Research workbench
The structure of the tripartite complex between ospe, the C-terminal domains of factor H and C3DG
Analyse The structure of the tripartite complex between ospe, the C-terminal domains of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NBQ
- Type
- protein
- Length
- 1,504 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Complement C3; Complement factor H; Outer surface protein E; Outer surface protein…
- UniProt
- P01024, P08603, Q45001
- Pockets
- 16 · best druggability 0.82
Structure
x-ray diffraction · 9 distinct chains · 41% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Complement C3 | protein | 290 | 63% helix, 2% strand | P01024 |
| B | Complement C3 | protein | 293 | 63% helix, 2% strand | P01024 |
| C | Complement C3 | protein | 293 | 63% helix, 2% strand | P01024 |
| D | Complement factor H | protein | 127 | 8% helix, 36% strand | P08603 |
| E | Complement factor H | protein | 122 | 5% helix, 34% strand | P08603 |
| F | Complement factor H | protein | 120 | 5% helix, 38% strand | P08603 |
| G | Outer surface protein E | protein | 129 | 13% helix, 53% strand | Q45001 |
| H | Outer surface protein E,OUTER surface protein E | protein | 5 | 0% helix, 0% strand | Q45001 |
| I | Outer surface protein E | protein | 125 | 14% helix, 56% strand | Q45001 |
Pockets
16 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 764 | 0.82 | 0.86 | 101 | empty |
| 2 | 259 | 0.75 | 0.88 | 32 | empty |
| 3 | 294 | 0.72 | 0.86 | 44 | empty |
| 4 | 1198 | 0.69 | 0.74 | 93 | empty |
| 5 | 225 | 0.63 | 0.82 | 24 | empty |
Interfaces
12 interfaces between chains.
- A–D · 902 Ų buried · 17 hydrogen bonds · protein-protein
- C–F · 898 Ų buried · 16 hydrogen bonds · protein-protein
- B–E · 887 Ų buried · 18 hydrogen bonds · protein-protein
- D–G · 773 Ų buried · 16 hydrogen bonds · protein-protein
- F–I · 705 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 15 disulfide (disulfide).
Compared structures
- 5NBQ · The structure of the tripartite complex between OspE, the C-terminal domains of factor H… · the same entry in another collection · chain I against I, TM-score 1.00
- P01024 · AlphaFold monomer V2.0 prediction for complement C3 (P01024) · a predicted model of the same protein · chain A 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 P08603
- Every structure of UniProt Q45001
- Elsewhere: RCSB PDB 5NBQ · PDBe 5NBQ · UniProt P01024 · UniProt P08603 · UniProt Q45001
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