PDB
9VMY
Resolution
2.9 Å
Released
Nov. 12, 2025
Receptor
5-HT1A
Class
A
Species
Homo sapiens
Ligand
TMU4142
Function
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
TMU4142 I113 3.29x29 TM3 hydrophobic
TMU4142 D116 3.32x32 TM3 polar (charge-assisted hydrogen bond)
TMU4142 V117 3.33x33 TM3 Van der Waals
TMU4142 V117 3.33x33 TM3 hydrophobic
TMU4142 C120 3.36x36 TM3 Van der Waals
TMU4142 T188 45.51x51 ECL2 Van der Waals
TMU4142 I189 45.52x52 ECL2 Van der Waals
TMU4142 I189 45.52x52 ECL2 polar (hydrogen bond with backbone)
TMU4142 S199 5.42x43 TM5 polar (hydrogen bond)
TMU4142 T200 5.43x44 TM5 Van der Waals
TMU4142 W358 6.48x48 TM6 Van der Waals
TMU4142 W358 6.48x48 TM6 hydrophobic
TMU4142 F361 6.51x51 TM6 aromatic (edge-to-face)
TMU4142 F361 6.51x51 TM6 Van der Waals
TMU4142 F362 6.52x52 TM6 aromatic (edge-to-face)
TMU4142 F362 6.52x52 TM6 Van der Waals
TMU4142 G382 7.35x34 TM7 Van der Waals
TMU4142 N386 7.39x38 TM7 polar (hydrogen bond)
TMU4142 N386 7.39x38 TM7 polar (hydrogen bond)
TMU4142 Y390 7.43x42 TM7 polar (hydrogen bond)
TMU4142 Y390 7.43x42 TM7 Van der Waals

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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
3x29 3.29x29 I113
3x32 3.32x32 D116
3x33 3.33x33 V117
3x36 3.36x36 C120
ECL2
45x51 45.51x51 T188
45x52 45.52x52 I189
TM5
5x43 5.42x43 S199
5x44 5.43x44 T200
TM6
6x48 6.48x48 W358
6x51 6.51x51 F361
6x52 6.52x52 F362
TM7
7x34 7.35x34 G382
7x38 7.39x38 N386
7x42 7.43x42 Y390