Research workbench
Bacteriophage qbeta coat protein in complex with RNA operator hairpin
Analyse Bacteriophage qbeta coat protein in complex with RNA operator hairpin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4L8H
- Type
- protein + RNA
- Length
- 264 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coat protein; RNA operator hairpin
- UniProt
- P03615
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 19% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Coat protein | protein | 121 | 18% helix, 40% strand | P03615 |
| B | Coat protein | protein | 123 | 20% helix, 42% strand | P03615 |
| R | RNA operator hairpin | rna | 20 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains A, B, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 544 | 0.72 | 0.81 | 33 | ZN |
| 2 | 62 | 0.40 | 0.81 | 17 | empty |
Interfaces
3 interfaces between chains.
- A–B · 3464 Ų buried · 44 hydrogen bonds · protein-protein
- A–R · 647 Ų buried · 16 hydrogen bonds · protein-nucleic
- B–R · 436 Ų buried · 13 hydrogen bonds · protein-nucleic
Compared structures
- 4L8H · Bacteriophage Qbeta coat protein in complex with RNA operator hairpin · 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 P03615
- Elsewhere: RCSB PDB 4L8H · PDBe 4L8H · UniProt P03615
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