PDB
8KH5
Resolution
2.8 Å
Released
Oct. 18, 2023
Receptor
GPR174
Class
A
Species
Homo sapiens
Ligand
Function
Lysophosphotidylserine
Agonist
Reference
10.1038/S41467-023-41654-3

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Ligand Amino Acid Generic Number Segment Interaction Type
Lysophosphotidylserine R18 1.31x31 TM1 polar (charge-charge)
Lysophosphotidylserine Y22 1.35x35 TM1 aromatic (pi-cation)
Lysophosphotidylserine Y26 1.39x39 TM1 polar (hydrogen bond)
Lysophosphotidylserine R75 2.60x60 TM2 polar (charge-charge)
Lysophosphotidylserine R75 2.60x60 TM2 polar (hydrogen bond)
Lysophosphotidylserine Y79 2.64x64 TM2 polar (hydrogen bond)
Lysophosphotidylserine F95 3.29x29 TM3 Van der Waals
Lysophosphotidylserine K98 3.32x32 TM3 polar (charge-charge)
Lysophosphotidylserine Y99 3.33x33 TM3 polar (hydrogen bond)
Lysophosphotidylserine Y99 3.33x33 TM3 polar (hydrogen bond)
Lysophosphotidylserine Y103 3.37x37 TM3 hydrophobic
Lysophosphotidylserine I145 4.53x53 TM4 hydrophobic
Lysophosphotidylserine A148 4.56x56 TM4 hydrophobic
Lysophosphotidylserine L151 4.59x59 TM4 hydrophobic
Lysophosphotidylserine F152 4.60x60 TM4 hydrophobic
Lysophosphotidylserine L155 4.63x63 TM4 hydrophobic
Lysophosphotidylserine R156 ECL2 polar (charge-charge)
Lysophosphotidylserine R156 ECL2 polar (hydrogen bond)
Lysophosphotidylserine F169 45.51x51 ECL2 Van der Waals
Lysophosphotidylserine V170 45.52x52 ECL2 Van der Waals
Lysophosphotidylserine M185 5.38x39 TM5 hydrophobic
Lysophosphotidylserine G189 5.42x43 TM5 Van der Waals
Lysophosphotidylserine G193 5.46x461 TM5 Van der Waals
Lysophosphotidylserine F250 6.55x55 TM6 hydrophobic
Lysophosphotidylserine D253 6.58x58 TM6 Van der Waals
Lysophosphotidylserine F254 6.59x59 TM6 hydrophobic
Lysophosphotidylserine K257 6.62x62 TM6 polar (charge-charge)
Lysophosphotidylserine H274 7.35x34 TM7 polar (hydrogen bond)
Lysophosphotidylserine L278 7.39x38 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(A)
GPR174
TM1
1x31 1.31x31 R18
1x35 1.35x35 Y22
1x39 1.39x39 Y26
TM2
2x60 2.60x60 R75
2x64 2.64x64 Y79
TM3
3x29 3.29x29 F95
3x32 3.32x32 K98
3x33 3.33x33 Y99
3x37 3.37x37 Y103
TM4
4x53 4.53x53 I145
4x56 4.56x56 A148
4x59 4.59x59 L151
4x60 4.60x60 F152
4x63 4.63x63 L155
ECL2
45x51 45.51x51 F169
45x52 45.52x52 V170
TM5
5x39 5.38x39 M185
5x43 5.42x43 G189
5x461 5.46x461 G193
TM6
6x55 6.55x55 F250
6x58 6.58x58 D253
6x59 6.59x59 F254
6x62 6.62x62 K257
TM7
7x34 7.35x34 H274
7x38 7.39x38 L278