PDB
6X18
Resolution
2.1 Å
Released
Sept. 9, 2020
Receptor
GLP-1
Class
B1
Species
Homo sapiens
Ligand
GLP-1(7-36)NH2
Function
Agonist
Reference
10.1016/J.MOLCEL.2020.09.020

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Ligand Amino Acid Generic Number Segment Interaction Type
GLP-1(7-36)NH2 L32 N-term Van der Waals
GLP-1(7-36)NH2 L32 N-term polar (hydrogen bond with backbone)
GLP-1(7-36)NH2 T35 N-term Van der Waals
GLP-1(7-36)NH2 V36 N-term hydrophobic
GLP-1(7-36)NH2 V36 N-term Van der Waals
GLP-1(7-36)NH2 W39 N-term aromatic (face-to-edge)
GLP-1(7-36)NH2 W39 N-term Van der Waals
GLP-1(7-36)NH2 E68 N-term Van der Waals
GLP-1(7-36)NH2 Y69 N-term hydrophobic
GLP-1(7-36)NH2 Y69 N-term Van der Waals
GLP-1(7-36)NH2 P90 N-term hydrophobic
GLP-1(7-36)NH2 P90 N-term Van der Waals
GLP-1(7-36)NH2 W91 N-term Van der Waals
GLP-1(7-36)NH2 W91 N-term hydrophobic
GLP-1(7-36)NH2 R121 N-term polar (charge-assisted hydrogen bond)
GLP-1(7-36)NH2 E128 N-term Van der Waals
GLP-1(7-36)NH2 P137 N-term Van der Waals
GLP-1(7-36)NH2 P137 N-term hydrophobic
GLP-1(7-36)NH2 E138 1.33x33 TM1 Van der Waals
GLP-1(7-36)NH2 L141 1.36x36 TM1 Van der Waals
GLP-1(7-36)NH2 L141 1.36x36 TM1 hydrophobic
GLP-1(7-36)NH2 L144 1.39x39 TM1 hydrophobic
GLP-1(7-36)NH2 L144 1.39x39 TM1 Van der Waals
GLP-1(7-36)NH2 Y145 1.40x40 TM1 hydrophobic
GLP-1(7-36)NH2 Y148 1.43x43 TM1 Van der Waals
GLP-1(7-36)NH2 Y148 1.43x43 TM1 aromatic (edge-to-face)
GLP-1(7-36)NH2 Y152 1.47x47 TM1 polar (hydrogen bond)
GLP-1(7-36)NH2 Y152 1.47x47 TM1 polar (hydrogen bond)
GLP-1(7-36)NH2 R190 2.60x60 TM2 polar (charge-assisted hydrogen bond)
GLP-1(7-36)NH2 V194 2.64x64 TM2 Van der Waals
GLP-1(7-36)NH2 K197 2.67x67 TM2 polar (charge-assisted hydrogen bond)
GLP-1(7-36)NH2 L201 2.71x71 TM2 Van der Waals
GLP-1(7-36)NH2 L201 2.71x71 TM2 hydrophobic
GLP-1(7-36)NH2 Y205 ECL1 polar (hydrogen bond)
GLP-1(7-36)NH2 Y205 ECL1 Van der Waals
GLP-1(7-36)NH2 Q210 ECL1 Van der Waals
GLP-1(7-36)NH2 Q210 ECL1 polar (hydrogen bond)
GLP-1(7-36)NH2 W214 ECL1 hydrophobic
GLP-1(7-36)NH2 W214 ECL1 Van der Waals
GLP-1(7-36)NH2 F230 3.33x33 TM3 Van der Waals
GLP-1(7-36)NH2 M233 3.36x36 TM3 Van der Waals
GLP-1(7-36)NH2 Q234 3.37x37 TM3 polar (hydrogen bond)
GLP-1(7-36)NH2 V237 3.40x40 TM3 hydrophobic
GLP-1(7-36)NH2 V237 3.40x40 TM3 Van der Waals
GLP-1(7-36)NH2 Y241 3.44x44 TM3 polar (hydrogen bond)
GLP-1(7-36)NH2 T298 45.52x52 ECL2 polar (hydrogen bond with backbone)
GLP-1(7-36)NH2 T298 45.52x52 ECL2 Van der Waals
GLP-1(7-36)NH2 T298 45.52x52 ECL2 polar (hydrogen bond)
GLP-1(7-36)NH2 R299 ECL2 polar (charge-assisted hydrogen bond)
GLP-1(7-36)NH2 N300 ECL2 Van der Waals
GLP-1(7-36)NH2 N300 ECL2 polar (hydrogen bond with backbone)
GLP-1(7-36)NH2 W306 5.36x37 TM5 aromatic (edge-to-face)
GLP-1(7-36)NH2 W306 5.36x37 TM5 Van der Waals
GLP-1(7-36)NH2 I309 5.39x39 TM5 Van der Waals
GLP-1(7-36)NH2 R310 5.40x40 TM5 polar (hydrogen bond with backbone)
GLP-1(7-36)NH2 R310 5.40x40 TM5 Van der Waals
GLP-1(7-36)NH2 I313 5.43x43 TM5 Van der Waals
GLP-1(7-36)NH2 D372 ECL3 Van der Waals
GLP-1(7-36)NH2 R380 7.35x34 TM7 polar (charge-assisted hydrogen bond)
GLP-1(7-36)NH2 L384 7.39x38 TM7 hydrophobic
GLP-1(7-36)NH2 L384 7.39x38 TM7 Van der Waals
GLP-1(7-36)NH2 E387 7.42x41 TM7 Van der Waals
GLP-1(7-36)NH2 L388 7.43x42 TM7 polar (hydrogen bond with backbone)
GLP-1(7-36)NH2 L388 7.43x42 TM7 Van der Waals
GLP-1(7-36)NH2 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
1x36 1.40x40 Y145
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
5x44 5.40x40 R310
5x47 5.43x43 I313
TM7
7x30 7.35x34 R380
7x34 7.39x38 L384
7x37 7.42x41 E387
7x38 7.43x42 L388
7x41 7.46x45 T391