PDB
9VJG
Resolution
2.7 Å
Released
Nov. 12, 2025
Receptor
5-HT1A
Class
A
Species
Homo sapiens
Ligand
CHEMBL26998
Function
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
CHEMBL26998 D116 3.32x32 TM3 polar (charge-assisted hydrogen bond)
CHEMBL26998 V117 3.33x33 TM3 hydrophobic
CHEMBL26998 V117 3.33x33 TM3 Van der Waals
CHEMBL26998 C120 3.36x36 TM3 Van der Waals
CHEMBL26998 T121 3.37x37 TM3 Van der Waals
CHEMBL26998 I189 45.52x52 ECL2 hydrophobic
CHEMBL26998 I189 45.52x52 ECL2 Van der Waals
CHEMBL26998 S199 5.42x43 TM5 Van der Waals
CHEMBL26998 A203 5.46x461 TM5 Van der Waals
CHEMBL26998 W358 6.48x48 TM6 hydrophobic
CHEMBL26998 W358 6.48x48 TM6 Van der Waals
CHEMBL26998 F361 6.51x51 TM6 hydrophobic
CHEMBL26998 F361 6.51x51 TM6 Van der Waals
CHEMBL26998 F362 6.52x52 TM6 Van der Waals
CHEMBL26998 F362 6.52x52 TM6 aromatic (edge-to-face)
CHEMBL26998 N386 7.39x38 TM7 Van der Waals
CHEMBL26998 Y390 7.43x42 TM7 Van der Waals
CHEMBL26998 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
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