Research workbench
Crystal structure of complement factor D mutant R202A after conventional refinement
Analyse Crystal structure of complement factor D mutant R202A after conventional… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4CBN
- Type
- protein
- Length
- 456 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Complement factor D
- EC
- 3.4.21.46
- UniProt
- P00746
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 8% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Complement factor D (EC 3.4.21.46) | protein | 228 | 8% helix, 36% strand | P00746 |
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
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 663 | 0.69 | 0.77 | 57 | empty |
| 2 | 142 | 0.51 | 0.80 | 33 | empty |
| 3 | 87 | 0.35 | 0.75 | 17 | empty |
| 4 | 72 | 0.33 | 0.75 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 479 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4CBN · Crystal structure of Complement Factor D mutant R202A after conventional refinement · the same entry in another collection · chain A against A, TM-score 1.00
- P00746 · AlphaFold monomer V2.0 prediction for complement factor D (P00746) · a predicted model of the same protein · chain A 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 P00746
- Elsewhere: RCSB PDB 4CBN · PDBe 4CBN · UniProt P00746
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.