PDB
8JIS
Resolution
2.5 Å
Released
Nov. 8, 2023
Receptor
GLP-1
Class
B1
Species
Homo sapiens
Ligand
Peptide 15 (P15)
Function
Agonist
Reference
10.1073/PNAS.2303696120

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Ligand Amino Acid Generic Number Segment Interaction Type
Peptide 15 (P15) V30 N-term polar (hydrogen bond with backbone)
Peptide 15 (P15) V30 N-term Van der Waals
Peptide 15 (P15) S31 N-term Van der Waals
Peptide 15 (P15) L32 N-term Van der Waals
Peptide 15 (P15) L32 N-term polar (hydrogen bond with backbone)
Peptide 15 (P15) V36 N-term hydrophobic
Peptide 15 (P15) V36 N-term Van der Waals
Peptide 15 (P15) W39 N-term hydrophobic
Peptide 15 (P15) W39 N-term Van der Waals
Peptide 15 (P15) Y69 N-term Van der Waals
Peptide 15 (P15) Y88 N-term polar (hydrogen bond)
Peptide 15 (P15) E138 N-term Van der Waals
Peptide 15 (P15) L141 1.36x36 TM1 Van der Waals
Peptide 15 (P15) L141 1.36x36 TM1 hydrophobic
Peptide 15 (P15) L144 1.39x39 TM1 hydrophobic
Peptide 15 (P15) Y145 1.40x40 TM1 Van der Waals
Peptide 15 (P15) Y148 1.43x43 TM1 Van der Waals
Peptide 15 (P15) Y148 1.43x43 TM1 aromatic (edge-to-face)
Peptide 15 (P15) Y152 1.47x47 TM1 Van der Waals
Peptide 15 (P15) V194 2.64x64 TM2 Van der Waals
Peptide 15 (P15) K197 2.67x67 TM2 polar (charge-assisted hydrogen bond)
Peptide 15 (P15) L201 2.71x71 TM2 hydrophobic
Peptide 15 (P15) L201 2.71x71 TM2 Van der Waals
Peptide 15 (P15) K202 2.72x72 TM2 Van der Waals
Peptide 15 (P15) Y205 2.75x75 TM2 Van der Waals
Peptide 15 (P15) Y205 2.75x75 TM2 hydrophobic
Peptide 15 (P15) W214 ECL1 aromatic (face-to-face)
Peptide 15 (P15) W214 ECL1 Van der Waals
Peptide 15 (P15) Q234 3.37x37 TM3 polar (hydrogen bond)
Peptide 15 (P15) V237 3.40x40 TM3 Van der Waals
Peptide 15 (P15) V237 3.40x40 TM3 hydrophobic
Peptide 15 (P15) T298 45.52x52 ECL2 Van der Waals
Peptide 15 (P15) T298 45.52x52 ECL2 polar (hydrogen bond)
Peptide 15 (P15) R299 ECL2 polar (charge-assisted hydrogen bond)
Peptide 15 (P15) N300 ECL2 polar (hydrogen bond with backbone)
Peptide 15 (P15) N300 ECL2 Van der Waals
Peptide 15 (P15) W306 5.36x37 TM5 Van der Waals
Peptide 15 (P15) W306 5.36x37 TM5 hydrophobic
Peptide 15 (P15) E373 ECL3 polar (charge-assisted hydrogen bond)
Peptide 15 (P15) R380 7.35x34 TM7 polar (charge-assisted hydrogen bond)
Peptide 15 (P15) L384 7.39x38 TM7 hydrophobic
Peptide 15 (P15) L384 7.39x38 TM7 Van der Waals
Peptide 15 (P15) E387 7.42x41 TM7 Van der Waals
Peptide 15 (P15) L388 7.43x42 TM7 hydrophobic
Peptide 15 (P15) L388 7.43x42 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
1x32 1.36x36 L141
1x35 1.39x39 L144
1x36 1.40x40 Y145
1x39 1.43x43 Y148
1x43 1.47x47 Y152
TM2
2x57 2.64x64 V194
2x60 2.67x67 K197
2x64 2.71x71 L201
2x65 2.72x72 K202
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
7x34 7.39x38 L384
7x37 7.42x41 E387
7x38 7.43x42 L388