Research workbench
Crystal structure of human survivin in complex with SMAC/DIABLO(1-15) peptide
Analyse Crystal structure of human survivin in complex with SMAC/DIABLO(1-15) peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3UIH
- Type
- protein
- Length
- 279 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Baculoviral iap repeat-containing protein 5; Diablo homolog, mitochondrial
- UniProt
- O15392, Q9NR28
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.53
Structure
x-ray diffraction · 3 distinct chains · 54% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Baculoviral iap repeat-containing protein 5 | protein | 136 | 54% helix, 7% strand | O15392 |
| B | Baculoviral iap repeat-containing protein 5 | protein | 135 | 56% helix, 7% strand | O15392 |
| P, Q | Diablo homolog, mitochondrial | protein | 4 | 0% helix, 50% strand | Q9NR28 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 107 | 0.53 | 0.82 | 19 | empty |
| 2 | 113 | 0.53 | 0.82 | 24 | empty |
Interfaces
3 interfaces between chains.
- A–B · 566 Ų buried · 5 hydrogen bonds · protein-protein
- A–P · 316 Ų buried · 8 hydrogen bonds · protein-protein
- B–Q · 292 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3UIH · crystal structure of human Survivin in complex with Smac/DIABLO(1-15) peptide · the same entry in another collection · chain Q against Q, TM-score 1.00
- O15392 · AlphaFold monomer V2.0 prediction for baculoviral iap repeat- containing protein 5… · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q9NR28 · AlphaFold monomer V2.0 prediction for diablo homolog, mitochondrial (Q9NR28) · a predicted model of the same protein · chain Q against A, TM-score 0.90
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O15392
- Every structure of UniProt Q9NR28
- Elsewhere: RCSB PDB 3UIH · PDBe 3UIH · UniProt O15392 · UniProt Q9NR28
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