Research workbench
Cryo-EM structure of the non-acylated tirzepatide (LY3298176)-bound human glp-1R-gs complex
Analyse Cryo-EM structure of the non-acylated tirzepatide (LY3298176)-bound human… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7VBI
- Type
- protein
- Length
- 1,158 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Isoform 3 of guanine nucleotide-binding protein G(S) subunit alpha isoforms short…
- UniProt
- P43220, P54311, P63212
- Pockets
- 10 · best druggability 0.83
Structure
electron microscopy · 6 distinct chains · 36% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Isoform 3 of guanine nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 227 | 46% helix, 18% strand | — |
| N | Nanobody 35 | protein | 126 | 0% helix, 39% strand | — |
| P | Non-ACYLATED_TIRZEPATIDE | protein | 29 | 93% helix, 0% strand | — |
| R | Glucagon-like peptide 1 receptor | protein | 382 | 61% helix, 2% strand | P43220 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 337 | 8% helix, 45% strand | P54311 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 57 | 51% helix, 0% strand | P63212 |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 912 | 0.83 | 0.85 | 83 | empty |
| 2 | 1102 | 0.76 | 0.78 | 75 | empty |
| 3 | 759 | 0.75 | 0.80 | 79 | empty |
| 4 | 820 | 0.72 | 0.78 | 56 | empty |
| 5 | 53 | 0.71 | 0.98 | 18 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2092 Ų buried · 8 hydrogen bonds · protein-protein
- P–R · 1848 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1457 Ų buried · 18 hydrogen bonds · protein-protein
- A–R · 962 Ų buried · 9 hydrogen bonds · protein-protein
- A–N · 757 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 2 modified (disulfide, nonstandard).
Compared structures
- 7VBI · Cryo-EM structure of the non-acylated tirzepatide (LY3298176)-bound human GLP-1R-Gs… · the same entry in another collection · chain G against G, TM-score 1.00
- P54311 · 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
- P43220 · AlphaFold monomer V2.0 prediction for glucagon-like peptide 1 receptor (P43220) · a predicted model of the same protein · chain R against A, TM-score 0.79
- P63212 · 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 0.66
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 P43220
- Every structure of UniProt P54311
- Every structure of UniProt P63212
- Elsewhere: RCSB PDB 7VBI · PDBe 7VBI · UniProt P43220 · UniProt P54311 · UniProt P63212
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