PDB
7YU4
Resolution
3.3 Å
Released
Oct. 5, 2022
Receptor
LPA1
Class
A
Species
Homo sapiens
Ligand
ONO-0740556
Function
Agonist
Reference
10.1038/S41467-022-33121-2

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Ligand Amino Acid Generic Number Segment Interaction Type
ONO-0740556 Y34 N-term polar (hydrogen bond)
ONO-0740556 Y34 N-term Van der Waals
ONO-0740556 K39 N-term polar (charge-assisted hydrogen bond)
ONO-0740556 L105 2.60x60 TM2 Van der Waals
ONO-0740556 T109 ECL1 Van der Waals
ONO-0740556 R124 3.28x28 TM3 polar (charge-assisted hydrogen bond)
ONO-0740556 Q125 3.29x29 TM3 Van der Waals
ONO-0740556 D129 3.33x33 TM3 Van der Waals
ONO-0740556 Y202 ECL2 hydrophobic
ONO-0740556 Y202 ECL2 Van der Waals
ONO-0740556 L207 5.40x40 TM5 hydrophobic
ONO-0740556 W210 5.43x43 TM5 hydrophobic
ONO-0740556 W210 5.43x43 TM5 Van der Waals
ONO-0740556 L278 6.55x55 TM6 hydrophobic
ONO-0740556 E293 7.35x34 TM7 polar (charge-assisted hydrogen bond)
ONO-0740556 K294 7.36x35 TM7 Van der Waals
ONO-0740556 F296 7.38x37 TM7 hydrophobic
ONO-0740556 F296 7.38x37 TM7 Van der Waals
ONO-0740556 L297 7.39x38 TM7 hydrophobic
ONO-0740556 L297 7.39x38 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
LPA1 receptor
TM2
2x60 2.60x60 L105
TM3
3x28 3.28x28 R124
3x29 3.29x29 Q125
3x33 3.33x33 D129
TM5
5x40 5.40x40 L207
5x43 5.43x43 W210
TM6
6x55 6.55x55 L278
TM7
7x34 7.35x34 E293
7x35 7.36x35 K294
7x37 7.38x37 F296
7x38 7.39x38 L297