MolNFT v1 · #168855 · protein
Crystal structure of the second form of the co-factor complex of NSP7 and the C-terminal domain of NSP8 from SARS cov-2
6WTC · Non-structural protein 7: “Crystal structure of the second form of the co-factor complex of NSP7 and the C-terminal domain of NSP8 from…”. X-ray diffraction, 1 pocket (best druggability 0.69). MolNFT v1 #168855 on GenesisL1: 3D…
- PDB
- 6WTC
- Type
- protein
- Length
- 378 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Non-structural protein 7; Non-structural protein 8
- UniProt
- P0DTD1
- Pockets
- 1 · best druggability 0.69
Structure
x-ray diffraction · 4 distinct chains · 52% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Non-structural protein 7 | protein | 73 | 74% helix, 0% strand | P0DTD1 |
| B | Non-structural protein 8 | protein | 116 | 37% helix, 26% strand | P0DTD1 |
| C | Non-structural protein 7 | protein | 73 | 78% helix, 0% strand | P0DTD1 |
| D | Non-structural protein 8 | protein | 116 | 38% helix, 26% strand | P0DTD1 |
Ligands and binding sites
- ACY · Acetic acid · additive · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 644 | 0.69 | 0.77 | 54 | ACY |
Interfaces
5 interfaces between chains.
- C–D · 1475 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 1435 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 177 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 176 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 132 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6WTC · Crystal Structure of the Second Form of the Co-factor Complex of NSP7 and the C-terminal… · 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 P0DTD1
- Elsewhere: RCSB PDB 6WTC · PDBe 6WTC · UniProt P0DTD1
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