PDB
8WRB
Resolution
2.9 Å
Released
Nov. 8, 2023
Receptor
GPR34
Class
A
Species
Homo sapiens
Ligands
LYSOPHOSPHATIDIC ACID
L-serine
Function
Agonist
Agonist
Reference
10.1371/JOURNAL.PBIO.3002387
LYSOPHOSPHATIDIC ACID L-serine

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Ligand Amino Acid Generic Number Segment Interaction Type
LYSOPHOSPHATIDIC ACID Y135 3.33x33 TM3 hydrophobic
L-serine Y135 3.33x33 TM3 Van der Waals
L-serine Y135 3.33x33 TM3 polar (hydrogen bond)
LYSOPHOSPHATIDIC ACID M136 3.34x34 TM3 hydrophobic
LYSOPHOSPHATIDIC ACID L181 4.52x52 TM4 Van der Waals
LYSOPHOSPHATIDIC ACID A182 4.53x53 TM4 Van der Waals
LYSOPHOSPHATIDIC ACID A182 4.53x53 TM4 hydrophobic
LYSOPHOSPHATIDIC ACID M189 4.60x60 TM4 hydrophobic
L-serine F205 45.51x51 ECL2 Van der Waals
L-serine H206 45.52x52 ECL2 Van der Waals
LYSOPHOSPHATIDIC ACID R208 ECL2 polar (charge-assisted hydrogen bond)
LYSOPHOSPHATIDIC ACID F219 5.39x39 TM5 Van der Waals
LYSOPHOSPHATIDIC ACID F219 5.39x39 TM5 hydrophobic
LYSOPHOSPHATIDIC ACID N220 5.40x40 TM5 polar (hydrogen bond)
LYSOPHOSPHATIDIC ACID N220 5.40x40 TM5 Van der Waals
LYSOPHOSPHATIDIC ACID L223 5.43x43 TM5 Van der Waals
LYSOPHOSPHATIDIC ACID L223 5.43x43 TM5 hydrophobic
LYSOPHOSPHATIDIC ACID M226 5.46x46 TM5 Van der Waals
LYSOPHOSPHATIDIC ACID M226 5.46x46 TM5 hydrophobic
L-serine R286 6.55x55 TM6 polar (charge-assisted hydrogen bond)
L-serine Y289 6.58x58 TM6 Van der Waals
L-serine N309 7.35x34 TM7 polar (hydrogen bond)
L-serine N309 7.35x34 TM7 Van der Waals
L-serine E310 7.36x35 TM7 polar (charge-assisted hydrogen bond)

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Download PDB file

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

GPCRdb(A)
GPCRdb(A)
GPR34
TM3
3x33 3.33x33 Y135
3x34 3.34x34 M136
TM4
4x52 4.52x52 L181
4x53 4.53x53 A182
4x60 4.60x60 M189
ECL2
45x51 45.51x51 F205
45x52 45.52x52 H206
TM5
5x39 5.39x39 F219
5x40 5.40x40 N220
5x43 5.43x43 L223
5x46 5.46x46 M226
TM6
6x55 6.55x55 R286
6x58 6.58x58 Y289
TM7
7x34 7.35x34 N309
7x35 7.36x35 E310