PDB
8GD9
Resolution
3.2 Å
Released
Jan. 10, 2024
Receptor
EP4
Class
A
Species
Homo sapiens
Ligand
Rivenprost
Function
Agonist
Reference
10.1073/PNAS.2216329120

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Ligand Amino Acid Generic Number Segment Interaction Type
Rivenprost T76 2.61x61 TM2 polar (hydrogen bond)
Rivenprost T76 2.61x61 TM2 Van der Waals
Rivenprost Y80 2.65x65 TM2 Van der Waals
Rivenprost Y80 2.65x65 TM2 polar (hydrogen bond)
Rivenprost L99 3.32x32 TM3 Van der Waals
Rivenprost L99 3.32x32 TM3 hydrophobic
Rivenprost F102 3.35x35 TM3 hydrophobic
Rivenprost F102 3.35x35 TM3 Van der Waals
Rivenprost S103 3.36x36 TM3 Van der Waals
Rivenprost S103 3.36x36 TM3 polar (hydrogen bond)
Rivenprost T168 ECL2 Van der Waals
Rivenprost T168 ECL2 polar (hydrogen bond)
Rivenprost W169 ECL2 Van der Waals
Rivenprost W169 ECL2 polar (hydrogen bond)
Rivenprost L312 7.36x35 TM7 Van der Waals
Rivenprost I315 7.39x38 TM7 hydrophobic
Rivenprost I315 7.39x38 TM7 Van der Waals
Rivenprost R316 7.40x39 TM7 polar (charge-assisted hydrogen bond)
Rivenprost A318 7.42x41 TM7 hydrophobic
Rivenprost A318 7.42x41 TM7 Van der Waals
Rivenprost S319 7.43x42 TM7 polar (hydrogen bond)
Rivenprost S319 7.43x42 TM7 Van der Waals
Rivenprost P322 7.46x46 TM7 hydrophobic
Rivenprost P322 7.46x46 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
TM2
2x61 2.61x61 T76
2x65 2.65x65 Y80
TM3
3x32 3.32x32 L99
3x35 3.35x35 F102
3x36 3.36x36 S103
TM7
7x35 7.36x35 L312
7x38 7.39x38 I315
7x39 7.40x39 R316
7x41 7.42x41 A318
7x42 7.43x42 S319
7x46 7.46x46 P322