MolNFT v1 · #29939 · protein + RNA
IF2, IF1, and tRNA fitted to cryo-EM data of E. COLI 70S initiation complex
1ZO1 · P/I-site tRNA: “IF2, IF1, and tRNA fitted to cryo-EM data of E. COLI 70S initiation complex”. Electron microscopy, 9 pockets (best druggability 0.61). MolNFT v1 #29939 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1ZO1
- Type
- protein + RNA
- Length
- 648 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- P/I-site tRNA; Translation initiation factor 2; Translation initiation factor 1
- UniProt
- P0A705, P69222
- Pockets
- 9 · best druggability 0.61
Structure
electron microscopy · 3 distinct chains · 13% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| F | P/I-site tRNA | rna | 76 | — | — |
| I | Translation initiation factor 2 | protein | 501 | 13% helix, 25% strand | P0A705 |
| W | Translation initiation factor 1 | protein | 71 | 7% helix, 28% strand | P69222 |
Pockets
9 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 588 | 0.61 | 0.74 | 30 | empty |
| 2 | 406 | 0.59 | 0.76 | 24 | empty |
| 3 | 277 | 0.57 | 0.77 | 42 | empty |
| 4 | 122 | 0.54 | 0.82 | 28 | empty |
| 5 | 210 | 0.53 | 0.77 | 41 | empty |
Interfaces
2 interfaces between chains.
- I–W · 342 Ų buried · 1 hydrogen bond · protein-protein
- F–I · 183 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 1ZO1 · IF2, IF1, and tRNA fitted to cryo-EM data OF E. COLI 70S initiation complex · the same entry in another collection · chain F against F, TM-score 1.00
- P69222 · AlphaFold monomer V2.0 prediction for translation initiation factor if-1 (P69222) · a predicted model of the same protein · chain W against A, TM-score 0.91
- P0A705 · AlphaFold monomer V2.0 prediction for translation initiation factor if-2 (P0A705) · a predicted model of the same protein · chain I against A, TM-score 0.57
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 P0A705
- Every structure of UniProt P69222
- Elsewhere: RCSB PDB 1ZO1 · PDBe 1ZO1 · UniProt P0A705 · UniProt P69222
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