PDB
9ECJ
Resolution
2.9 Å
Released
Nov. 5, 2025
Receptor
P2RY8
Class
A
Species
Homo sapiens
Ligand
Function
S-geranylgeranyl-L-glutathione
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
S-geranylgeranyl-L-glutathione G8 N-term Van der Waals
S-geranylgeranyl-L-glutathione P9 N-term Van der Waals
S-geranylgeranyl-L-glutathione T13 N-term Van der Waals
S-geranylgeranyl-L-glutathione Y104 3.33x33 TM3 Van der Waals
S-geranylgeranyl-L-glutathione Y108 3.37x37 TM3 hydrophobic
S-geranylgeranyl-L-glutathione Y165 ECL2 Van der Waals
S-geranylgeranyl-L-glutathione F176 45.51x51 ECL2 hydrophobic
S-geranylgeranyl-L-glutathione D177 45.52x52 ECL2 Van der Waals
S-geranylgeranyl-L-glutathione V178 ECL2 hydrophobic
S-geranylgeranyl-L-glutathione L179 ECL2 hydrophobic
S-geranylgeranyl-L-glutathione W181 ECL2 hydrophobic
S-geranylgeranyl-L-glutathione W190 5.35x36 TM5 hydrophobic
S-geranylgeranyl-L-glutathione L194 5.39x40 TM5 hydrophobic
S-geranylgeranyl-L-glutathione I197 5.42x43 TM5 hydrophobic
S-geranylgeranyl-L-glutathione F198 5.43x44 TM5 Van der Waals
S-geranylgeranyl-L-glutathione L257 6.55x55 TM6 hydrophobic
S-geranylgeranyl-L-glutathione H260 6.58x58 TM6 polar (hydrogen bond)
S-geranylgeranyl-L-glutathione I261 6.59x59 TM6 hydrophobic
S-geranylgeranyl-L-glutathione R264 ECL3 polar (charge-charge)
S-geranylgeranyl-L-glutathione L265 ECL3 hydrophobic
S-geranylgeranyl-L-glutathione Y272 7.32x31 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
ICL1 M G P R ICL1ECL1 R H H W V F ECL1ICL2 P L S S K R W R ICL2ECL2 T D L T Y P V H A L G I I T C F D V L K W T M L P ECL2ICL3 T E E A H ICL3ECL3 R L F Y G K S ECL3N-term M Q V P N S T G P D N A T L Q M L R N-termC-term R V P R D T L D T R R E S L F S A R T T S V R S E A G A H P E G M E G A T R P G L Q R Q E S V F C-term N P A I A V A L P V V Y S L V A A V S I P G N L F S L W V L C R R S P S V I F M I N L S V T D L M L A S V L P F Q I Y Y H C N G V L L C N V V T V A F Y A N M Y S S I L T M T C I S V E R F L G V L Y R R R Y A V A A C A G T W L L L L T A L S P L A R S V A M W A V F L F T I F I L L F L I P F V I T V A C Y T A T I L K L L R G R E Q R R R A V G L A A V V L L A F V T C F A P N N F V L L A H I V S Y Y H V Y K L T L C L S C L N N C L D P F V Y Y F A S R E L R E R F Q L R Y L G C
Helix box plot — Download: PNG | SVG L N G P I S V A A V L S Y V V P L A V A 1 I N L S V T D L M L A S V L P F Q I Y Y 2 C T M T L I S S Y M N A Y F A V T V V N 3 A V A A C A G T W L L L L T A L S P L A 4 Y C A V T I V F P I L F L L I F I T F L F 5 A A V V L L A F T V C F A P N N F V L L A 6 F P D L C N N L C S L C L T L K Y V H 7

GPCRdb(A)
GPCRdb(A)
P2RY8
TM3
3x33 3.33x33 Y104
3x37 3.37x37 Y108
ECL2
45x51 45.51x51 F176
45x52 45.52x52 D177
TM5
5x36 5.35x36 W190
5x40 5.39x40 L194
5x43 5.42x43 I197
5x44 5.43x44 F198
TM6
6x55 6.55x55 L257
6x58 6.58x58 H260
6x59 6.59x59 I261
TM7
7x31 7.32x31 Y272