PDB
8FY8
Resolution
2.8 Å
Released
May 15, 2024
Receptor
5-HT1A
Class
A
Species
Homo sapiens
Ligand
5-MeO-DMT
Function
Agonist
Reference
10.1038/S41586-024-07403-2

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Ligand Amino Acid Generic Number Segment Interaction Type
5-MeO-DMT D116 3.32x32 TM3 polar (charge-assisted hydrogen bond)
5-MeO-DMT V117 3.33x33 TM3 hydrophobic
5-MeO-DMT V117 3.33x33 TM3 Van der Waals
5-MeO-DMT C120 3.36x36 TM3 Van der Waals
5-MeO-DMT T121 3.37x37 TM3 polar (hydrogen bond)
5-MeO-DMT I189 45.52x52 ECL2 hydrophobic
5-MeO-DMT I189 45.52x52 ECL2 Van der Waals
5-MeO-DMT S199 5.42x43 TM5 Van der Waals
5-MeO-DMT W358 6.48x48 TM6 hydrophobic
5-MeO-DMT W358 6.48x48 TM6 Van der Waals
5-MeO-DMT F361 6.51x51 TM6 aromatic (edge-to-face)
5-MeO-DMT F361 6.51x51 TM6 Van der Waals
5-MeO-DMT F362 6.52x52 TM6 aromatic (edge-to-face)
5-MeO-DMT F362 6.52x52 TM6 Van der Waals
5-MeO-DMT Y390 7.43x42 TM7 Van der Waals
5-MeO-DMT Y390 7.43x42 TM7 hydrophobic

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

GPCRdb(A)
GPCRdb(A)
5-HT1A receptor
TM3
3x32 3.32x32 D116
3x33 3.33x33 V117
3x36 3.36x36 C120
3x37 3.37x37 T121
ECL2
45x52 45.52x52 I189
TM5
5x43 5.42x43 S199
TM6
6x48 6.48x48 W358
6x51 6.51x51 F361
6x52 6.52x52 F362
TM7
7x42 7.43x42 Y390