Structure information

LPA1 receptor

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

7TD2

SPECIES

Homo sapiens

RESOLUTION

3.110

PREFERRED CHAIN

R

REFERENCE

10.1038/S41467-022-28417-2

PUBLICATION DATE

Feb. 9, 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
lysophosphatidic acid Y34 N-term polar (hydrogen bond)
lysophosphatidic acid Y34 N-term polar (hydrogen bond)
lysophosphatidic acid K39 N-term polar (charge-assisted hydrogen bond)
lysophosphatidic acid L105 2.60x60 TM2 Van der Waals
lysophosphatidic acid T109 ECL1 polar (hydrogen bond)
lysophosphatidic acid G110 23.47x47 ECL1 polar (hydrogen bond)
lysophosphatidic acid G110 23.47x47 ECL1 polar (hydrogen bond with backbone)
lysophosphatidic acid T113 23.50x50 ECL1 polar (hydrogen bond)
lysophosphatidic acid R124 3.28x28 TM3 polar (charge-assisted hydrogen bond)
lysophosphatidic acid Q125 3.29x29 TM3 polar (hydrogen bond)
lysophosphatidic acid Q125 3.29x29 TM3 polar (hydrogen bond)
lysophosphatidic acid I128 3.32x32 TM3 Van der Waals
lysophosphatidic acid D129 3.33x33 TM3 polar (charge-assisted hydrogen bond)
lysophosphatidic acid L132 3.36x36 TM3 hydrophobic
lysophosphatidic acid L132 3.36x36 TM3 Van der Waals
lysophosphatidic acid M198 ECL2 polar (hydrogen bond with backbone)
lysophosphatidic acid M198 ECL2 Van der Waals
lysophosphatidic acid A199 ECL2 Van der Waals
lysophosphatidic acid Y202 ECL2 Van der Waals
lysophosphatidic acid Y206 5.39x39 TM5 Van der Waals
lysophosphatidic acid Y206 5.39x39 TM5 hydrophobic
lysophosphatidic acid L207 5.40x40 TM5 Van der Waals
lysophosphatidic acid L207 5.40x40 TM5 hydrophobic
lysophosphatidic acid W210 5.43x43 TM5 hydrophobic
lysophosphatidic acid W210 5.43x43 TM5 Van der Waals
lysophosphatidic acid W271 6.48x48 TM6 Van der Waals
lysophosphatidic acid W271 6.48x48 TM6 hydrophobic
lysophosphatidic acid G274 6.51x51 TM6 polar (hydrogen bond with backbone)
lysophosphatidic acid G274 6.51x51 TM6 Van der Waals
lysophosphatidic acid L277 6.54x54 TM6 Van der Waals
lysophosphatidic acid L278 6.55x55 TM6 hydrophobic
lysophosphatidic acid L278 6.55x55 TM6 Van der Waals
lysophosphatidic acid E293 7.35x34 TM7 Van der Waals
lysophosphatidic acid E293 7.35x34 TM7 polar (hydrogen bond with backbone)
lysophosphatidic acid K294 7.36x35 TM7 polar (charge-assisted hydrogen bond)
lysophosphatidic acid F296 7.38x37 TM7 polar (hydrogen bond with backbone)
lysophosphatidic acid F296 7.38x37 TM7 Van der Waals
lysophosphatidic acid L297 7.39x38 TM7 polar (hydrogen bond with backbone)
lysophosphatidic acid L297 7.39x38 TM7 polar (hydrogen bond)
lysophosphatidic acid A300 7.42x41 TM7 Van der Waals
lysophosphatidic acid A300 7.42x41 TM7 hydrophobic

Ligands

lysophosphatidic acid

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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
ECL1
23x47 23.47x47 G110
23x50 23.50x50 T113
TM3
3x28 3.28x28 R124
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
6x54 6.54x54 L277
6x55 6.55x55 L278
TM7
7x34 7.35x34 E293
7x35 7.36x35 K294
7x37 7.38x37 F296
7x38 7.39x38 L297
7x41 7.42x41 A300