Research workbench
Crystal structure of the RB49 GP17 nuclease domain
Analyse Crystal structure of the RB49 GP17 nuclease domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3C6H
- Type
- protein
- Length
- 372 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Terminase large subunit
- UniProt
- Q9T1C3
- Ligands
- MG
- Pockets
- 1 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Terminase large subunit | protein | 182 | 32% helix, 19% strand | Q9T1C3 |
| B | Terminase large subunit | protein | 190 | 34% helix, 20% strand | Q9T1C3 |
Ligands and binding sites
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 546 | 0.67 | 0.77 | 46 | empty |
Interfaces
1 interface between chains.
- A–B · 402 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 3C6H · Crystal Structure of the RB49 gp17 nuclease domain · 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 Q9T1C3
- Elsewhere: RCSB PDB 3C6H · PDBe 3C6H · UniProt Q9T1C3
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