PDB
9EBO
Resolution
3.1 Å
Released
March 26, 2025
Receptor
GLP-1
Class
B1
Species
Homo sapiens
Ligand
GLP-1 (ACPC18)
Function
Agonist
Reference
10.1073/PNAS.2407574122

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Ligand Amino Acid Generic Number Segment Interaction Type
GLP-1 (ACPC18) L32 N-term Van der Waals
GLP-1 (ACPC18) L32 N-term polar (hydrogen bond with backbone)
GLP-1 (ACPC18) V36 N-term hydrophobic
GLP-1 (ACPC18) V36 N-term Van der Waals
GLP-1 (ACPC18) W39 N-term Van der Waals
GLP-1 (ACPC18) W39 N-term hydrophobic
GLP-1 (ACPC18) E68 N-term Van der Waals
GLP-1 (ACPC18) W91 N-term hydrophobic
GLP-1 (ACPC18) W91 N-term Van der Waals
GLP-1 (ACPC18) E138 1.33x33 TM1 polar (charge-assisted hydrogen bond)
GLP-1 (ACPC18) L141 1.36x36 TM1 Van der Waals
GLP-1 (ACPC18) L141 1.36x36 TM1 hydrophobic
GLP-1 (ACPC18) L144 1.39x39 TM1 Van der Waals
GLP-1 (ACPC18) L144 1.39x39 TM1 hydrophobic
GLP-1 (ACPC18) Y148 1.43x43 TM1 Van der Waals
GLP-1 (ACPC18) Y152 1.47x47 TM1 Van der Waals
GLP-1 (ACPC18) Y152 1.47x47 TM1 polar (hydrogen bond)
GLP-1 (ACPC18) R190 2.60x60 TM2 polar (charge-assisted hydrogen bond)
GLP-1 (ACPC18) K197 2.67x67 TM2 polar (charge-assisted hydrogen bond)
GLP-1 (ACPC18) Y205 2.75x75 TM2 polar (hydrogen bond)
GLP-1 (ACPC18) Y205 2.75x75 TM2 Van der Waals
GLP-1 (ACPC18) W214 ECL1 Van der Waals
GLP-1 (ACPC18) W214 ECL1 hydrophobic
GLP-1 (ACPC18) Q234 3.37x37 TM3 Van der Waals
GLP-1 (ACPC18) V237 3.40x40 TM3 hydrophobic
GLP-1 (ACPC18) V237 3.40x40 TM3 Van der Waals
GLP-1 (ACPC18) T298 45.52x52 ECL2 Van der Waals
GLP-1 (ACPC18) R299 ECL2 polar (charge-assisted hydrogen bond)
GLP-1 (ACPC18) W306 5.36x37 TM5 aromatic (edge-to-face)
GLP-1 (ACPC18) D372 ECL3 polar (charge-assisted hydrogen bond)
GLP-1 (ACPC18) R380 7.35x34 TM7 Van der Waals
GLP-1 (ACPC18) E387 7.42x41 TM7 Van der Waals
GLP-1 (ACPC18) L388 7.43x42 TM7 Van der Waals
GLP-1 (ACPC18) T391 7.46x45 TM7 Van der Waals

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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
2x60 2.67x67 K197
2x68 2.75x75 Y205
TM3
3x33 3.37x37 Q234
3x36 3.40x40 V237
ECL2
45x52 45.52x52 T298
TM5
5x41 5.36x37 W306
TM7
7x30 7.35x34 R380
7x37 7.42x41 E387
7x38 7.43x42 L388
7x41 7.46x45 T391