PDB
8YYW
Resolution
3.2 Å
Released
April 9, 2025
Receptor
oxoglutarate
Class
A
Species
Homo sapiens
Ligands
Function
α-ketoglutaric acid (E:602)
Agonist
α-ketoglutaric acid (E:601)
Agonist
Reference
10.1038/S41467-025-67101-Z
α-ketoglutaric acid (E:602) α-ketoglutaric acid (E:601)

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Ligand Amino Acid Generic Number Segment Interaction Type
α-ketoglutaric acid (E:601) D26 N-term Van der Waals
α-ketoglutaric acid (E:601) K32 1.31x31 TM1 polar (hydrogen bond)
α-ketoglutaric acid (E:601) K32 1.31x31 TM1 polar (charge-charge)
α-ketoglutaric acid (E:601) Y92 2.63x63 TM2 polar (hydrogen bond)
α-ketoglutaric acid (E:601) E97 ECL1 Van der Waals
α-ketoglutaric acid (E:602) R110 3.29x29 TM3 polar (charge-charge)
α-ketoglutaric acid (E:602) R110 3.29x29 TM3 polar (hydrogen bond)
α-ketoglutaric acid (E:601) R110 3.29x29 TM3 polar (charge-charge)
α-ketoglutaric acid (E:602) F113 3.32x32 TM3 Van der Waals
α-ketoglutaric acid (E:602) H114 3.33x33 TM3 polar (hydrogen bond)
α-ketoglutaric acid (E:602) H114 3.33x33 TM3 polar (charge-charge)
α-ketoglutaric acid (E:601) R180 ECL2 polar (charge-charge)
α-ketoglutaric acid (E:601) A182 ECL2 Van der Waals
α-ketoglutaric acid (E:601) C183 45.50x50 ECL2 Van der Waals
α-ketoglutaric acid (E:601) L184 45.51x51 ECL2 Van der Waals
α-ketoglutaric acid (E:602) D185 45.52x52 ECL2 hydrophobic
α-ketoglutaric acid (E:601) D185 45.52x52 ECL2 Van der Waals
α-ketoglutaric acid (E:602) L186 ECL2 Van der Waals
α-ketoglutaric acid (E:602) T187 ECL2 hydrophobic
α-ketoglutaric acid (E:602) F257 6.51x51 TM6 Van der Waals
α-ketoglutaric acid (E:602) R261 6.55x55 TM6 polar (hydrogen bond)
α-ketoglutaric acid (E:602) R261 6.55x55 TM6 polar (charge-charge)
α-ketoglutaric acid (E:601) H281 7.32x31 TM7 Van der Waals
α-ketoglutaric acid (E:602) Y284 7.35x34 TM7 polar (hydrogen bond)
α-ketoglutaric acid (E:602) Y284 7.35x34 TM7 hydrophobic
α-ketoglutaric acid (E:602) R288 7.39x38 TM7 polar (hydrogen bond)
α-ketoglutaric acid (E:602) R288 7.39x38 TM7 polar (charge-charge)

NGL is a WebGL based 3D viewer powered by MMTF.

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

GPCRdb(A)
GPCRdb(A)
oxoglutarate receptor
TM1
1x31 1.31x31 K32
TM2
2x63 2.63x63 Y92
TM3
3x29 3.29x29 R110
3x32 3.32x32 F113
3x33 3.33x33 H114
ECL2
45x50 45.50x50 C183
45x51 45.51x51 L184
45x52 45.52x52 D185
TM6
6x51 6.51x51 F257
6x55 6.55x55 R261
TM7
7x31 7.32x31 H281
7x34 7.35x34 Y284
7x38 7.39x38 R288