PDB
9ITE
Resolution
3.1 Å
Released
Jan. 15, 2025
Receptor
LPA6
Class
A
Species
Homo sapiens
Ligand
LPA
Function
Agonist
Reference
10.1073/PNAS.2415426122

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Ligand Amino Acid Generic Number Segment Interaction Type
LPA Y97 3.33x33 TM3 polar (hydrogen bond)
LPA Y97 3.33x33 TM3 Van der Waals
LPA Y101 3.37x37 TM3 hydrophobic
LPA Y101 3.37x37 TM3 Van der Waals
LPA S148 4.57x57 TM4 Van der Waals
LPA A151 4.60x61 TM4 Van der Waals
LPA A151 4.60x61 TM4 hydrophobic
LPA F169 45.51x51 ECL2 Van der Waals
LPA F169 45.51x51 ECL2 polar (hydrogen bond with backbone)
LPA E170 45.52x52 ECL2 Van der Waals
LPA N171 ECL2 polar (hydrogen bond with backbone)
LPA N171 ECL2 Van der Waals
LPA F172 ECL2 Van der Waals
LPA W177 5.31x32 TM5 polar (hydrogen bond)
LPA W177 5.31x32 TM5 Van der Waals
LPA I188 5.42x43 TM5 hydrophobic
LPA I188 5.42x43 TM5 Van der Waals
LPA V191 5.45x46 TM5 Van der Waals
LPA Y252 6.58x58 TM6 polar (hydrogen bond)
LPA Y252 6.58x58 TM6 Van der Waals
LPA R256 6.62x62 TM6 polar (charge-assisted hydrogen bond)
LPA Y273 7.35x34 TM7 polar (hydrogen bond)
LPA Y273 7.35x34 TM7 Van der Waals

LPA

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

GPCRdb(A)
GPCRdb(A)
LPA6 receptor
TM3
3x33 3.33x33 Y97
3x37 3.37x37 Y101
TM4
4x57 4.57x57 S148
4x61 4.60x61 A151
ECL2
45x51 45.51x51 F169
45x52 45.52x52 E170
TM5
5x32 5.31x32 W177
5x43 5.42x43 I188
5x46 5.45x46 V191
TM6
6x58 6.58x58 Y252
6x62 6.62x62 R256
TM7
7x34 7.35x34 Y273