Research workbench
Actin filament model in the extended form of acromsomal bundle in the limulus sperm
Analyse Actin filament model in the extended form of acromsomal bundle in the limulus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3B63
- Type
- protein
- Length
- 5,093 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Actin
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 7 distinct chains · 41% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, G | Actin | protein | 365 | 41% helix, 20% strand | — |
| B | Actin | protein | 364 | 42% helix, 20% strand | — |
| C, I | Actin | protein | 365 | 43% helix, 20% strand | — |
| D | Actin | protein | 357 | 39% helix, 18% strand | — |
| E, H, J, K, N | Actin | protein | 365 | 42% helix, 19% strand | — |
| F | Actin | protein | 357 | 41% helix, 19% strand | — |
| L, M | Actin | protein | 365 | 37% helix, 20% strand | — |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1006 | 0.86 | 0.87 | 139 | empty |
| 2 | 1162 | 0.82 | 0.83 | 135 | empty |
| 3 | 1025 | 0.81 | 0.82 | 105 | empty |
| 4 | 1183 | 0.79 | 0.81 | 98 | empty |
| 5 | 262 | 0.79 | 0.91 | 58 | empty |
Interfaces
25 interfaces between chains.
- I–J · 1187 Ų buried · 32 hydrogen bonds · protein-protein
- M–N · 1120 Ų buried · 11 hydrogen bonds · protein-protein
- L–M · 1085 Ų buried · 13 hydrogen bonds · protein-protein
- K–L · 1061 Ų buried · 30 hydrogen bonds · protein-protein
- E–F · 989 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 3B63 · Actin filament model in the extended form of acromsomal bundle in the Limulus sperm · the same entry in another collection · chain E against E, 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
- Elsewhere: RCSB PDB 3B63 · PDBe 3B63
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