PDB
9J1P
Resolution
3.0 Å
Released
Feb. 26, 2025
Receptor
GLP-1
Class
B1
Species
Homo sapiens
Ligand
g1:Ox
Function
Agonist
Reference
10.1021/JACS.4C12808

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Ligand Amino Acid Generic Number Segment Interaction Type
g1:Ox L32 N-term hydrophobic
g1:Ox V36 N-term hydrophobic
g1:Ox W39 N-term aromatic (face-to-edge)
g1:Ox Y69 N-term hydrophobic
g1:Ox Y88 N-term hydrophobic
g1:Ox P90 N-term hydrophobic
g1:Ox W91 N-term hydrophobic
g1:Ox L118 N-term hydrophobic
g1:Ox R121 N-term polar (hydrogen bond with backbone)
g1:Ox R121 N-term polar (charge-assisted hydrogen bond)
g1:Ox L123 N-term Van der Waals
g1:Ox E127 N-term polar (hydrogen bond with backbone)
g1:Ox E127 N-term polar (charge-assisted hydrogen bond)
g1:Ox E128 N-term polar (charge-assisted hydrogen bond)
g1:Ox P137 N-term Van der Waals
g1:Ox E138 1.33x33 TM1 polar (charge-assisted hydrogen bond)
g1:Ox L141 1.36x36 TM1 hydrophobic
g1:Ox L141 1.36x36 TM1 Van der Waals
g1:Ox L144 1.39x39 TM1 Van der Waals
g1:Ox L144 1.39x39 TM1 hydrophobic
g1:Ox Y148 1.43x43 TM1 Van der Waals
g1:Ox Y148 1.43x43 TM1 aromatic (edge-to-face)
g1:Ox Y152 1.47x47 TM1 polar (hydrogen bond)
g1:Ox Y152 1.47x47 TM1 Van der Waals
g1:Ox R190 2.60x60 TM2 polar (charge-assisted hydrogen bond)
g1:Ox V194 2.64x64 TM2 Van der Waals
g1:Ox K197 2.67x67 TM2 polar (charge-assisted hydrogen bond)
g1:Ox L201 2.71x71 TM2 Van der Waals
g1:Ox L201 2.71x71 TM2 hydrophobic
g1:Ox Y205 ECL1 polar (hydrogen bond)
g1:Ox Y205 ECL1 Van der Waals
g1:Ox T207 ECL1 Van der Waals
g1:Ox Q210 ECL1 Van der Waals
g1:Ox W214 ECL1 aromatic (face-to-face)
g1:Ox W214 ECL1 Van der Waals
g1:Ox F230 3.33x33 TM3 Van der Waals
g1:Ox M233 3.36x36 TM3 hydrophobic
g1:Ox M233 3.36x36 TM3 Van der Waals
g1:Ox Q234 3.37x37 TM3 polar (hydrogen bond)
g1:Ox V237 3.40x40 TM3 Van der Waals
g1:Ox V237 3.40x40 TM3 hydrophobic
g1:Ox Y241 3.44x44 TM3 Van der Waals
g1:Ox T298 45.52x52 ECL2 polar (hydrogen bond)
g1:Ox T298 45.52x52 ECL2 Van der Waals
g1:Ox R299 ECL2 polar (charge-assisted hydrogen bond)
g1:Ox N300 ECL2 Van der Waals
g1:Ox W306 5.36x37 TM5 aromatic (edge-to-face)
g1:Ox W306 5.36x37 TM5 Van der Waals
g1:Ox I309 5.39x39 TM5 Van der Waals
g1:Ox D372 ECL3 polar (charge-assisted hydrogen bond)
g1:Ox R380 7.35x34 TM7 polar (charge-assisted hydrogen bond)
g1:Ox L384 7.39x38 TM7 Van der Waals
g1:Ox L384 7.39x38 TM7 hydrophobic
g1:Ox E387 7.42x41 TM7 Van der Waals
g1:Ox L388 7.43x42 TM7 Van der Waals
g1:Ox L388 7.43x42 TM7 hydrophobic

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

GPCRdb(A)
GPCRdb(B)
GLP-1 receptor
TM1
1x29 1.33x33 E138
1x32 1.36x36 L141
1x35 1.39x39 L144
1x39 1.43x43 Y148
1x43 1.47x47 Y152
TM2
2x53 2.60x60 R190
2x57 2.64x64 V194
2x60 2.67x67 K197
2x64 2.71x71 L201
TM3
3x29 3.33x33 F230
3x32 3.36x36 M233
3x33 3.37x37 Q234
3x36 3.40x40 V237
3x40 3.44x44 Y241
ECL2
45x52 45.52x52 T298
TM5
5x41 5.36x37 W306
5x43 5.39x39 I309
TM7
7x30 7.35x34 R380
7x34 7.39x38 L384
7x37 7.42x41 E387
7x38 7.43x42 L388