Research workbench
Crystal structure of lectin-like ox-LDL receptor 1 (C 1 2 1)
Analyse Crystal structure of lectin-like ox-LDL receptor 1 (C 1 2 1) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6TLA
- Type
- protein
- Length
- 395 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oxidized low-density lipoprotein receptor 1
- UniProt
- P78380
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 16% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oxidized low-density lipoprotein receptor 1 | protein | 132 | 16% helix, 33% strand | P78380 |
| B | Oxidized low-density lipoprotein receptor 1 | protein | 134 | 16% helix, 35% strand | P78380 |
| C | Oxidized low-density lipoprotein receptor 1 | protein | 129 | 16% helix, 34% strand | P78380 |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 468 | 0.74 | 0.83 | 51 | empty |
| 2 | 172 | 0.61 | 0.83 | 35 | empty |
| 3 | 73 | 0.42 | 0.80 | 20 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1012 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 488 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 32 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 6TLA · Crystal structure of lectin-like ox-LDL receptor 1 (C 1 2 1) · the same entry in another collection · chain A against A, TM-score 1.00
- P78380 · AlphaFold monomer V2.0 prediction for oxidized low-density lipoprotein receptor 1 (P78380) · a predicted model of the same protein · chain C against A, TM-score 0.99
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 P78380
- Elsewhere: RCSB PDB 6TLA · PDBe 6TLA · UniProt P78380
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