Research workbench
Human complement membrane attack proteins share a common fold with bacterial cytolysins
Analyse Human complement membrane attack proteins share a common fold with bacterial… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2RD7
- Type
- protein
- Length
- 487 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Complement component C8 alpha chain; Complement component C8 gamma chain
- UniProt
- P07357, P07360
- Ligands
- CL
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Complement component C8 alpha chain | protein | 328 | 31% helix, 32% strand | P07357 |
| C | Complement component C8 gamma chain | protein | 159 | 14% helix, 39% strand | P07360 |
Ligands and binding sites
- CL · Chloride ion · ion · chains C
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 | 134 | 0.58 | 0.84 | 24 | empty |
| 2 | 177 | 0.57 | 0.81 | 24 | empty |
| 3 | 66 | 0.40 | 0.80 | 17 | empty |
| 4 | 65 | 0.30 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–C · 1057 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 2RD7 · Human Complement Membrane Attack Proteins Share a Common Fold with Bacterial Cytolysins · the same entry in another collection · chain A against A, TM-score 1.00
- P07360 · AlphaFold monomer V2.0 prediction for complement component C8 gamma chain (P07360) · a predicted model of the same protein · chain C against A, TM-score 0.98
- P07357 · AlphaFold monomer V2.0 prediction for complement component C8 alpha chain (P07357) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 P07357
- Every structure of UniProt P07360
- Elsewhere: RCSB PDB 2RD7 · PDBe 2RD7 · UniProt P07357 · UniProt P07360
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