Research workbench
Structural insights into G domain dimerization and pathogenic mutations of OPA1
Analyse Structural insights into G domain dimerization and pathogenic mutations of OPA1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6JTG
- Type
- protein
- Length
- 330 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dynamin-like 120 kda protein, MITOCHONDRIAL,OPA1 protein
- EC
- 3.6.5.5
- UniProt
- O60313, Q6PEK6
- Ligands
- GDP, BEF, MG, K
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 42% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dynamin-like 120 kda protein, MITOCHONDRIAL,OPA1 protein (EC 3.6.5.5) | protein | 330 | 42% helix, 15% strand | O60313, Q6PEK6 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- BEF · Beryllium trifluoride ion · ligand · chains A
- MG · Magnesium ion · metal · chains A
- K · Potassium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 166 | 0.66 | 0.87 | 33 | GDP, MG, BEF, K |
| 2 | 273 | 0.57 | 0.77 | 38 | empty |
| 3 | 52 | 0.44 | 0.84 | 15 | empty |
| 4 | 97 | 0.39 | 0.76 | 25 | empty |
Compared structures
- 6JTG · Structural insights into G domain dimerization and pathogenic mutations of OPA1 · the same entry in another collection · chain A against A, TM-score 1.00
- O60313 · AlphaFold monomer V2.0 prediction for dynamin-like 120 kda protein, mitochondrial (O60313) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 O60313
- Every structure of UniProt Q6PEK6
- Elsewhere: RCSB PDB 6JTG · PDBe 6JTG · UniProt O60313 · UniProt Q6PEK6
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