Research workbench
I33M (I3.2 mutant from CH103 lineage)
Analyse I33M (I3.2 mutant from CH103 lineage) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VPY
- Type
- protein
- Length
- 851 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- I33M light chain; I33M heavy chain
- UniProt
- Q8N355, Q6GMX6
- Ligands
- CL
- Pockets
- 6 · best druggability 0.75
Structure
x-ray diffraction · 4 distinct chains · 8% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | I33M light chain | protein | 208 | 8% helix, 50% strand | Q8N355 |
| A | I33M heavy chain | protein | 216 | 7% helix, 55% strand | Q6GMX6 |
| H | I33M heavy chain | protein | 218 | 7% helix, 55% strand | Q6GMX6 |
| L | I33M light chain | protein | 209 | 8% helix, 51% strand | Q8N355 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1121 | 0.75 | 0.78 | 113 | empty |
| 2 | 469 | 0.65 | 0.77 | 48 | empty |
| 3 | 256 | 0.61 | 0.80 | 39 | GOL |
| 4 | 222 | 0.55 | 0.78 | 29 | empty |
| 5 | 102 | 0.34 | 0.73 | 25 | empty |
Interfaces
5 interfaces between chains.
- H–L · 1793 Ų buried · 14 hydrogen bonds · protein-protein
- B–A · 1769 Ų buried · 11 hydrogen bonds · protein-protein
- A–L · 305 Ų buried · 4 hydrogen bonds · protein-protein
- B–L · 188 Ų buried · 1 hydrogen bond · protein-protein
- B–H · 178 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6VPY · I33M (I3.2 mutant from CH103 Lineage) · the same entry in another collection · chain B against B, 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 Q8N355
- Every structure of UniProt Q6GMX6
- Elsewhere: RCSB PDB 6VPY · PDBe 6VPY · UniProt Q8N355 · UniProt Q6GMX6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.