PDB
5YHL
Resolution
4.2 Å
Released
Dec. 5, 2018
Receptor
EP4
Class
A
Species
Homo sapiens
Ligand
ONO-9990614
Function
Antagonist
Reference
10.1038/S41589-018-0131-3

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Ligand Amino Acid Generic Number Segment Interaction Type
ONO-9990614 I23 1.38x38 TM1 hydrophobic
ONO-9990614 P24 1.39x39 TM1 hydrophobic
ONO-9990614 T76 2.61x61 TM2 polar (hydrogen bond)
ONO-9990614 T76 2.61x61 TM2 Van der Waals
ONO-9990614 Y80 2.65x65 TM2 polar (hydrogen bond)
ONO-9990614 Y80 2.65x65 TM2 polar (hydrogen bond)
ONO-9990614 L99 3.32x32 TM3 Van der Waals
ONO-9990614 W169 ECL2 hydrophobic
ONO-9990614 W169 ECL2 Van der Waals
ONO-9990614 L312 7.36x35 TM7 hydrophobic
ONO-9990614 L312 7.36x35 TM7 Van der Waals
ONO-9990614 I315 7.39x38 TM7 hydrophobic
ONO-9990614 I315 7.39x38 TM7 Van der Waals
ONO-9990614 R316 7.40x39 TM7 polar (charge-assisted hydrogen bond)
ONO-9990614 S319 7.43x42 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
EP4 receptor
TM1
1x38 1.38x38 I23
1x39 1.39x39 P24
TM2
2x61 2.61x61 T76
2x65 2.65x65 Y80
TM3
3x32 3.32x32 L99
TM7
7x35 7.36x35 L312
7x38 7.39x38 I315
7x39 7.40x39 R316
7x42 7.43x42 S319