Research workbench
MS2-RNA hairpin (2THIOURACIL-5) complex
Analyse MS2-RNA hairpin (2THIOURACIL-5) complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2C4Y
- Type
- protein + RNA
- Length
- 417 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coat protein; 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP *SUR*AP*CP*CP*CP*AP*UP*GP*U)-3'
- UniProt
- P03612
- Pockets
- 5 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Coat protein | protein | 129 | 19% helix, 46% strand | P03612 |
| R | 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP *SUR*AP*CP*CP*CP*AP*UP*GP*U)-3' | rna | 17 | — | — |
| S | 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP *SUR*AP*CP*CP*CP*AP*UP*GP*U)-3' | rna | 13 | — | — |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 477 | 0.70 | 0.81 | 44 | empty |
| 2 | 458 | 0.64 | 0.78 | 50 | empty |
| 3 | 476 | 0.62 | 0.75 | 53 | empty |
| 4 | 106 | 0.32 | 0.72 | 15 | empty |
| 5 | 57 | 0.28 | 0.74 | 10 | empty |
Interfaces
5 interfaces between chains.
- A–B · 3320 Ų buried · 44 hydrogen bonds · protein-protein
- A–C · 520 Ų buried · 4 hydrogen bonds · protein-protein
- B–R · 433 Ų buried · 13 hydrogen bonds · protein-nucleic
- A–R · 427 Ų buried · 11 hydrogen bonds · protein-nucleic
- C–S · 350 Ų buried · 8 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 2C4Y · MS2-RNA hairpin (2THIOURACIL-5) 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 P03612
- Elsewhere: RCSB PDB 2C4Y · PDBe 2C4Y · UniProt P03612
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.