Research workbench
Cryo-EM structure of a twisted-dimer transthyretin amyloid fibril from vitreous body of the eye
Analyse Cryo-EM structure of a twisted-dimer transthyretin amyloid fibril from vitreous… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7OB4
- Type
- protein
- Length
- 1,288 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transthyretin
- UniProt
- P02766
- Pockets
- 6 · best druggability 0.82
Structure
electron microscopy · 1 distinct chain · 0% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| G, I, H, J, K, M, L, N, A, B, C, E, D, F | Transthyretin | protein | 92 | 0% helix, 46% strand | P02766 |
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 702 | 0.82 | 0.86 | 70 | empty |
| 2 | 766 | 0.81 | 0.84 | 68 | empty |
| 3 | 344 | 0.55 | 0.75 | 40 | empty |
| 4 | 412 | 0.55 | 0.73 | 43 | empty |
| 5 | 107 | 0.45 | 0.79 | 21 | empty |
Interfaces
40 interfaces between chains.
- A–C · 3928 Ų buried · 128 hydrogen bonds · protein-protein
- B–D · 3919 Ų buried · 128 hydrogen bonds · protein-protein
- C–E · 3888 Ų buried · 125 hydrogen bonds · protein-protein
- G–I · 3878 Ų buried · 121 hydrogen bonds · protein-protein
- H–F · 3869 Ų buried · 123 hydrogen bonds · protein-protein
Compared structures
- 7OB4 · Cryo-EM structure of a twisted-dimer transthyretin amyloid fibril from vitreous body of… · the same entry in another collection · chain G against G, TM-score 1.00
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 P02766
- Elsewhere: RCSB PDB 7OB4 · PDBe 7OB4 · UniProt P02766
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