PDB
8FYT
Resolution
2.6 Å
Released
May 15, 2024
Receptor
5-HT1A
Class
A
Species
Homo sapiens
Ligand
(+)-LSD
Function
Agonist
Reference
10.1038/S41586-024-07403-2

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Ligand Amino Acid Generic Number Segment Interaction Type
(+)-LSD F112 3.28x28 TM3 hydrophobic
(+)-LSD I113 3.29x29 TM3 hydrophobic
(+)-LSD D116 3.32x32 TM3 polar (charge-assisted hydrogen bond)
(+)-LSD V117 3.33x33 TM3 Van der Waals
(+)-LSD V117 3.33x33 TM3 hydrophobic
(+)-LSD C120 3.36x36 TM3 Van der Waals
(+)-LSD C120 3.36x36 TM3 hydrophobic
(+)-LSD T121 3.37x37 TM3 Van der Waals
(+)-LSD T121 3.37x37 TM3 polar (hydrogen bond)
(+)-LSD I189 45.52x52 ECL2 hydrophobic
(+)-LSD I189 45.52x52 ECL2 Van der Waals
(+)-LSD S199 5.42x43 TM5 Van der Waals
(+)-LSD A203 5.46x461 TM5 hydrophobic
(+)-LSD W358 6.48x48 TM6 hydrophobic
(+)-LSD W358 6.48x48 TM6 Van der Waals
(+)-LSD F361 6.51x51 TM6 aromatic (edge-to-face)
(+)-LSD F361 6.51x51 TM6 Van der Waals
(+)-LSD F362 6.52x52 TM6 Van der Waals
(+)-LSD F362 6.52x52 TM6 aromatic (edge-to-face)
(+)-LSD N386 7.39x38 TM7 Van der Waals
(+)-LSD Y390 7.43x42 TM7 Van der Waals
(+)-LSD 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
3x28 3.28x28 F112
3x29 3.29x29 I113
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
5x461 5.46x461 A203
TM6
6x48 6.48x48 W358
6x51 6.51x51 F361
6x52 6.52x52 F362
TM7
7x38 7.39x38 N386
7x42 7.43x42 Y390