Research workbench
Crystal structure of FcRn at pH3
Analyse Crystal structure of FcRn at pH3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6C97
- Type
- protein
- Length
- 728 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Homo sapiens
- Molecule
- IgG receptor FcRn large subunit p51; Beta-2-microglobulin
- UniProt
- P55899, P61769
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · resolution 2 · 2 distinct chains · 19% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | IgG receptor FcRn large subunit p51 | protein | 265 | 26% helix, 42% strand | P55899 |
| B, D | Beta-2-microglobulin | protein | 99 | 0% helix, 49% strand | P61769 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1027 | 0.74 | 0.77 | 112 | empty |
| 2 | 182 | 0.49 | 0.77 | 32 | GOL |
| 3 | 182 | 0.45 | 0.74 | 30 | empty |
| 4 | 155 | 0.43 | 0.75 | 23 | empty |
| 5 | 114 | 0.37 | 0.74 | 20 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1478 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 1447 Ų buried · 22 hydrogen bonds · protein-protein
- A–C · 982 Ų buried · 19 hydrogen bonds · protein-protein
- B–C · 89 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 81 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 6C97 · Crystal structure of fcrn at PH3 · the same entry in another collection · chain D against D, TM-score 1.00
- P55899 · AlphaFold monomer V2.0 prediction for IgG receptor fcrn large subunit P51 (P55899) · a predicted model of the same protein · chain A against A, TM-score 1.00
- P61769 · AlphaFold monomer V2.0 prediction for beta-2-microglobulin (P61769) · a predicted model of the same protein · chain D against A, TM-score 0.98
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 P55899
- Every structure of UniProt P61769
- Elsewhere: RCSB PDB 6C97 · PDBe 6C97 · UniProt P55899 · UniProt P61769
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