6EO0
Zebrafish Sirt5 in complex with stalled peptidylimidate and bicyclic intermediate of inhibitory compound 29
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C, D (A, B, C, D) | NAD-dependent protein deacylase sirtuin-5, mitochondrial | polymer | 277 | 30684.2 | 4 | UniProt (Q6DHI5) Pfam (PF02146) | Danio rerio (Zebrafish) | Regulatory protein SIR2 homolog 5 |
| 2 | E, I, L, O (A, B, C, D) | ZINC ION | non-polymer | 65.4 | 4 | Chemie (ZN) | |||
| 3 | F, J, M, P (A, B, C, D) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 4 | Chemie (EDO) | |||
| 4 | G (A) | 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 | non-polymer | 1180.1 | 1 | Chemie (BV8) | |||
| 5 | H, K, N, Q (A, B, C, D) | 3-[[(2~{S},3~{a}~{R},5~{R},6~{R},6~{a}~{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]-2-[[(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]amino]-6-oxidanyl-3~{a},5,6,6~{a}-tetrahydrofuro[2,3-d][1,3]oxathiol-2-yl]amino]propanoic acid | non-polymer | 1180.1 | 4 | Chemie (BVT) | |||
| 6 | R, S, T, U (A, B, C, D) | water | water | 18.0 | 176 | Chemie (HOH) |
Sequence modifications
A, B, C, D: 28 - 298 (UniProt: Q6DHI5)
| PDB | External Database | Details |
|---|---|---|
| Gly 22 | - | expression tag |
| Ile 23 | - | expression tag |
| Asp 24 | - | expression tag |
| Pro 25 | - | expression tag |
| Phe 26 | - | expression tag |
| Thr 27 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 122736.6 | |
| Non-Polymers* | Number of molecules | 13 |
| Total formula weight | 6410.3 | |
| All* | Total formula weight | 129146.9 |
