Research workbench
Poliovirus polymerase elongation complex (R5+2_FORM)
Analyse Poliovirus polymerase elongation complex (R5+2_FORM) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4K4W
- Type
- protein + RNA
- Length
- 995 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-directed RNA polymerase 3D-pol; RNA (5'- R(P*GP*GP*GP*AP*GP*AP*UP*GP*AP*AP*AP*GP*UP*CP…
- EC
- 2.7.7.48
- UniProt
- P03300
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | RNA-directed RNA polymerase 3D-pol (EC 2.7.7.48) | protein | 462 | 40% helix, 16% strand | P03300 |
| B, F | RNA (5'- R(P*GP*GP*GP*AP*GP*AP*UP*GP*AP*AP*AP*GP*UP*CP*UP*CP*CP*AP*GP*GP*UP*CP *UP*CP*UP*CP*UP*CP*GP*UP*CP*GP*AP*AP*A)-3') | rna | 21 | — | — |
| C | RNA (5'- R(*UP*GP*UP*UP*CP*GP*AP*CP*GP*AP*GP*AP*GP*AP*GP*AP*CP*C)-3') | rna | 14 | — | — |
| G | RNA (5'- R(*UP*GP*UP*UP*CP*GP*AP*CP*GP*AP*GP*AP*GP*AP*GP*AP*CP*C)-3') | rna | 15 | — | — |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1152 | 0.83 | 0.84 | 96 | empty |
| 2 | 699 | 0.82 | 0.87 | 66 | empty |
| 3 | 229 | 0.70 | 0.86 | 32 | empty |
| 4 | 215 | 0.70 | 0.87 | 32 | empty |
| 5 | 72 | 0.49 | 0.84 | 18 | empty |
Interfaces
6 interfaces between chains.
- E–F · 1409 Ų buried · 26 hydrogen bonds · protein-nucleic
- A–B · 1392 Ų buried · 25 hydrogen bonds · protein-nucleic
- E–G · 785 Ų buried · 11 hydrogen bonds · protein-nucleic
- A–C · 779 Ų buried · 11 hydrogen bonds · protein-nucleic
- G–F · 699 Ų buried · 59 hydrogen bonds · nucleic-nucleic
Compared structures
- 4K4W · Poliovirus polymerase elongation complex (r5+2_form) · 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 P03300
- Elsewhere: RCSB PDB 4K4W · PDBe 4K4W · UniProt P03300
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