Research workbench
MS2 wild-type RNA stemloop complexed with an N87S mutant MS2 capsid
Analyse MS2 wild-type RNA stemloop complexed with an N87S mutant MS2 capsid in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2B2G
- Type
- protein + RNA
- Length
- 418 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP*UP*AP*CP*CP*CP*AP*UP*GP *U)-3'; Coat protein
- UniProt
- P03612
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP*UP*AP*CP*CP*CP*AP*UP*GP *U)-3' | rna | 16 | — | — |
| S | 5'-R(*AP*CP*AP*UP*GP*AP*GP*GP*AP*UP*UP*AP*CP*CP*CP*AP*UP*GP *U)-3' | rna | 15 | — | — |
| A, B, C | Coat protein | protein | 129 | 19% helix, 47% strand | P03612 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 396 | 0.69 | 0.82 | 41 | empty |
| 2 | 709 | 0.66 | 0.75 | 58 | empty |
| 3 | 469 | 0.62 | 0.75 | 49 | empty |
| 4 | 61 | 0.32 | 0.76 | 16 | empty |
Interfaces
5 interfaces between chains.
- A–B · 3330 Ų buried · 37 hydrogen bonds · protein-protein
- A–C · 515 Ų buried · 7 hydrogen bonds · protein-protein
- S–C · 461 Ų buried · 12 hydrogen bonds · protein-nucleic
- R–B · 460 Ų buried · 17 hydrogen bonds · protein-nucleic
- R–A · 434 Ų buried · 13 hydrogen bonds · protein-nucleic
Compared structures
- 2B2G · MS2 Wild-type RNA stemloop complexed with an N87S mutant MS2 capsid · the same entry in another collection · chain R against R, 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 2B2G · PDBe 2B2G · UniProt P03612
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