Research workbench
Structural basis for recognition of mutant self by a tumor- specific, MHC class II-restricted TCR
Analyse Structural basis for recognition of mutant self by a tumor- specific, MHC class… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2IAN
- Type
- protein
- Length
- 3,259 residues
- Chains
- 20
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HLA class II histocompatibility antigen, dr alpha chain; HLA class II histocompatibility…
- EC
- 5.3.1.1
- UniProt
- P01903, P04229, P60174, P01848, P01850
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 9 distinct chains · 12% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | HLA class II histocompatibility antigen, dr alpha chain | protein | 178 | 13% helix, 45% strand | P01903 |
| B | HLA class II histocompatibility antigen, DRB1-1 beta chain | protein | 181 | 19% helix, 50% strand | P04229 |
| C, H, M, R | 15-mer peptide from triosephosphate isomerase (EC 5.3.1.1) | protein | 15 | 0% helix, 7% strand | P60174 |
| D, I, N, S | CD4+ T cell receptor E8 alpha chain | protein | 198 | 3% helix, 48% strand | P01848 |
| E, O, T | CD4+ T cell receptor E8 beta chain | protein | 238 | 7% helix, 50% strand | P01850 |
| F, K, P | HLA class II histocompatibility antigen, dr alpha chain | protein | 179 | 13% helix, 46% strand | P01903 |
| G | HLA class II histocompatibility antigen, DRB1-1 beta chain | protein | 182 | 20% helix, 46% strand | P04229 |
| J | CD4+ T cell receptor E8 beta chain | protein | 239 | 8% helix, 50% strand | P01850 |
| L, Q | HLA class II histocompatibility antigen, DRB1-1 beta chain | protein | 188 | 19% helix, 46% strand | P04229 |
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 982 | 0.81 | 0.82 | 103 | empty |
| 2 | 1011 | 0.80 | 0.82 | 91 | empty |
| 3 | 1032 | 0.80 | 0.82 | 111 | empty |
| 4 | 952 | 0.80 | 0.82 | 98 | empty |
| 5 | 892 | 0.68 | 0.75 | 76 | empty |
Interfaces
55 interfaces between chains.
- K–L · 2546 Ų buried · 46 hydrogen bonds · protein-protein
- P–Q · 2545 Ų buried · 42 hydrogen bonds · protein-protein
- F–G · 2541 Ų buried · 44 hydrogen bonds · protein-protein
- A–B · 2478 Ų buried · 41 hydrogen bonds · protein-protein
- D–E · 2354 Ų buried · 26 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 32 disulfide (disulfide).
Compared structures
- 2IAN · Structural basis for recognition of mutant self by a tumor-specific, MHC class… · the same entry in another collection · chain K against K, 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 P01903
- Every structure of UniProt P04229
- Every structure of UniProt P60174
- Every structure of UniProt P01848
- Every structure of UniProt P01850
- Elsewhere: RCSB PDB 2IAN · PDBe 2IAN · UniProt P01903 · UniProt P04229 · UniProt P60174 · UniProt P01848 · UniProt P01850
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.