Research workbench
Cryo-EM structure of gi-bound metabotropic glutamate receptor MGLU4
Analyse Cryo-EM structure of gi-bound metabotropic glutamate receptor MGLU4 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7E9H
- Type
- protein
- Length
- 2,307 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Metabotropic glutamate receptor 4; Guanine nucleotide-binding protein G(I) subunit…
- UniProt
- Q14833, P08754, P62873, P59768
- Ligands
- SEP
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 6 distinct chains · 33% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| R | Metabotropic glutamate receptor 4 | protein | 766 | 46% helix, 12% strand | Q14833 |
| S | Metabotropic glutamate receptor 4 | protein | 761 | 45% helix, 10% strand | Q14833 |
| A | Guanine nucleotide-binding protein G(I) subunit alpha-3 | protein | 223 | 33% helix, 13% strand | P08754 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 306 | 0% helix, 41% strand | P62873 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 19 | 0% helix, 0% strand | P59768 |
| D | SCFV16 | protein | 232 | 1% helix, 33% strand | — |
Ligands and binding sites
- SEP · Phosphoserine · ligand · 2 copies · chains R, S
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1156 | 0.86 | 0.87 | 125 | empty |
| 2 | 782 | 0.85 | 0.87 | 59 | empty |
| 3 | 1066 | 0.84 | 0.85 | 120 | empty |
| 4 | 1107 | 0.84 | 0.85 | 111 | SEP |
| 5 | 419 | 0.75 | 0.85 | 67 | SEP |
Interfaces
6 interfaces between chains.
- R–S · 1708 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 1078 Ų buried · 12 hydrogen bonds · protein-protein
- R–A · 730 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 519 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 379 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 17 disulfide (disulfide).
Compared structures
- 7E9H · Cryo-EM structure of Gi-bound metabotropic glutamate receptor mGlu4 · the same entry in another collection · chain D against D, 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 0.97
- Q14833 · AlphaFold monomer V2.0 prediction for metabotropic glutamate receptor 4 (Q14833) · a predicted model of the same protein · chain R against A, TM-score 0.87
- P08754 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.80
- 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 C against A, TM-score 0.26
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 Q14833
- Every structure of UniProt P08754
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Elsewhere: RCSB PDB 7E9H · PDBe 7E9H · UniProt Q14833 · UniProt P08754 · UniProt P62873 · UniProt P59768
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