Research workbench
Cryo-EM structure of the neuromedin S-bound neuromedin U receptor 1-gq protein complex
Analyse Cryo-EM structure of the neuromedin S-bound neuromedin U receptor 1-gq protein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7W56
- Type
- protein
- Length
- 1,144 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(Q) subunit alpha; Guanine nucleotide-binding protein…
- UniProt
- P62873, Q5H8A3, P59768
- Pockets
- 12 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 35% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(Q) subunit alpha | protein | 230 | 47% helix, 18% strand | — |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 341 | 8% helix, 46% strand | P62873 |
| C | Neuromedin-S | protein | 8 | 0% helix, 0% strand | Q5H8A3 |
| E | SCFV16 | protein | 232 | 6% helix, 48% strand | — |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 57 | 60% helix, 0% strand | P59768 |
| R | Neuromedin U receptor 1 | protein | 276 | 80% helix, 1% strand | — |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 604 | 0.81 | 0.86 | 55 | empty |
| 2 | 1111 | 0.78 | 0.80 | 78 | empty |
| 3 | 62 | 0.71 | 0.97 | 22 | empty |
| 4 | 143 | 0.54 | 0.81 | 35 | empty |
| 5 | 226 | 0.51 | 0.76 | 35 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2319 Ų buried · 23 hydrogen bonds · protein-protein
- A–B · 1517 Ų buried · 17 hydrogen bonds · protein-protein
- A–R · 1202 Ų buried · 18 hydrogen bonds · protein-protein
- C–R · 898 Ų buried · 19 hydrogen bonds · protein-protein
- A–E · 626 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7W56 · Cryo-EM structure of the neuromedin S-bound neuromedin U receptor 1-Gq protein complex · 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 0.97
- Q5H8A3 · AlphaFold monomer V2.0 prediction for neuromedin-S (Q5H8A3) · a predicted model of the same protein · chain C against A, TM-score 0.37
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 P62873
- Every structure of UniProt Q5H8A3
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 7W56 · PDBe 7W56 · UniProt P62873 · UniProt Q5H8A3 · UniProt P59768
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