Research workbench
Fitted coordinates for groel-ADP7-groes cryo-EM complex (emd-1181)
Analyse Fitted coordinates for groel-ADP7-groes cryo-EM complex (emd-1181) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2C7D
- Type
- protein
- Length
- 7,966 residues
- Chains
- 21
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 60 kda chaperonin; 10 kda chaperonin molecule: groes, protein CPN10, groes protein
- UniProt
- P0A6F5, P0A6F9
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 3 distinct chains · 47% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | 60 kda chaperonin | protein | 524 | 51% helix, 18% strand | P0A6F5 |
| H, I, J, K, L, M, N | 60 kda chaperonin | protein | 522 | 51% helix, 17% strand | P0A6F5 |
| O, P, Q, R, S, T, U | 10 kda chaperonin molecule: groes, protein CPN10, groes protein | protein | 92 | 3% helix, 36% strand | P0A6F9 |
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 | 508 | 0.82 | 0.89 | 73 | empty |
| 2 | 1017 | 0.82 | 0.83 | 110 | empty |
| 3 | 508 | 0.81 | 0.88 | 71 | empty |
| 4 | 1048 | 0.81 | 0.82 | 110 | empty |
| 5 | 862 | 0.81 | 0.83 | 116 | empty |
Interfaces
47 interfaces between chains.
- C–D · 1844 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 1796 Ų buried · 22 hydrogen bonds · protein-protein
- E–F · 1779 Ų buried · 25 hydrogen bonds · protein-protein
- F–G · 1761 Ų buried · 27 hydrogen bonds · protein-protein
- A–G · 1744 Ų buried · 25 hydrogen bonds · protein-protein
Compared structures
- 2C7D · Fitted coordinates for GroEL-ADP7-GroES Cryo-EM complex (EMD-1181) · the same entry in another collection · chain K against K, 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 P0A6F5
- Every structure of UniProt P0A6F9
- Elsewhere: RCSB PDB 2C7D · PDBe 2C7D · UniProt P0A6F5 · UniProt P0A6F9
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