Research workbench
Cryo-EM structure of 9-fold symmetric ratcpn-alpha in apo state
Analyse Cryo-EM structure of 9-fold symmetric ratcpn-alpha in apo state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3J1C
- Type
- protein
- Length
- 9,342 residues
- Chains
- 18
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chaperonin alpha subunit
- UniProt
- Q877H0
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 1 distinct chain · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R | Chaperonin alpha subunit | protein | 519 | 49% helix, 16% strand | Q877H0 |
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 | 573 | 0.84 | 0.89 | 67 | empty |
| 2 | 816 | 0.83 | 0.85 | 91 | empty |
| 3 | 426 | 0.83 | 0.90 | 57 | empty |
| 4 | 914 | 0.82 | 0.84 | 100 | empty |
| 5 | 498 | 0.82 | 0.89 | 57 | empty |
Interfaces
27 interfaces between chains.
- K–L · 1210 Ų buried · 10 hydrogen bonds · protein-protein
- H–I · 1206 Ų buried · 10 hydrogen bonds · protein-protein
- F–G · 1128 Ų buried · 11 hydrogen bonds · protein-protein
- A–I · 1125 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 1120 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 3J1C · Cryo-EM structure of 9-fold symmetric rATcpn-alpha in apo state · the same entry in another collection · chain D against D, 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 Q877H0
- Elsewhere: RCSB PDB 3J1C · PDBe 3J1C · UniProt Q877H0
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