Research workbench
U1A spliceosomal PROTEIN/HEPATITIS delta virus genomic ribozyme complex
Analyse U1A spliceosomal PROTEIN/HEPATITIS delta virus genomic ribozyme complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1DRZ
- Type
- protein + RNA
- Length
- 167 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (hepatitis delta virus genomic ribozyme); Protein (U1 small ribonucleoprotein a)
- UniProt
- P09012
- Ligands
- MG, SO4
- Pockets
- 3 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | RNA (hepatitis delta virus genomic ribozyme) | rna | 72 | — | — |
| A | Protein (U1 small ribonucleoprotein a) | protein | 95 | 31% helix, 25% strand | P09012 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 386 | 0.67 | 0.81 | 24 | empty |
| 2 | 443 | 0.59 | 0.76 | 25 | empty |
| 3 | 119 | 0.44 | 0.77 | 20 | empty |
Interfaces
1 interface between chains.
- B–A · 964 Ų buried · 34 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 1DRZ · U1A spliceosomal PROTEIN/HEPATITIS delta virus genomic ribozyme complex · 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 1DRZ · PDBe 1DRZ · UniProt P09012
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