MolNFT v1 · #143517 · protein
Crystal structure of a complex between G protein beta gamma dimer and an inhibitory nanobody regulator
6B20 · Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit…: “Crystal structure of a complex between G protein beta gamma dimer and an inhibitory nanobody regulator”. X-ray diffraction, 2 ligands (UNX, CL), 8 pockets (best…
- PDB
- 6B20
- Type
- protein
- Length
- 1,019 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1; Guanine…
- UniProt
- P62871, P02698
- Ligands
- UNX, CL
- Pockets
- 8 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 19% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 7% helix, 48% strand | P62871 |
| C | Guanine nucleotide-binding protein G(T) subunit gamma-T1 | protein | 56 | 66% helix, 0% strand | P02698 |
| D | Guanine nucleotide-binding protein G(T) subunit gamma-T1 | protein | 59 | 58% helix, 0% strand | P02698 |
| E, F | Nanobody against G protein beta gamma dimer | protein | 114 | 11% helix, 50% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 985 | 0.82 | 0.83 | 98 | CL |
| 2 | 546 | 0.79 | 0.85 | 49 | empty |
| 3 | 521 | 0.78 | 0.85 | 49 | empty |
| 4 | 552 | 0.66 | 0.77 | 56 | empty |
| 5 | 309 | 0.55 | 0.75 | 43 | empty |
Interfaces
10 interfaces between chains.
- B–D · 2373 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 2311 Ų buried · 24 hydrogen bonds · protein-protein
- B–E · 1097 Ų buried · 22 hydrogen bonds · protein-protein
- A–F · 1087 Ų buried · 20 hydrogen bonds · protein-protein
- A–E · 423 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6B20 · Crystal structure of a complex between G protein beta gamma dimer and an inhibitory… · the same entry in another collection · chain F against F, TM-score 1.00
- P62871 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain A against A, TM-score 0.99
- P02698 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(T) subunit… · a predicted model of the same protein · chain C against A, TM-score 0.94
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 P62871
- Every structure of UniProt P02698
- Elsewhere: RCSB PDB 6B20 · PDBe 6B20 · UniProt P62871 · UniProt P02698
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