Research workbench
Cryo-EM structure of filamentous pfd from methanocaldococcus jannaschii
Analyse Cryo-EM structure of filamentous pfd from methanocaldococcus jannaschii in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VY1
- Type
- protein
- Length
- 1,694 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prefoldin subunit alpha 2
- UniProt
- Q58064
- Pockets
- 20 · best druggability 0.78
Structure
electron microscopy · 1 distinct chain · 64% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, a, b, c, d, e, f, g | Prefoldin subunit alpha 2 | protein | 121 | 64% helix, 12% strand | Q58064 |
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 | 262 | 0.78 | 0.90 | 67 | empty |
| 2 | 1196 | 0.77 | 0.79 | 139 | empty |
| 3 | 986 | 0.76 | 0.78 | 119 | empty |
| 4 | 180 | 0.75 | 0.91 | 45 | empty |
| 5 | 141 | 0.74 | 0.92 | 36 | empty |
Interfaces
31 interfaces between chains.
- C–c · 1092 Ų buried · 11 hydrogen bonds · protein-protein
- G–g · 1078 Ų buried · 9 hydrogen bonds · protein-protein
- D–d · 1077 Ų buried · 11 hydrogen bonds · protein-protein
- E–e · 1064 Ų buried · 9 hydrogen bonds · protein-protein
- B–b · 1054 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 6VY1 · Cryo-EM structure of filamentous PFD from Methanocaldococcus jannaschii · 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 Q58064
- Elsewhere: RCSB PDB 6VY1 · PDBe 6VY1 · UniProt Q58064
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.