Research workbench
Modified E. COLI tmrna in the resume state with the tRNA-like domain in the ribosomal P site interacting with the smpb
Analyse Modified E. COLI tmrna in the resume state with the tRNA-like domain in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3IZ4
- Type
- protein + RNA
- Length
- 495 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Modified E. COLI transfer-messenger RNA; Ssra-binding protein
- UniProt
- Q8RR57
- Pockets
- 20 · best druggability 0.68
Structure
electron microscopy · 2 distinct chains · 15% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Modified E. COLI transfer-messenger RNA | rna | 377 | — | — |
| B | Ssra-binding protein | protein | 118 | 15% helix, 45% strand | Q8RR57 |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 599 | 0.68 | 0.78 | 28 | empty |
| 2 | 703 | 0.65 | 0.75 | 29 | empty |
| 3 | 583 | 0.65 | 0.77 | 27 | empty |
| 4 | 385 | 0.56 | 0.75 | 21 | empty |
| 5 | 297 | 0.56 | 0.77 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1766 Ų buried · 61 hydrogen bonds · protein-nucleic
Compared structures
- 3IZ4 · Modified E. coli tmRNA in the resume state with the tRNA-like domain in the ribosomal P… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8RR57 · AlphaFold monomer V2.0 prediction for ssra-binding protein (Q8RR57) · a predicted model of the same protein · chain B against A, TM-score 0.82
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 Q8RR57
- Elsewhere: RCSB PDB 3IZ4 · PDBe 3IZ4 · UniProt Q8RR57
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