PDB
8XBG
Resolution
3.4 Å
Released
May 15, 2024
Receptor
GPR34
Class
A
Species
Homo sapiens
Ligand
Function
CHEMBL4782438
Agonist
Reference
10.1038/S41467-024-45046-Z

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Ligand Amino Acid Generic Number Segment Interaction Type
CHEMBL4782438 R110 2.60x60 TM2 polar (charge-charge)
CHEMBL4782438 K128 3.26x26 TM3 Van der Waals
CHEMBL4782438 G131 3.29x29 TM3 Van der Waals
CHEMBL4782438 T132 3.30x30 TM3 Van der Waals
CHEMBL4782438 Y135 3.33x33 TM3 hydrophobic
CHEMBL4782438 Y135 3.33x33 TM3 polar (hydrogen bond)
CHEMBL4782438 M136 3.34x34 TM3 hydrophobic
CHEMBL4782438 Y139 3.37x37 TM3 Van der Waals
CHEMBL4782438 I143 3.41x41 TM3 Van der Waals
CHEMBL4782438 A182 4.53x53 TM4 hydrophobic
CHEMBL4782438 F186 4.57x57 TM4 Van der Waals
CHEMBL4782438 M189 4.60x60 TM4 hydrophobic
CHEMBL4782438 T193 4.64x64 TM4 Van der Waals
CHEMBL4782438 F205 45.51x51 ECL2 polar (hydrogen bond with backbone)
CHEMBL4782438 H206 45.52x52 ECL2 Van der Waals
CHEMBL4782438 R208 ECL2 polar (charge-charge)
CHEMBL4782438 K210 ECL2 Van der Waals
CHEMBL4782438 E216 5.36x36 TM5 hydrophobic
CHEMBL4782438 F219 5.39x39 TM5 hydrophobic
CHEMBL4782438 N220 5.40x40 TM5 polar (hydrogen bond)
CHEMBL4782438 L223 5.43x43 TM5 hydrophobic
CHEMBL4782438 R286 6.55x55 TM6 polar (hydrogen bond)
CHEMBL4782438 R286 6.55x55 TM6 polar (charge-charge)
CHEMBL4782438 Y289 6.58x58 TM6 polar (hydrogen bond)
CHEMBL4782438 N309 7.35x34 TM7 polar (hydrogen bond)
CHEMBL4782438 E310 7.36x35 TM7 polar (charge-charge)
CHEMBL4782438 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
3x26 3.26x26 K128
3x29 3.29x29 G131
3x30 3.30x30 T132
3x33 3.33x33 Y135
3x34 3.34x34 M136
3x37 3.37x37 Y139
3x41 3.41x41 I143
TM4
4x53 4.53x53 A182
4x57 4.57x57 F186
4x60 4.60x60 M189
4x64 4.64x64 T193
ECL2
45x51 45.51x51 F205
45x52 45.52x52 H206
TM5
5x36 5.36x36 E216
5x39 5.39x39 F219
5x40 5.40x40 N220
5x43 5.43x43 L223
TM6
6x55 6.55x55 R286
6x58 6.58x58 Y289
TM7
7x34 7.35x34 N309
7x35 7.36x35 E310
7x38 7.39x38 L313