Structure information

LPA1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

7YU4

SPECIES

Homo sapiens

RESOLUTION

3.300

PREFERRED CHAIN

A

REFERENCE

10.1038/S41467-022-33121-2

PUBLICATION DATE

Oct. 5, 2022

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate Y34 N-term polar (hydrogen bond)
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate Y34 N-term Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate K39 N-term polar (charge-assisted hydrogen bond)
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate L105 2.60x60 TM2 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate T109 ECL1 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate R124 3.28x28 TM3 polar (charge-assisted hydrogen bond)
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate Q125 3.29x29 TM3 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate D129 3.33x33 TM3 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate Y202 ECL2 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate Y202 ECL2 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate L207 5.40x40 TM5 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate W210 5.43x43 TM5 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate W210 5.43x43 TM5 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate L278 6.55x55 TM6 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate E293 7.35x34 TM7 polar (charge-assisted hydrogen bond)
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate K294 7.36x35 TM7 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate F296 7.38x37 TM7 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate F296 7.38x37 TM7 Van der Waals
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate L297 7.39x38 TM7 hydrophobic
[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate L297 7.39x38 TM7 Van der Waals

Ligands

[(2~{R})-2-[5-(2-hexylphenyl)pentanoylamino]-3-oxidanyl-propyl] dihydrogen phosphate

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Residue Diagrams

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
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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
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Residue Table


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