MolNFT v1 · #152388 · protein + RNA
Type III-a csm complex, cryo-EM structure of csm-CTR2-ssdna complex
6IFZ · Type III-a CRISPR-associated protein CSM1: “Type III-a csm complex, cryo-EM structure of csm-CTR2-ssdna complex”. Electron microscopy, 1 ligand (ZN), 20 pockets (best druggability 0.84). MolNFT v1 #152388 on GenesisL1: 3D structure…
- PDB
- 6IFZ
- Type
- protein + RNA
- Length
- 2,316 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type III-a CRISPR-associated protein CSM1; Type III-a CRISPR-associated protein CSM2…
- UniProt
- A0A2U2M0F3, A0A2U2M049, A0A2U2M035, A0A2U2M037, A0A2U2M038
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 9 distinct chains · 30% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Type III-a CRISPR-associated protein CSM1 | protein | 734 | 43% helix, 11% strand | A0A2U2M0F3 |
| D, C | Type III-a CRISPR-associated protein CSM2 | protein | 121 | 64% helix, 2% strand | A0A2U2M049 |
| G | Type III-a CRISPR-associated ramp protein CSM3 | protein | 217 | 12% helix, 24% strand | A0A2U2M035 |
| F | Type III-a CRISPR-associated ramp protein CSM3 | protein | 216 | 23% helix, 23% strand | A0A2U2M035 |
| E | Type III-a CRISPR-associated ramp protein CSM3 | protein | 207 | 20% helix, 20% strand | A0A2U2M035 |
| B | Type III-a CRISPR-associated ramp protein CSM4 | protein | 293 | 17% helix, 17% strand | A0A2U2M037 |
| H | Type III-a CRISPR-associated ramp protein CSM5 | protein | 345 | 21% helix, 15% strand | A0A2U2M038 |
| I | Crrna | rna | 34 | — | — |
| J | CTR2 | rna | 28 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1024 | 0.84 | 0.86 | 85 | empty |
| 2 | 371 | 0.84 | 0.94 | 44 | empty |
| 3 | 1129 | 0.84 | 0.85 | 133 | empty |
| 4 | 238 | 0.82 | 0.96 | 32 | empty |
| 5 | 786 | 0.82 | 0.85 | 52 | empty |
Interfaces
35 interfaces between chains.
- A–B · 1638 Ų buried · 9 hydrogen bonds · protein-protein
- E–B · 1597 Ų buried · 19 hydrogen bonds · protein-protein
- B–I · 1589 Ų buried · 41 hydrogen bonds · protein-nucleic
- G–H · 1546 Ų buried · 16 hydrogen bonds · protein-protein
- G–F · 1470 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6IFZ · Type III-A Csm complex, Cryo-EM structure of Csm-CTR2-ssDNA complex · 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
- Every structure of UniProt A0A2U2M0F3
- Every structure of UniProt A0A2U2M049
- Every structure of UniProt A0A2U2M035
- Every structure of UniProt A0A2U2M037
- Every structure of UniProt A0A2U2M038
- Elsewhere: RCSB PDB 6IFZ · PDBe 6IFZ · UniProt A0A2U2M0F3 · UniProt A0A2U2M049 · UniProt A0A2U2M035 · UniProt A0A2U2M037 · UniProt A0A2U2M038
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