MolNFT v1 · #188573 · protein
Calcitonin receptor in complex with gs and human calcitonin peptide
7TYO · Guanine nucleotide-binding protein G(S) subunit alpha…: “Calcitonin receptor in complex with gs and human calcitonin peptide”. Electron microscopy, 3 ligands (Y01, NAG, NH2), 12 pockets (best druggability 0.81). MolNFT v1 #188573 on…
- PDB
- 7TYO
- Type
- protein
- Length
- 1,141 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(S) subunit alpha isoforms short; Guanine…
- UniProt
- P63092, P62873, P59768, P01258, P30988
- Ligands
- Y01, NAG, NH2
- Pockets
- 12 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 228 | 46% helix, 18% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 339 | 7% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 55 | 51% helix, 0% strand | P59768 |
| N | Nanobody 35 | protein | 128 | 7% helix, 45% strand | — |
| P | Calcitonin | protein | 32 | 31% helix, 3% strand | P01258 |
| R | Calcitonin receptor | protein | 359 | 66% helix, 5% strand | P30988 |
Ligands and binding sites
- Y01 · Cholesterol hemisuccinate · ligand · 2 copies · chains R
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains R
- NH2 · Amino group · ion · chains P, R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 697 | 0.81 | 0.86 | 57 | empty |
| 2 | 880 | 0.77 | 0.80 | 66 | empty |
| 3 | 716 | 0.74 | 0.80 | 63 | empty |
| 4 | 1084 | 0.71 | 0.75 | 67 | empty |
| 5 | 146 | 0.67 | 0.88 | 26 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2290 Ų buried · 14 hydrogen bonds · protein-protein
- P–R · 1996 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1502 Ų buried · 27 hydrogen bonds · protein-protein
- A–R · 1150 Ų buried · 9 hydrogen bonds · protein-protein
- A–N · 801 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 7TYO · Calcitonin receptor in complex with Gs and human 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 0.90
- P01258 · AlphaFold monomer V2.0 prediction for calcitonin (P01258) · a predicted model of the same protein · chain P against A, TM-score 0.43
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 P63092
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P01258
- Every structure of UniProt P30988
- Elsewhere: RCSB PDB 7TYO · PDBe 7TYO · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P01258 · UniProt P30988
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