PDB
8YN2
Resolution
2.7 Å
Released
Oct. 9, 2024
Receptor
H1
Class
A
Species
Homo sapiens
Ligand
histamine
Function
Agonist
Reference
10.1038/S41467-024-52585-Y

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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 aromatic (face-to-face)
histamine Y108 3.33x33 TM3 Van der Waals
histamine S111 3.36x36 TM3 Van der Waals
histamine T112 3.37x37 TM3 polar (hydrogen bond)
histamine W158 4.56x57 TM4 hydrophobic
histamine W158 4.56x57 TM4 Van der Waals
histamine N198 5.46x461 TM5 polar (hydrogen bond)
histamine Y431 6.51x51 TM6 aromatic (edge-to-face)
histamine Y431 6.51x51 TM6 polar (hydrogen bond)
histamine Y431 6.51x51 TM6 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