Research workbench
Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by cryo-EM
Analyse Model of Phe-tRNA(Phe) in the ribosomal pre-accommodated state revealed by… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3EP2
- Type
- protein
- Length
- 657 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 9.0
- Source
- Escherichia coli K12
- Molecule
- Elongation factor Tu; 30S ribosomal protein S12; 50S ribosomal protein L11
- UniProt
- P0A6N1, P0A7S3, P0A7J7
- Pockets
- 4 · best druggability 0.45
Structure
electron microscopy · resolution 9.0 · 3 distinct chains · 0% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| X | Elongation factor Tu | protein | 393 | 0% helix, 0% strand | P0A6N1 |
| L | 30S ribosomal protein S12 | protein | 123 | 0% helix, 0% strand | P0A7S3 |
| I | 50S ribosomal protein L11 | protein | 141 | 0% helix, 0% strand | P0A7J7 |
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 165 | 0.45 | 0.73 | 45 | empty |
| 2 | 108 | 0.38 | 0.73 | 30 | empty |
| 3 | 74 | 0.36 | 0.75 | 21 | empty |
| 4 | 76 | 0.35 | 0.74 | 25 | empty |
Compared structures
- 3EP2 · Model of phe-TRNA(PHE) in the ribosomal pre-accommodated state revealed by cryo-EM · the same entry in another collection · chain I against I, TM-score 1.00
- P0A7S3 · AlphaFold monomer V2.0 prediction for 30S ribosomal protein S12 (P0A7S3) · a predicted model of the same protein · chain L against A, TM-score 0.95
- P0A7J7 · AlphaFold monomer V2.0 prediction for 50S ribosomal protein L11 (P0A7J7) · a predicted model of the same protein · chain I against A, TM-score 0.78
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 P0A6N1
- Every structure of UniProt P0A7S3
- Every structure of UniProt P0A7J7
- Elsewhere: RCSB PDB 3EP2 · PDBe 3EP2 · UniProt P0A6N1 · UniProt P0A7S3 · UniProt P0A7J7
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