PDB
9LRD
Resolution
3.2 Å
Released
June 11, 2025
Receptor
H1
Class
A
Species
Homo sapiens
Ligand
histamine
Function
Agonist
Reference
10.1038/S42003-025-08363-7

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Ligand Amino Acid Generic Number Segment Interaction Type
histamine D107 3.32x32 TM3 polar (charge-assisted hydrogen bond)
histamine Y108 3.33x33 TM3 Van der Waals
histamine Y108 3.33x33 TM3 aromatic (face-to-face)
histamine S111 3.36x36 TM3 polar (hydrogen bond)
histamine T112 3.37x37 TM3 Van der Waals
histamine W158 4.56x57 TM4 aromatic (face-to-edge)
histamine W158 4.56x57 TM4 Van der Waals
histamine N198 5.46x461 TM5 polar (hydrogen bond)
histamine Y431 6.51x51 TM6 aromatic (face-to-edge)
histamine Y431 6.51x51 TM6 polar (hydrogen bond)
histamine Y431 6.51x51 TM6 Van der Waals
histamine F435 6.55x55 TM6 Van der Waals
histamine Y458 7.43x42 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
H1 receptor
TM3
3x32 3.32x32 D107
3x33 3.33x33 Y108
3x36 3.36x36 S111
3x37 3.37x37 T112
TM4
4x57 4.56x57 W158
TM5
5x461 5.46x461 N198
TM6
6x51 6.51x51 Y431
6x55 6.55x55 F435
TM7
7x42 7.43x42 Y458