PDB
9J5V
Resolution
2.9 Å
Released
Nov. 27, 2024
Receptor
LPA1
Class
A
Species
Homo sapiens
Ligand
Function
CpY
Agonist
Reference
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Ligand Amino Acid Generic Number Segment Interaction Type
CpY Q125 3.29x29 TM3 polar (hydrogen bond)
CpY I128 3.32x32 TM3 Van der Waals
CpY D129 3.33x33 TM3 polar (hydrogen bond)
CpY D129 3.33x33 TM3 polar (charge-charge)
CpY L132 3.36x36 TM3 hydrophobic
CpY M198 ECL2 hydrophobic
CpY Y202 ECL2 hydrophobic
CpY Y206 5.39x39 TM5 hydrophobic
CpY L207 5.40x40 TM5 hydrophobic
CpY W210 5.43x43 TM5 hydrophobic
CpY W210 5.43x43 TM5 aromatic (pi-cation)
CpY W271 6.48x48 TM6 hydrophobic
CpY G274 6.51x51 TM6 Van der Waals
CpY L275 6.52x52 TM6 Van der Waals
CpY L278 6.55x55 TM6 hydrophobic
CpY E293 7.35x34 TM7 hydrophobic
CpY F296 7.38x37 TM7 Van der Waals
CpY L297 7.39x38 TM7 hydrophobic
CpY A300 7.42x41 TM7 Van der Waals

CpY

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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
TM3
3x29 3.29x29 Q125
3x32 3.32x32 I128
3x33 3.33x33 D129
3x36 3.36x36 L132
TM5
5x39 5.39x39 Y206
5x40 5.40x40 L207
5x43 5.43x43 W210
TM6
6x48 6.48x48 W271
6x51 6.51x51 G274
6x52 6.52x52 L275
6x55 6.55x55 L278
TM7
7x34 7.35x34 E293
7x37 7.38x37 F296
7x38 7.39x38 L297
7x41 7.42x41 A300