MolNFT v1 · #38163 · protein
Crystal structure of efb-C / C3D complex
2GOX · Complement C3: “Crystal structure of efb-C / C3D complex”. X-ray diffraction, 7 pockets (best druggability 0.84). MolNFT v1 #38163 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2GOX
- Type
- protein
- Length
- 724 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Complement C3; Fibrinogen-binding protein
- UniProt
- P01024, P68799
- Pockets
- 7 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 67% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Complement C3 | protein | 297 | 62% helix, 2% strand | P01024 |
| B, D | Fibrinogen-binding protein | protein | 65 | 86% helix, 0% strand | P68799 |
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 237 | 0.84 | 0.96 | 41 | empty |
| 2 | 655 | 0.71 | 0.79 | 68 | empty |
| 3 | 269 | 0.58 | 0.78 | 27 | empty |
| 4 | 247 | 0.53 | 0.76 | 33 | empty |
| 5 | 95 | 0.44 | 0.79 | 15 | empty |
Interfaces
3 interfaces between chains.
- C–D · 905 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 890 Ų buried · 9 hydrogen bonds · protein-protein
- A–C · 598 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 2GOX · Crystal structure of Efb-C / C3d Complex · the same entry in another collection · chain D against D, TM-score 1.00
- P68799 · AlphaFold monomer V2.0 prediction for fibrinogen-binding protein (P68799) · a predicted model of the same protein · chain D against A, TM-score 0.95
- P01024 · AlphaFold monomer V2.0 prediction for complement C3 (P01024) · a predicted model of the same protein · chain C against A, TM-score 0.90
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 P68799
- Elsewhere: RCSB PDB 2GOX · PDBe 2GOX · UniProt P01024 · UniProt P68799
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