Research workbench
Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex
Analyse Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RJ3
- Type
- protein
- Length
- 1,237 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Complement C3D fragment; Complement factor H-related protein 1
- UniProt
- P01024, Q03591
- Pockets
- 13 · best druggability 0.81
Structure
x-ray diffraction · 5 distinct chains · 41% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Complement C3D fragment | protein | 292 | 65% helix, 2% strand | P01024 |
| B | Complement C3D fragment | protein | 300 | 61% helix, 2% strand | P01024 |
| D | Complement factor H-related protein 1 | protein | 125 | 5% helix, 38% strand | Q03591 |
| E | Complement factor H-related protein 1 | protein | 121 | 6% helix, 38% strand | Q03591 |
| F | Complement factor H-related protein 1 | protein | 107 | 0% helix, 39% strand | Q03591 |
Ligands and binding sites
- GOL · Glycerol · additive · 4 copies · chains A, B, D, C, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1013 | 0.81 | 0.83 | 101 | GOL |
| 2 | 1003 | 0.75 | 0.78 | 86 | empty |
| 3 | 916 | 0.73 | 0.77 | 85 | empty |
| 4 | 457 | 0.61 | 0.75 | 59 | empty |
| 5 | 98 | 0.57 | 0.86 | 18 | empty |
Interfaces
10 interfaces between chains.
- A–D · 924 Ų buried · 11 hydrogen bonds · protein-protein
- B–F · 817 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 667 Ų buried · 5 hydrogen bonds · protein-protein
- B–D · 631 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 387 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 disulfide (disulfide).
Compared structures
- 3RJ3 · Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex · the same entry in another collection · chain F against F, TM-score 1.00
- Q03591 · AlphaFold monomer V2.0 prediction for complement factor H-related protein 1 (Q03591) · a predicted model of the same protein · chain E against A, TM-score 0.96
- P01024 · AlphaFold monomer V2.0 prediction for complement C3 (P01024) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 P01024
- Every structure of UniProt Q03591
- Elsewhere: RCSB PDB 3RJ3 · PDBe 3RJ3 · UniProt P01024 · UniProt Q03591
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