Research workbench
Crystal structure of non-phosphorylated form of rls phosphopeptide bound to HLA-A2 in complex with LILRB1
Analyse Crystal structure of non-phosphorylated form of rls phosphopeptide bound to… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6EWC
- Type
- protein
- Length
- 1,140 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- HLA class I histocompatibility antigen, a-2 alpha chain; Beta-2-microglobulin…
- UniProt
- P01892, P61769, Q8NC44, A0A0G2JQ44
- Pockets
- 16 · best druggability 0.83
Structure
x-ray diffraction · 4 distinct chains · 15% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | HLA class I histocompatibility antigen, a-2 alpha chain | protein | 276 | 26% helix, 39% strand | P01892 |
| B, F | Beta-2-microglobulin | protein | 99 | 0% helix, 52% strand | P61769 |
| C, G | Reticulophagy regulator 2 | protein | 9 | 0% helix, 0% strand | Q8NC44 |
| D, H | Leukocyte immunoglobulin-like receptor subfamily B member 1 | protein | 186 | 6% helix, 42% strand | A0A0G2JQ44 |
Pockets
16 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 904 | 0.83 | 0.84 | 87 | empty |
| 2 | 658 | 0.79 | 0.84 | 71 | empty |
| 3 | 864 | 0.75 | 0.79 | 69 | empty |
| 4 | 297 | 0.69 | 0.84 | 42 | empty |
| 5 | 95 | 0.45 | 0.80 | 22 | empty |
Interfaces
12 interfaces between chains.
- E–F · 1385 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1374 Ų buried · 19 hydrogen bonds · protein-protein
- E–G · 935 Ų buried · 15 hydrogen bonds · protein-protein
- A–C · 921 Ų buried · 14 hydrogen bonds · protein-protein
- A–E · 819 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 6EWC · Crystal structure of non-phosphorylated form of RLS PHOSPHOPEPTIDE BOUND TO HLA-A2 in… · the same entry in another collection · chain H against H, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q8NC44 · AlphaFold monomer V2.0 prediction for reticulophagy regulator 2 (Q8NC44) · a predicted model of the same protein · chain C against A, TM-score 0.31
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 P01892
- Every structure of UniProt P61769
- Every structure of UniProt Q8NC44
- Every structure of UniProt A0A0G2JQ44
- Elsewhere: RCSB PDB 6EWC · PDBe 6EWC · UniProt P01892 · UniProt P61769 · UniProt Q8NC44 · UniProt A0A0G2JQ44
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