MolNFT v1 · #158694 · protein + RNA
Cryo-EM structure of the T. thermophilus csm complex bound to target ssrna
6O1O · CSM1: “Cryo-EM structure of the T. thermophilus csm complex bound to target ssrna”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #158694 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O1O
- Type
- protein + RNA
- Length
- 2,823 residues
- Chains
- 14
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CSM1; CSM4; CSM3; CSM2; RNA (36-mer); RNA (30-mer)
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 8 distinct chains · 28% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CSM1 | protein | 716 | 38% helix, 6% strand | — |
| B | CSM4 | protein | 279 | 22% helix, 7% strand | — |
| C, D, E | CSM3 | protein | 218 | 15% helix, 13% strand | — |
| F | CSM3 | protein | 216 | 11% helix, 16% strand | — |
| G, H | CSM4 | protein | 210 | 17% helix, 12% strand | — |
| I, J, K, L | CSM2 | protein | 118 | 65% helix, 0% strand | — |
| M | RNA (36-mer) | rna | 36 | — | — |
| N | RNA (30-mer) | rna | 30 | — | — |
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 | 1102 | 0.86 | 0.87 | 134 | empty |
| 2 | 955 | 0.85 | 0.87 | 139 | empty |
| 3 | 1064 | 0.82 | 0.83 | 134 | empty |
| 4 | 458 | 0.81 | 0.89 | 80 | empty |
| 5 | 679 | 0.81 | 0.86 | 106 | empty |
Interfaces
44 interfaces between chains.
- M–N · 1169 Ų buried · 94 hydrogen bonds · nucleic-nucleic
- C–M · 973 Ų buried · 13 hydrogen bonds · protein-nucleic
- F–M · 918 Ų buried · 10 hydrogen bonds · protein-nucleic
- D–M · 898 Ų buried · 9 hydrogen bonds · protein-nucleic
- E–M · 868 Ų buried · 10 hydrogen bonds · protein-nucleic
Compared structures
- 6O1O · Cryo-EM structure of the T. thermophilus Csm complex bound to target ssRNA · the same entry in another collection · chain A against A, 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 6O1O · PDBe 6O1O
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