PDB
8IZ4
Resolution
2.9 Å
Released
April 10, 2024
Receptor
GPR34
Class
A
Species
Homo sapiens
Ligands
L-serine
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate
Function
Agonist
Agonist
Reference
—
L-serine [(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate

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Ligand Amino Acid Generic Number Segment Interaction Type
L-serine R110 2.60x60 TM2 polar (charge-assisted hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate T132 3.30x30 TM3 polar (hydrogen bond with backbone)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate T132 3.30x30 TM3 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate T132 3.30x30 TM3 polar (hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate Y135 3.33x33 TM3 hydrophobic
L-serine Y135 3.33x33 TM3 polar (hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate Y135 3.33x33 TM3 Van der Waals
L-serine Y135 3.33x33 TM3 polar (hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate M136 3.34x34 TM3 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate M136 3.34x34 TM3 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate L181 4.52x52 TM4 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate L181 4.52x52 TM4 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate A182 4.53x53 TM4 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate A182 4.53x53 TM4 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate M189 4.60x60 TM4 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate M189 4.60x60 TM4 Van der Waals
L-serine F205 45.51x51 ECL2 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate F205 45.51x51 ECL2 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate R208 ECL2 polar (charge-assisted hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate F219 5.39x39 TM5 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate F219 5.39x39 TM5 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate N220 5.40x40 TM5 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate N220 5.40x40 TM5 polar (hydrogen bond)
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate I222 5.42x42 TM5 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate I222 5.42x42 TM5 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate L223 5.43x43 TM5 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate L223 5.43x43 TM5 hydrophobic
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate M226 5.46x46 TM5 Van der Waals
[(2R)-2-oxidanyl-3-phosphonooxy-propyl] octadecanoate R286 6.55x55 TM6 polar (charge-assisted hydrogen bond)
L-serine R286 6.55x55 TM6 polar (charge-assisted hydrogen bond)
L-serine Y289 6.58x58 TM6 polar (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)
L-serine L313 7.39x38 TM7 Van der Waals

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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
TM2
2x60 2.60x60 R110
TM3
3x30 3.30x30 T132
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
TM5
5x39 5.39x39 F219
5x40 5.40x40 N220
5x42 5.42x42 I222
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
7x38 7.39x38 L313