PDB
6M9T
Resolution
2.5 Å
Released
Dec. 5, 2018
Receptor
EP3
Class
A
Species
Homo sapiens
Ligand
Function
Misoprostol acid
Agonist
Reference
10.1038/S41589-018-0160-Y

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Ligand Amino Acid Generic Number Segment Interaction Type
Misoprostol acid P55 1.39x39 TM1 Van der Waals
Misoprostol acid M58 1.42x42 TM1 hydrophobic
Misoprostol acid G102 2.53x53 TM2 Van der Waals
Misoprostol acid Q103 2.54x54 TM2 Van der Waals
Misoprostol acid T106 2.57x57 TM2 Van der Waals
Misoprostol acid T107 2.58x58 TM2 hydrophobic
Misoprostol acid V110 2.61x61 TM2 hydrophobic
Misoprostol acid Y114 2.65x65 TM2 polar (hydrogen bond)
Misoprostol acid M137 3.32x32 TM3 hydrophobic
Misoprostol acid F140 3.35x35 TM3 hydrophobic
Misoprostol acid G141 3.36x36 TM3 Van der Waals
Misoprostol acid T206 ECL2 polar (hydrogen bond)
Misoprostol acid W207 ECL2 hydrophobic
Misoprostol acid F209 45.51x51 ECL2 hydrophobic
Misoprostol acid W295 6.48x48 TM6 hydrophobic
Misoprostol acid L298 6.51x51 TM6 hydrophobic
Misoprostol acid L329 7.36x35 TM7 hydrophobic
Misoprostol acid V332 7.39x38 TM7 hydrophobic
Misoprostol acid R333 7.40x39 TM7 polar (charge-charge)
Misoprostol acid R333 7.40x39 TM7 polar (hydrogen bond)
Misoprostol acid A335 7.42x41 TM7 Van der Waals
Misoprostol acid S336 7.43x42 TM7 Van der Waals
Misoprostol acid Q339 7.46x46 TM7 polar (hydrogen bond)
Misoprostol acid I340 7.47x47 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
EP3 receptor
TM1
1x39 1.39x39 P55
1x42 1.42x42 M58
TM2
2x53 2.53x53 G102
2x54 2.54x54 Q103
2x57 2.57x57 T106
2x58 2.58x58 T107
2x61 2.61x61 V110
2x65 2.65x65 Y114
TM3
3x32 3.32x32 M137
3x35 3.35x35 F140
3x36 3.36x36 G141
ECL2
45x51 45.51x51 F209
TM6
6x48 6.48x48 W295
6x51 6.51x51 L298
TM7
7x35 7.36x35 L329
7x38 7.39x38 V332
7x39 7.40x39 R333
7x41 7.42x41 A335
7x42 7.43x42 S336
7x46 7.46x46 Q339
7x47 7.47x47 I340