MolNFT v2 · #212259 · protein
Structure of C5a-pep bound mouse C5aR1 in complex with Go
8HPT · C5a anaphylatoxin chemotactic receptor 1: “Structure of C5a-pep bound mouse C5aR1 in complex with Go”. Electron microscopy at 3.39, 15 pockets (best druggability 0.80). MolNFT v2 #212259 on GenesisL1: 3D structure, binding sites and…
- PDB
- 8HPT
- Type
- protein
- Length
- 1,095 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.39
- Source
- Homo sapiens; Mus musculus; SYNTHETIC CONSTRUCT
- Molecule
- C5a anaphylatoxin chemotactic receptor 1; Mea-lys-pro-zal-alc-dar; Guanine…
- UniProt
- P30993, P09471, P62873, P59768
- Pockets
- 15 · best druggability 0.80
Structure
electron microscopy · resolution 3.39 · 6 distinct chains · 33% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | C5a anaphylatoxin chemotactic receptor 1 | protein | 255 | 80% helix, 0% strand | P30993 |
| D | Mea-lys-pro-zal-alc-dar | protein | 6 | 0% helix, 0% strand | — |
| B | Guanine nucleotide-binding protein G(o) subunit alpha | protein | 206 | 44% helix, 17% strand | P09471 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 7% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 56 | 55% helix, 0% strand | P59768 |
| H | Antibody fragment ScFv16 | protein | 234 | 5% helix, 45% strand | — |
Pockets
15 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 798 | 0.80 | 0.84 | 68 | empty |
| 2 | 81 | 0.67 | 0.92 | 18 | empty |
| 3 | 211 | 0.66 | 0.84 | 40 | empty |
| 4 | 642 | 0.66 | 0.76 | 76 | empty |
| 5 | 173 | 0.63 | 0.84 | 21 | empty |
Interfaces
6 interfaces between chains.
- C–G · 1969 Ų buried · 6 hydrogen bonds · protein-protein
- B–C · 1085 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 999 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 594 Ų buried · 9 hydrogen bonds · protein-protein
- B–H · 465 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified, 2 disulfide, 1 d-amino (nonstandard, disulfide, D-amino acid).
Compared structures
- P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain C against A, TM-score 0.99
- P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.91
- P30993 · AlphaFold monomer V2.0 prediction for C5A anaphylatoxin chemotactic receptor 1 (P30993) · a predicted model of the same protein · chain A against A, TM-score 0.90
- P09471 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(O) subunit… · a predicted model of the same protein · chain B against A, TM-score 0.79
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 P30993
- Every structure of UniProt P09471
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 8HPT · PDBe 8HPT · UniProt P30993 · UniProt P09471 · UniProt P62873 · UniProt P59768
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.