Structure information

H1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

8X5Y

SPECIES

Homo sapiens

RESOLUTION

3.000

PREFERRED CHAIN

B

REFERENCE

10.1038/S41467-023-44477-4

PUBLICATION DATE

Jan. 17, 2024

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
astemizole Y87 2.64x63 TM2 hydrophobic
astemizole L88 2.65x64 TM2 hydrophobic
astemizole W103 3.28x28 TM3 aromatic (edge-to-face)
astemizole D107 3.32x32 TM3 polar (charge-assisted hydrogen bond)
astemizole Y108 3.33x33 TM3 aromatic (edge-to-face)
astemizole Y108 3.33x33 TM3 Van der Waals
astemizole S111 3.36x36 TM3 Van der Waals
astemizole T112 3.37x37 TM3 Van der Waals
astemizole I115 3.40x40 TM3 Van der Waals
astemizole I115 3.40x40 TM3 hydrophobic
astemizole W158 4.56x57 TM4 hydrophobic
astemizole W158 4.56x57 TM4 Van der Waals
astemizole T194 5.42x43 TM5 Van der Waals
astemizole A195 5.43x44 TM5 hydrophobic
astemizole A195 5.43x44 TM5 Van der Waals
astemizole N198 5.46x461 TM5 Van der Waals
astemizole F199 5.47x47 TM5 Van der Waals
astemizole W428 6.48x48 TM6 aromatic (face-to-edge)
astemizole W428 6.48x48 TM6 Van der Waals
astemizole Y431 6.51x51 TM6 aromatic (edge-to-face)
astemizole Y431 6.51x51 TM6 polar (hydrogen bond)
astemizole Y431 6.51x51 TM6 Van der Waals
astemizole F432 6.52x52 TM6 Van der Waals
astemizole F432 6.52x52 TM6 aromatic (edge-to-face)
astemizole F435 6.55x55 TM6 aromatic (face-to-edge)
astemizole F435 6.55x55 TM6 Van der Waals
astemizole M451 7.36x35 TM7 Van der Waals
astemizole I454 7.39x38 TM7 Van der Waals
astemizole I454 7.39x38 TM7 hydrophobic
astemizole Y458 7.43x42 TM7 Van der Waals

Ligands

astemizole

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Residue Diagrams

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
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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
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Residue Table


GPCRdb(A)
GPCRdb(A)
H1 receptor
TM2
2x63 2.64x63 Y87
2x64 2.65x64 L88
TM3
3x28 3.28x28 W103
3x32 3.32x32 D107
3x33 3.33x33 Y108
3x36 3.36x36 S111
3x37 3.37x37 T112
3x40 3.40x40 I115
TM4
4x57 4.56x57 W158
TM5
5x43 5.42x43 T194
5x44 5.43x44 A195
5x461 5.46x461 N198
5x47 5.47x47 F199
TM6
6x48 6.48x48 W428
6x51 6.51x51 Y431
6x52 6.52x52 F432
6x55 6.55x55 F435
TM7
7x35 7.36x35 M451
7x38 7.39x38 I454
7x42 7.43x42 Y458