MolNFT v1 · #56527 · protein + RNA
Crystal structure of TAV2B/SIRNA complex
2ZI0 · Protein 2B: “Crystal structure of TAV2B/SIRNA complex”. X-ray diffraction, 4 pockets (best druggability 0.86). MolNFT v1 #56527 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2ZI0
- Type
- protein + RNA
- Length
- 153 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein 2B; RNA (5'- D(P*AP*GP*AP*CP*AP*GP*CP*AP*UP*UP*AP*UP*GP*CP*UP*GP*UP*CP*UP*UP*U)…
- UniProt
- Q8UYT3
- Pockets
- 4 · best druggability 0.86
Structure
x-ray diffraction · 3 distinct chains · 83% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein 2B | protein | 60 | 83% helix, 0% strand | Q8UYT3 |
| B | Protein 2B | protein | 55 | 84% helix, 0% strand | Q8UYT3 |
| C, D | RNA (5'- D(P*AP*GP*AP*CP*AP*GP*CP*AP*UP*UP*AP*UP*GP*CP*UP*GP*UP*CP*UP*UP*U)- 3') | rna | 19 | — | — |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1091 | 0.86 | 0.88 | 77 | empty |
| 2 | 74 | 0.33 | 0.75 | 12 | empty |
| 3 | 62 | 0.30 | 0.74 | 10 | empty |
| 4 | 56 | 0.28 | 0.73 | 10 | empty |
Interfaces
6 interfaces between chains.
- C–D · 914 Ų buried · 88 hydrogen bonds · nucleic-nucleic
- B–D · 767 Ų buried · 20 hydrogen bonds · protein-nucleic
- A–C · 764 Ų buried · 21 hydrogen bonds · protein-nucleic
- B–C · 499 Ų buried · 13 hydrogen bonds · protein-nucleic
- A–D · 495 Ų buried · 12 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 2ZI0 · Crystal structure of Tav2b/siRNA complex · 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 Q8UYT3
- Elsewhere: RCSB PDB 2ZI0 · PDBe 2ZI0 · UniProt Q8UYT3
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