MolNFT v1 · #164631 · protein
Improved high resolution structure of MHC class II complex
6T3Y · MHC class II alpha chain: “Improved high resolution structure of MHC class II complex”. X-ray diffraction, 3 pockets (best druggability 0.61). MolNFT v1 #164631 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6T3Y
- Type
- protein
- Length
- 379 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MHC class II alpha chain; MHC class II beta chain 2
- UniProt
- Q4U5Z6, B5BSA0
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 46% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MHC class II alpha chain | protein | 183 | 14% helix, 49% strand | Q4U5Z6 |
| B | MHC class II beta chain 2 | protein | 196 | 16% helix, 43% strand | B5BSA0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 218 | 0.61 | 0.81 | 33 | ACT |
| 2 | 157 | 0.42 | 0.74 | 19 | empty |
| 3 | 109 | 0.38 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 3070 Ų buried · 52 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 6T3Y · Improved High Resolution Structure of MHC Class II complex · 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 Q4U5Z6
- Every structure of UniProt B5BSA0
- Elsewhere: RCSB PDB 6T3Y · PDBe 6T3Y · UniProt Q4U5Z6 · UniProt B5BSA0
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