GenesisL1, 11 ligands bound, 50 pockets. Binding sites, druggability and…
- UniProt
- Q9NXA8
- Protein
- NAD-dependent protein deacylase sirtuin-5, mitochondrial
- EC
- 2.3.1.-, 3.5.1.-
- Experimental structures
- 43
- Predicted models
- 1
- Ligands
- 11
- Pockets
- 50 · 16 records with a druggable one
Structures
44 records of Q9NXA8 in the MolNFT archive: 43 experimental, 1 predicted.
| Entry | Title | Method | Chains | Ligands | Pockets |
|---|---|---|---|---|---|
| 2B4Y | Crystal Structure of Human Sirtuin homolog 5 | x-ray diffraction | A, B, C, D | — | — |
| 2B4Y | Crystal structure of human sirtuin homolog 5 | x-ray diffraction | A, B, C, D | — | — |
| 2NYR | Crystal Structure of Human Sirtuin Homolog 5 in Complex with Suramin | x-ray diffraction | A, B | — | — |
| 2NYR | Crystal structure of human sirtuin homolog 5 in complex with suramin | x-ray diffraction | A, B | — | — |
| 3RIG | Sirt5 is an NAD-dependent protein lysine demalonylase and desuccinylase | x-ray diffraction | A, B | — | — |
| 3RIG | SIRT5 is an NAD-dependent protein lysine demalonylase and desuccinylase | x-ray diffraction | A, B | — | — |
| 3RIY | Sirt5 is an NAD-dependent protein lysine demalonylase and desuccinylase | x-ray diffraction | A, B | — | — |
| 3RIY | SIRT5 is an NAD-dependent protein lysine demalonylase and desuccinylase | x-ray diffraction | A, B | — | — |
| 4F4U | The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5 | x-ray diffraction | A, B | — | — |
| 4F4U | The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5 | x-ray diffraction | A, B | — | — |
| 4F56 | The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5 | x-ray diffraction | A, B | — | — |
| 4F56 | The bicyclic intermediate structure provides insights into the desuccinylation mechanism of SIRT5 | x-ray diffraction | A, B | — | — |
| 4G1C | Human SIRT5 bound to Succ-IDH2 and Carba-NAD | x-ray diffraction | A, B | — | — |
| 4G1C | Human SIRT5 bound to succ-IDH2 and carba-NAD | x-ray diffraction | A, B | — | — |
| 4HDA | Crystal structure of human Sirt5 in complex with Fluor-de-Lys peptide and resveratrol | x-ray diffraction | A, B | — | — |
| 4HDA | Crystal structure of human SIRT5 in complex with fluor-de-lys peptide and resveratrol | x-ray diffraction | A, B | — | — |
| 5BWL | Crystal structure of SIRT5 in complex with a coumarin-labelled succinyl peptide | x-ray diffraction | A | — | — |
| 5XHS | Crystal structure of SIRT5 complexed with a fluorogenic small-molecule substrate SuBKA | x-ray diffraction | A | PHQ, SLL, MCM, ZN | 2 (best 0.69) |
| 5XHS | Crystal structure of SIRT5 complexed with a fluorogenic small-molecule substrate subka | x-ray diffraction | A | PHQ, MCM, ZN | — |
| 6ACE | histone lysine desuccinylase Sirt5 in complex with succinyl peptide H3K122 | x-ray diffraction | A | ZN | 3 (best 0.73) |
| 6ACE | Histone lysine desuccinylase SIRT5 in complex with succinyl peptide H3K122 | x-ray diffraction | A | ZN | — |
| 6ACL | histone lysine desuccinylase Sirt5 in complex with succinyl peptide H2AK95 | x-ray diffraction | A | ZN | 3 (best 0.69) |
| 6ACL | Histone lysine desuccinylase SIRT5 in complex with succinyl peptide H2AK95 | x-ray diffraction | A | ZN | — |
| 6ACO | histone lysine desuccinylase Sirt5 in complex with succinyl peptide H2BK120 | x-ray diffraction | A | ZN, CL | 2 (best 0.39) |
| 6ACO | Histone lysine desuccinylase SIRT5 in complex with succinyl peptide H2BK120 | x-ray diffraction | A | ZN, CL | — |
| 6ACP | histone lysine desuccinylase Sirt5 in complex with succinyl peptide H4K91 | x-ray diffraction | A | ZN | 1 (best 0.30) |
| 6ACP | Histone lysine desuccinylase SIRT5 in complex with succinyl peptide H4K91 | x-ray diffraction | A | ZN | — |
| 6EQS | Human Sirt5 in complex with stalled peptidylimidate intermediate of inhibitory compound 29 | x-ray diffraction | A, B, C, D | ZN, BV8 | 11 (best 0.82) |
| 6EQS | Human SIRT5 in complex with stalled peptidylimidate intermediate of inhibitory compound 29 | x-ray diffraction | A, B, C, D | ZN, BV8 | — |
| 6LJK | Crystal structure of human Sirt5 in complex with an internally quenched fluorescent substrate GluIQF | x-ray diffraction | A | ZN, NA, GUA | 2 (best 0.66) |
| 6LJK | Crystal structure of human SIRT5 in complex with an internally quenched fluorescent substrate gluiqf | x-ray diffraction | A | BE2, ZN, NA, GUA | — |
| 6LJM | Crystal structure of human Sirt5 in complex with the fluorogenic tetrapeptide substrate P13 | x-ray diffraction | A | ZN, MCM | 2 (best 0.59) |
| 6LJM | Crystal structure of human SIRT5 in complex with the fluorogenic tetrapeptide substrate P13 | x-ray diffraction | A | ZN, MCM | — |
| 6LJN | Crystal structure of human Sirt5 in complex with the fluorogenic tetrapeptide substrate P15 | x-ray diffraction | A | ZN, MCM | 2 (best 0.57) |
| 6LJN | Crystal structure of human SIRT5 in complex with the fluorogenic tetrapeptide substrate P15 | x-ray diffraction | A | ZN, MCM | — |
| 7X3P | Crystal structure of human SIRT5 in complex with diazirine inhibitor 9 | x-ray diffraction | A | 8VG, ZN | 2 (best 0.75) |
| 8GBL | Structure of Apo Human SIRT5 | x-ray diffraction | A, B | ZN | 4 (best 0.75) |
| 8GBN | Structure of Apo Human SIRT5 P114T Mutant | x-ray diffraction | A, B | ZN | 3 (best 0.82) |
| 8Z54 | Crystal structure of human SIRT5 in complex with succinylated Prx1 fragment | x-ray diffraction | A | ZN | 2 (best 0.65) |
| 8Z55 | Crystal structure of human SIRT5 in complex with succPrx1 and ADP ribose | x-ray diffraction | A | ADP, ZN | 2 (best 0.62) |
| 8Z56 | Crystal structure of human Q140L-SIRT5 in complex with succinylated Prx1 fragment | x-ray diffraction | A | ZN, CL | 2 (best 0.64) |
| 8Z57 | Crystal structure of human Q140L-SIRT5 in complex with succinylated Prx1 fragment and ADP ribose | x-ray diffraction | A | ZN, ADP | 2 (best 0.64) |
| 8Z58 | Crystal structure of human N141V-SIRT5 in complex with succinylated Prx1 fragment | x-ray diffraction | A | ZN, CL | 2 (best 0.64) |
| Q9NXA8 | AlphaFold monomer V2.0 prediction for NAD-dependent protein deacylase sirtuin-5, mitochondrial… | predicted | A | — | 3 (best 0.74) |
Ligands
- ZN · Zinc ion · in 26 records
- MCM · 7-amino-4-methyl-chromen-2-one · in 6 records
- CL · Chloride ion · in 4 records
- ADP · Adenosine-5'-diphosphate · in 2 records
- BV8 · 3-[[(~{Z})-~{C}-[(2~{R},3~{R},4~{S},5~{R})-5-[[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3, 4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-3,4-bis(oxidanyl)oxolan-2-yl]sulfanyl-~{N}-[(5~{S})-6-[[(2~{S})-3-(1~{H}-indol-3-yl)-1-oxidanylidene-1-(propan-2-ylamino)propan-2-yl]amino]-6-oxidanylidene-5-(phenylmethoxycarbonylamino) hexyl]carbonimidoyl]amino]propanoic acid · in 2 records
- GUA · Glutaric acid · in 2 records
- NA · Sodium ion · in 2 records
- PHQ · benzyl chlorocarbonate · in 2 records
- 8VG · 5-[[(5~{S})-6-[[(1~{S})-1-(4-hydroxyphenyl)-2-oxidanylidene-2-(prop-2-ynylamino)ethyl]amino]-6-oxidanylidene-5-[[4-[3-(trifluoromethyl)-1,2-diazirin-3-yl]phenyl]carbonylamino]hexyl]amino]-5-sulfanylidene-pentanoic acid · in 1 record
- BE2 · 2-aminobenzoic acid · in 1 record
- SLL · (2S)-2-azanyl-6-[(4-hydroxy-4-oxo-butanoyl)amino]hexanoic acid · in 1 record
Experiment against prediction
- 6EQS chain B against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.26 Å
- 6EQS chain B against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.26 Å
- 6EQS chain A against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.29 Å
- 6EQS chain A against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.29 Å
- 4G1C chain A against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.40 Å
- 4G1C chain A against the predicted model Q9NXA8: TM-score 1.00, RMSD 0.40 Å
- 4F56 chain B against the predicted model Q9NXA8: TM-score 0.99, RMSD 0.49 Å
- 4F56 chain B against the predicted model Q9NXA8: TM-score 0.99, RMSD 0.49 Å
- 4F4U chain B against the predicted model Q9NXA8: TM-score 0.99, RMSD 0.50 Å
- 4F4U chain B against the predicted model Q9NXA8: TM-score 0.99, RMSD 0.50 Å
Elsewhere
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.