Research workbench
Structure of US27-gi-SCFV16 in cl-state
Analyse Structure of US27-gi-SCFV16 in cl-state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RKX
- Type
- protein
- Length
- 1,126 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I) subunit alpha-1; Guanine nucleotide-binding…
- UniProt
- P63096, P62873, P59768, P09703
- Pockets
- 13 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 223 | 44% helix, 16% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 7% helix, 48% strand | P62873 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 57 | 61% helix, 0% strand | P59768 |
| D | Antibody fragment SCFV16 | protein | 233 | 3% helix, 48% strand | — |
| R | G-protein coupled receptor homolog US27 | protein | 275 | 78% helix, 0% strand | P09703 |
Pockets
13 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 914 | 0.82 | 0.84 | 61 | empty |
| 2 | 153 | 0.70 | 0.89 | 31 | empty |
| 3 | 175 | 0.67 | 0.86 | 32 | empty |
| 4 | 239 | 0.60 | 0.80 | 28 | empty |
| 5 | 322 | 0.60 | 0.78 | 45 | empty |
Interfaces
5 interfaces between chains.
- B–C · 2162 Ų buried · 12 hydrogen bonds · protein-protein
- A–B · 1083 Ų buried · 10 hydrogen bonds · protein-protein
- A–R · 651 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 548 Ų buried · 7 hydrogen bonds · protein-protein
- B–D · 418 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7RKX · Structure of US27-Gi-scFv16 in CL-state · 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 C against A, TM-score 0.87
- P63096 · 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 0.81
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 P63096
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P09703
- Elsewhere: RCSB PDB 7RKX · PDBe 7RKX · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt P09703
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