Research workbench
Crystal structure of the hepatitis delta virus gemonic ribozyme precursor, with C75U mutaion, in cobalt hexammine solution
Analyse Crystal structure of the hepatitis delta virus gemonic ribozyme precursor, with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1SJF
- Type
- protein + RNA
- Length
- 169 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hepatitis delta virus ribozyme; U1 small nuclear ribonucleoprotein a
- UniProt
- P09012
- Ligands
- NCO
- Pockets
- 4 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 32% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Hepatitis delta virus ribozyme | rna | 74 | — | — |
| A | U1 small nuclear ribonucleoprotein a | protein | 95 | 32% helix, 26% strand | P09012 |
Ligands and binding sites
- NCO · Cobalt hexammine(iii) · ligand · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 493 | 0.65 | 0.77 | 36 | NCO |
| 2 | 532 | 0.61 | 0.75 | 30 | empty |
| 3 | 258 | 0.46 | 0.73 | 18 | empty |
| 4 | 110 | 0.45 | 0.79 | 12 | NCO |
Interfaces
1 interface between chains.
- B–A · 952 Ų buried · 33 hydrogen bonds · protein-nucleic
Compared structures
- 1SJF · Crystal Structure of the Hepatitis Delta Virus Gemonic Ribozyme Precursor, with C75U… · the same entry in another collection · chain B against B, 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 P09012
- Elsewhere: RCSB PDB 1SJF · PDBe 1SJF · UniProt P09012
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.