PDB
8YW5
Resolution
2.8 Å
Released
Aug. 7, 2024
Receptor
glucagon
Class
B1
Species
Homo sapiens
Ligand
Function
retatrutide
Agonist
Reference
10.1038/S41421-024-00700-0

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Ligand Amino Acid Generic Number Segment Interaction Type
retatrutide V28 N-term Van der Waals
retatrutide M29 N-term hydrophobic
retatrutide L32 N-term hydrophobic
retatrutide F33 N-term aromatic (edge-to-face)
retatrutide W36 N-term aromatic (edge-to-face)
retatrutide K64 N-term polar (charge-charge)
retatrutide Y65 N-term hydrophobic
retatrutide Y84 N-term hydrophobic
retatrutide L85 N-term hydrophobic
retatrutide P86 N-term Van der Waals
retatrutide W87 N-term hydrophobic
retatrutide W115 N-term Van der Waals
retatrutide A118 N-term hydrophobic
retatrutide Q131 1.29x29 TM1 Van der Waals
retatrutide V134 1.32x32 TM1 hydrophobic
retatrutide A135 1.33x33 TM1 hydrophobic
retatrutide Y138 1.36x36 TM1 aromatic (edge-to-face)
retatrutide Y138 1.36x36 TM1 hydrophobic
retatrutide F141 1.39x39 TM1 Van der Waals
retatrutide Q142 1.40x40 TM1 polar (hydrogen bond)
retatrutide Y145 1.43x43 TM1 hydrophobic
retatrutide Y149 1.47x47 TM1 polar (hydrogen bond)
retatrutide V191 2.64x64 TM2 hydrophobic
retatrutide L198 2.71x71 TM2 Van der Waals
retatrutide Y202 2.75x75 TM2 hydrophobic
retatrutide I206 ECL1 hydrophobic
retatrutide G207 ECL1 Van der Waals
retatrutide D208 ECL1 Van der Waals
retatrutide V212 ECL1 Van der Waals
retatrutide M231 3.36x36 TM3 Van der Waals
retatrutide I235 3.40x40 TM3 hydrophobic
retatrutide Q293 ECL2 polar (hydrogen bond)
retatrutide T296 45.52x52 ECL2 polar (hydrogen bond)
retatrutide S297 ECL2 Van der Waals
retatrutide N298 ECL2 polar (hydrogen bond with backbone)
retatrutide W304 5.36x37 TM5 hydrophobic
retatrutide R308 5.40x40 TM5 hydrophobic
retatrutide V311 5.43x43 TM5 Van der Waals
retatrutide E362 6.53x53 TM6 polar (charge-charge)
retatrutide Q374 ECL3 Van der Waals
retatrutide L382 7.39x38 TM7 hydrophobic
retatrutide D385 7.42x41 TM7 polar (charge-charge)
retatrutide D385 7.42x41 TM7 hydrophobic
retatrutide L386 7.43x42 TM7 hydrophobic
retatrutide S389 7.46x45 TM7 Van der Waals

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

GPCRdb(A)
GPCRdb(B)
glucagon receptor
TM1
1x25 1.29x29 Q131
1x28 1.32x32 V134
1x29 1.33x33 A135
1x32 1.36x36 Y138
1x35 1.39x39 F141
1x36 1.40x40 Q142
1x39 1.43x43 Y145
1x43 1.47x47 Y149
TM2
2x57 2.64x64 V191
2x64 2.71x71 L198
2x68 2.75x75 Y202
TM3
3x32 3.36x36 M231
3x36 3.40x40 I235
ECL2
45x52 45.52x52 T296
TM5
5x41 5.36x37 W304
5x44 5.40x40 R308
5x47 5.43x43 V311
TM6
6x48 6.53x53 E362
TM7
7x34 7.39x38 L382
7x37 7.42x41 D385
7x38 7.43x42 L386
7x41 7.46x45 S389