MolNFT v1 · #155981 · protein
Cryo-EM structure of the human PAC1 receptor coupled to an engineered heterotrimeric G protein
6LPB · Pituitary adenylate cyclase-activating polypeptide: “Cryo-EM structure of the human PAC1 receptor coupled to an engineered heterotrimeric G protein”. Electron microscopy, 14 pockets (best druggability 0.78). MolNFT v1 #155981 on…
- PDB
- 6LPB
- Type
- protein
- Length
- 1,106 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pituitary adenylate cyclase-activating polypeptide; Pituitary adenylate…
- UniProt
- P18509, P41586, P54311, P63212
- Pockets
- 14 · best druggability 0.78
Structure
electron microscopy · 6 distinct chains · 34% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| P | Pituitary adenylate cyclase-activating polypeptide | protein | 28 | 82% helix, 0% strand | P18509 |
| R | Pituitary adenylate cyclase-activating polypeptide type I receptor | protein | 331 | 62% helix, 5% strand | P41586 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 340 | 8% helix, 43% strand | P54311 |
| A | Guanine nucleotide-binding protein G(S) subunit alpha isoforms SHORT,GUANINE nucleotide-binding protein G(S) subunit alpha isoforms short | protein | 223 | 43% helix, 15% strand | — |
| N | Nanobody NB35 | protein | 128 | 2% helix, 44% strand | — |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 56 | 48% helix, 0% strand | P63212 |
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 571 | 0.78 | 0.84 | 53 | empty |
| 2 | 793 | 0.73 | 0.78 | 57 | empty |
| 3 | 454 | 0.70 | 0.81 | 53 | empty |
| 4 | 629 | 0.68 | 0.77 | 45 | empty |
| 5 | 170 | 0.66 | 0.86 | 30 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2230 Ų buried · 21 hydrogen bonds · protein-protein
- P–R · 1594 Ų buried · 9 hydrogen bonds · protein-protein
- B–A · 1561 Ų buried · 12 hydrogen bonds · protein-protein
- R–A · 1109 Ų buried · 6 hydrogen bonds · protein-protein
- A–N · 802 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 6LPB · Cryo-EM structure of the human PAC1 receptor coupled to an engineered heterotrimeric G… · 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 0.98
- P41586 · AlphaFold monomer V2.0 prediction for pituitary adenylate cyclase- activating polypeptide… · a predicted model of the same protein · chain R against A, TM-score 0.94
- P18509 · AlphaFold monomer V2.0 prediction for pituitary adenylate cyclase- activating polypeptide… · a predicted model of the same protein · chain P against A, TM-score 0.74
- 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 0.71
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 P18509
- Every structure of UniProt P41586
- Every structure of UniProt P54311
- Every structure of UniProt P63212
- Elsewhere: RCSB PDB 6LPB · PDBe 6LPB · UniProt P18509 · UniProt P41586 · UniProt P54311 · UniProt P63212
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