Research workbench
Cryo-EM structure of the apo CCR3-gi complex
Analyse Cryo-EM structure of the apo CCR3-gi complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7X9Y
- Type
- protein
- Length
- 1,137 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, P51677
- Pockets
- 13 · best druggability 0.82
Structure
electron microscopy · 5 distinct chains · 36% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 218 | 47% helix, 18% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 339 | 8% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 58 | 62% helix, 0% strand | P59768 |
| R | C-C chemokine receptor type 3 | protein | 293 | 79% helix, 1% strand | P51677 |
| S | SCFV16 | protein | 229 | 4% helix, 46% strand | — |
Pockets
13 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 735 | 0.82 | 0.86 | 63 | empty |
| 2 | 1037 | 0.76 | 0.78 | 77 | empty |
| 3 | 728 | 0.71 | 0.77 | 56 | empty |
| 4 | 70 | 0.70 | 0.95 | 20 | empty |
| 5 | 380 | 0.63 | 0.78 | 54 | empty |
Interfaces
6 interfaces between chains.
- B–G · 2138 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 1209 Ų buried · 10 hydrogen bonds · protein-protein
- A–R · 1190 Ų buried · 7 hydrogen bonds · protein-protein
- A–S · 541 Ų buried · 8 hydrogen bonds · protein-protein
- B–S · 488 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7X9Y · Cryo-EM structure of the apo CCR3-Gi complex · the same entry in another collection · chain S against S, 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
- P51677 · AlphaFold monomer V2.0 prediction for C-C chemokine receptor type 3 (P51677) · a predicted model of the same protein · chain R against A, TM-score 0.91
- 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 0.90
- 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 0.82
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 P51677
- Elsewhere: RCSB PDB 7X9Y · PDBe 7X9Y · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt P51677
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