MolNFT v1 · #92722 · protein + RNA
Crystal structure of marburg virus VP35 RNA binding domain bound to 12-bp dsrna
4GHA · Polymerase cofactor VP35: “Crystal structure of marburg virus VP35 RNA binding domain bound to 12-bp dsrna”. X-ray diffraction, 7 pockets (best druggability 0.72). MolNFT v1 #92722 on GenesisL1: 3D structure, binding sites and…
- PDB
- 4GHA
- Type
- protein + RNA
- Length
- 512 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polymerase cofactor VP35; RNA (5'-R(*CP*UP*AP*GP*AP*CP*GP*UP*CP*UP*AP*G)-3')
- UniProt
- P35259
- Pockets
- 7 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 48% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Polymerase cofactor VP35 | protein | 122 | 48% helix, 15% strand | P35259 |
| I, J | RNA (5'-R(*CP*UP*AP*GP*AP*CP*GP*UP*CP*UP*AP*G)-3') | rna | 12 | — | — |
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 153 | 0.72 | 0.91 | 33 | empty |
| 2 | 65 | 0.67 | 0.95 | 20 | empty |
| 3 | 92 | 0.60 | 0.88 | 23 | empty |
| 4 | 61 | 0.43 | 0.82 | 18 | empty |
| 5 | 90 | 0.32 | 0.73 | 19 | empty |
Interfaces
13 interfaces between chains.
- I–J · 595 Ų buried · 64 hydrogen bonds · nucleic-nucleic
- A–G · 369 Ų buried · 1 hydrogen bond · protein-protein
- C–E · 368 Ų buried · 1 hydrogen bond · protein-protein
- E–G · 326 Ų buried · 1 hydrogen bond · protein-protein
- A–I · 297 Ų buried · 1 hydrogen bond · protein-nucleic
Compared structures
- 4GHA · Crystal structure of Marburg virus VP35 RNA binding domain bound to 12-bp dsRNA · 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 P35259
- Elsewhere: RCSB PDB 4GHA · PDBe 4GHA · UniProt P35259
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