Research workbench
Crystal structure of a product state assembly of HCV NS5B genotype 2A jfh-1 isolate with beta hairpin loop deletion bound to primer- template RNA with 3'-dg
Analyse Crystal structure of a product state assembly of HCV NS5B genotype 2A jfh-1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4E78
- Type
- protein + RNA
- Length
- 548 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-R(*U*AP*CP*CP*GP*(GDO))-3'; Protein (RNA-directed RNA polymerase)
- EC
- 2.7.7.48
- UniProt
- Q99IB8
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 48% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| T, P | 5'-R(*U*AP*CP*CP*GP*(GDO))-3' | rna | 5 | — | — |
| A | Protein (RNA-directed RNA polymerase) (EC 2.7.7.48) | protein | 538 | 48% helix, 14% strand | Q99IB8 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 936 | 0.78 | 0.81 | 96 | empty |
| 2 | 229 | 0.60 | 0.81 | 30 | empty |
| 3 | 137 | 0.42 | 0.75 | 29 | empty |
| 4 | 63 | 0.37 | 0.78 | 15 | empty |
| 5 | 78 | 0.34 | 0.75 | 18 | empty |
Interfaces
3 interfaces between chains.
- P–A · 587 Ų buried · 9 hydrogen bonds · protein-nucleic
- T–A · 533 Ų buried · 10 hydrogen bonds · protein-nucleic
- T–P · 221 Ų buried · 19 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 modified, 1 disulfide (nucleotide modification, disulfide).
Compared structures
- 4E78 · Crystal structure of a product state assembly of HCV NS5B genotype 2a JFH-1 isolate with… · the same entry in another collection · chain T against T, 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 Q99IB8
- Elsewhere: RCSB PDB 4E78 · PDBe 4E78 · UniProt Q99IB8
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.