Research workbench
Crystal structure of CALCIUM2+-free wild-type CD23 lectin domain (crystal form F)
Analyse Crystal structure of CALCIUM2+-free wild-type CD23 lectin domain (crystal form… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4J6P
- Type
- protein
- Length
- 526 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Low affinity immunoglobulin epsilon Fc receptor
- UniProt
- P06734
- Pockets
- 1 · best druggability 0.78
Structure
x-ray diffraction · 4 distinct chains · 14% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Low affinity immunoglobulin epsilon Fc receptor | protein | 128 | 15% helix, 38% strand | P06734 |
| B | Low affinity immunoglobulin epsilon Fc receptor | protein | 130 | 15% helix, 36% strand | P06734 |
| C | Low affinity immunoglobulin epsilon Fc receptor | protein | 135 | 14% helix, 37% strand | P06734 |
| D | Low affinity immunoglobulin epsilon Fc receptor | protein | 133 | 14% helix, 36% strand | P06734 |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 993 | 0.78 | 0.80 | 83 | empty |
Interfaces
5 interfaces between chains.
- C–D · 754 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 562 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 561 Ų buried · 8 hydrogen bonds · protein-protein
- B–D · 493 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 489 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 13 disulfide (disulfide).
Compared structures
- 4J6P · Crystal structure of calcium2+-free wild-type CD23 lectin domain (crystal form F) · the same entry in another collection · chain D against D, TM-score 1.00
- P06734 · AlphaFold monomer V2.0 prediction for low affinity immunoglobulin epsilon Fc receptor… · a predicted model of the same protein · chain B 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 P06734
- Elsewhere: RCSB PDB 4J6P · PDBe 4J6P · UniProt P06734
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