Research workbench
Human Amylin1 Receptor in complex with Gs and salmon calcitonin peptide
Analyse Human Amylin1 Receptor in complex with Gs and salmon calcitonin peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7TYW
- Type
- protein
- Length
- 1,256 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.0
- Source
- Homo sapiens; Lama glama; SYNTHETIC CONSTRUCT
- Molecule
- Receptor activity-modifying protein 1; Calcitonin-1; Calcitonin receptor; Guanine…
- UniProt
- O60894, B5XGR7, P30988, P63092, P62873, P59768
- Ligands
- PLM, Y01, NAG
- Pockets
- 18 · best druggability 0.82
Structure
electron microscopy · resolution 3.0 · 7 distinct chains · 38% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| E | Receptor activity-modifying protein 1 | protein | 108 | 62% helix, 0% strand | O60894 |
| P | Calcitonin-1 | protein | 32 | 53% helix, 3% strand | B5XGR7 |
| R | Calcitonin receptor | protein | 370 | 64% helix, 4% strand | P30988 |
| A | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | protein | 227 | 45% helix, 18% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 8% helix, 40% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 54 | 48% helix, 0% strand | P59768 |
| N | nanobody 35 | protein | 127 | 5% helix, 34% strand | — |
Ligands and binding sites
- PLM · Palmitic acid · ligand · 2 copies · chains E, R
- Y01 · Cholesterol hemisuccinate · ligand · 2 copies · chains R
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 880 | 0.82 | 0.84 | 75 | empty |
| 2 | 1000 | 0.77 | 0.79 | 69 | empty |
| 3 | 996 | 0.76 | 0.78 | 63 | empty |
| 4 | 612 | 0.75 | 0.82 | 56 | empty |
| 5 | 718 | 0.71 | 0.78 | 74 | empty |
Interfaces
9 interfaces between chains.
- B–G · 2215 Ų buried · 12 hydrogen bonds · protein-protein
- P–R · 1950 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 1493 Ų buried · 27 hydrogen bonds · protein-protein
- E–R · 1284 Ų buried · 2 hydrogen bonds · protein-protein
- R–A · 1223 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 7TYW · Human AMYLIN1 receptor in complex with gs and salmon calcitonin peptide · the same entry in another collection · chain R against R, TM-score 1.00
- 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 B 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
- P30988 · AlphaFold monomer V2.0 prediction for calcitonin receptor (P30988) · a predicted model of the same protein · chain R against A, TM-score 0.87
- P63092 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(S) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.84
- O60894 · AlphaFold monomer V2.0 prediction for receptor activity-modifying protein 1 (O60894) · a predicted model of the same protein · chain E against A, TM-score 0.66
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 O60894
- Every structure of UniProt B5XGR7
- Every structure of UniProt P30988
- Every structure of UniProt P63092
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 7TYW · PDBe 7TYW · UniProt O60894 · UniProt B5XGR7 · UniProt P30988 · UniProt P63092 · UniProt P62873 · UniProt P59768
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