PDB
8UYQ
Resolution
3.5 Å
Released
Oct. 30, 2024
Receptor
OR4D5
Class
O2
Species
Homo sapiens
Ligand
2-methylthiazoline
Function
Agonist
Reference
10.1038/S41586-024-08126-0

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Ligand Amino Acid Generic Number Segment Interaction Type
2-methylthiazoline Y72 2.53x53 TM2 polar (hydrogen bond)
2-methylthiazoline L103 3.32x32 TM3 Van der Waals
2-methylthiazoline H104 3.33x33 TM3 Van der Waals
2-methylthiazoline G107 3.36x36 TM3 polar (hydrogen bond)
2-methylthiazoline G108 3.37x37 TM3 Van der Waals
2-methylthiazoline M111 3.40x40 TM3 polar (hydrogen bond)
2-methylthiazoline H154 4.56x56 TM4 polar (hydrogen bond)
2-methylthiazoline S202 5.43x43 TM5 polar (hydrogen bond)
2-methylthiazoline Y257 6.55x55 TM6 polar (hydrogen bond)
2-methylthiazoline Y274 7.41x40 TM7 Van der Waals

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Snake plot — Download: PNG | SVG
ICL1 P H L H ICL1ECL1 N P T I ECL1ICL2 P L H Y T L I M ICL2ECL2 L P F C G P D K L D N F Y C D V P Q L I K L A C T D ECL2ECL3 R P F R T F P ECL3N-term M N P A N H S Q V A G F V L L G L S Q N-termC-term P I G P L E H R P L H C-term V W E L R F V F F T V F S A V Y F M T V V G N L L I V V I V T S D T T M Y F L L G N L S F L D F C Y S S I T A P R M L V D L L S G S F G G C L T Q L F F F H F I G G I K I F L L T V M A Y D R Y I A I S Q N Q T V C A L L M A A S W V G G F I H S I V Q I A L T I Q T F V L E L L M V S N N G L V T L M C F L V L L G S Y T A L L V M L R S H S R E G R S K A L S T C A S H I A V V T L I F V P C I Y V Y T M D K A V S V L Y T I V T P M L N P A I Y T L R N K E M K K K K D V I M A L W R R
Helix box plot — Download: PNG | SVG L N G V V T M F Y V A S F V T F F V F R 1 G N L S F L D F C Y S S I T A P R M L V 2 V T L L F I K I G G I F H F F F L Q T L 3 C A L L M A A S W V G G F I H S I V Q I 4 Y S G L L V L F C M L T V L G N N S V M 5 A S H I A V V T L I F V P C I Y V Y T 6 A P N L M P T V I T Y L V S V A K D M 7

GPCRdb(A)
GPCRdb(A)
OR4D5
TM2
2x53 2.53x53 Y73
TM3
3x32 3.32x32 F104
3x33 3.33x33 H105
3x36 3.36x36 G108
3x37 3.37x37 G109
3x40 3.40x40 I112
TM4
4x56 4.56x56 H155
TM5
5x43 5.43x43 N203
TM6
6x55 6.55x55 Y258
TM7
7x40 7.41x40 Y275