MolNFT v1 · #189575 · protein
Cryo-EM structure of the CCL15(27-92) bound CCR1-gi complex
7VLA · Guanine nucleotide-binding protein G(I) subunit alpha-1: “Cryo-EM structure of the CCL15(27-92) bound CCR1-gi complex”. Electron microscopy, 1 ligand (CLR), 12 pockets (best druggability 0.85). MolNFT v1 #189575 on GenesisL1: 3D…
- PDB
- 7VLA
- Type
- protein
- Length
- 1,222 residues
- Chains
- 6
- 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, Q16663, P32246
- Ligands
- CLR
- Pockets
- 12 · best druggability 0.85
Structure
electron microscopy · 6 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 | 225 | 45% helix, 19% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 339 | 9% helix, 47% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 58 | 60% helix, 0% strand | P59768 |
| L | CCL15(27-92) | protein | 64 | 16% helix, 20% strand | Q16663 |
| R | C-C chemokine receptor type 1 | protein | 302 | 78% helix, 4% strand | P32246 |
| S | SCFV16 | protein | 234 | 4% helix, 47% strand | — |
Ligands and binding sites
- CLR · Cholesterol · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 326 | 0.85 | 0.95 | 41 | empty |
| 2 | 862 | 0.82 | 0.85 | 64 | empty |
| 3 | 850 | 0.75 | 0.79 | 82 | empty |
| 4 | 275 | 0.59 | 0.78 | 42 | empty |
| 5 | 63 | 0.59 | 0.90 | 17 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2162 Ų buried · 13 hydrogen bonds · protein-protein
- L–R · 1834 Ų buried · 26 hydrogen bonds · protein-protein
- A–B · 1200 Ų buried · 17 hydrogen bonds · protein-protein
- A–R · 1033 Ų buried · 7 hydrogen bonds · protein-protein
- A–S · 561 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide (disulfide).
Compared structures
- 7VLA · Cryo-EM structure of the CCL15(27-92) bound CCR1-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 1.00
- 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 0.95
- P32246 · AlphaFold monomer V2.0 prediction for C-C chemokine receptor type 1 (P32246) · a predicted model of the same protein · chain R against A, TM-score 0.93
- Q16663 · AlphaFold monomer V2.0 prediction for C-C motif chemokine 15 (Q16663) · a predicted model of the same protein · chain L against A, TM-score 0.88
- 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 Q16663
- Every structure of UniProt P32246
- Elsewhere: RCSB PDB 7VLA · PDBe 7VLA · UniProt P63096 · UniProt P62873 · UniProt P59768 · UniProt Q16663 · UniProt P32246
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.