MolNFT v1 · #118560 · protein
TRAP1N-adpnp
5F5R · Heat shock protein 75 kda, mitochondrial: “TRAP1N-adpnp”. X-ray diffraction, 2 ligands (ANP, MG), 7 pockets (best druggability 0.61). MolNFT v1 #118560 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5F5R
- Type
- protein
- Length
- 447 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heat shock protein 75 kda, mitochondrial
- UniProt
- Q12931
- Ligands
- ANP, MG
- Pockets
- 7 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heat shock protein 75 kda, mitochondrial | protein | 225 | 36% helix, 26% strand | Q12931 |
| B | Heat shock protein 75 kda, mitochondrial | protein | 222 | 37% helix, 26% strand | Q12931 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 234 | 0.61 | 0.81 | 30 | ANP, MG |
| 2 | 241 | 0.60 | 0.80 | 29 | ANP, MG |
| 3 | 264 | 0.60 | 0.79 | 45 | empty |
| 4 | 115 | 0.38 | 0.74 | 19 | empty |
| 5 | 92 | 0.37 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 624 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
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 Q12931
- Elsewhere: RCSB PDB 5F5R · PDBe 5F5R · UniProt Q12931
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