Structure information

GLP-1 receptor

PROTEIN CLASS

Class B1 (Secretin)

PDB CODE

6VCB

SPECIES

Homo sapiens

RESOLUTION

3.300

PREFERRED CHAIN

R

REFERENCE

10.1038/S41589-020-0589-7

PUBLICATION DATE

July 22, 2020

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Ligand Interaction Browser

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Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
glucagon-like peptide 1-(7-37) V30 N-term polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) V30 N-term Van der Waals
glucagon-like peptide 1-(7-37) S31 N-term Van der Waals
glucagon-like peptide 1-(7-37) L32 N-term polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) L32 N-term Van der Waals
glucagon-like peptide 1-(7-37) V36 N-term hydrophobic
glucagon-like peptide 1-(7-37) W39 N-term Van der Waals
glucagon-like peptide 1-(7-37) W39 N-term hydrophobic
glucagon-like peptide 1-(7-37) E68 N-term Van der Waals
glucagon-like peptide 1-(7-37) Y69 N-term Van der Waals
glucagon-like peptide 1-(7-37) Y88 N-term Van der Waals
glucagon-like peptide 1-(7-37) W91 N-term hydrophobic
glucagon-like peptide 1-(7-37) W91 N-term Van der Waals
glucagon-like peptide 1-(7-37) R121 N-term polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) L123 N-term hydrophobic
glucagon-like peptide 1-(7-37) S136 N-term Van der Waals
glucagon-like peptide 1-(7-37) P137 N-term Van der Waals
glucagon-like peptide 1-(7-37) P137 N-term hydrophobic
glucagon-like peptide 1-(7-37) E138 1.33x33 TM1 polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) L141 1.36x36 TM1 Van der Waals
glucagon-like peptide 1-(7-37) L141 1.36x36 TM1 hydrophobic
CHEMBL5197819 L142 1.37x37 TM1 hydrophobic
glucagon-like peptide 1-(7-37) L144 1.39x39 TM1 hydrophobic
glucagon-like peptide 1-(7-37) L144 1.39x39 TM1 Van der Waals
glucagon-like peptide 1-(7-37) Y145 1.40x40 TM1 hydrophobic
CHEMBL5197819 Y145 1.40x40 TM1 hydrophobic
glucagon-like peptide 1-(7-37) Y148 1.43x43 TM1 aromatic (edge-to-face)
glucagon-like peptide 1-(7-37) Y148 1.43x43 TM1 Van der Waals
glucagon-like peptide 1-(7-37) Y152 1.47x47 TM1 polar (hydrogen bond)
glucagon-like peptide 1-(7-37) R190 2.60x60 TM2 polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) K197 2.67x67 TM2 polar (charge-assisted hydrogen bond)
CHEMBL5197819 D198 2.68x68 TM2 Van der Waals
CHEMBL5197819 D198 2.68x68 TM2 polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) L201 2.71x71 TM2 Van der Waals
CHEMBL5197819 L201 2.71x71 TM2 hydrophobic
CHEMBL5197819 L201 2.71x71 TM2 Van der Waals
CHEMBL5197819 K202 2.72x72 TM2 Van der Waals
glucagon-like peptide 1-(7-37) Y205 2.75x75 TM2 polar (hydrogen bond)
CHEMBL5197819 S206 2.76x76 TM2 Van der Waals
glucagon-like peptide 1-(7-37) A209 ECL1 Van der Waals
glucagon-like peptide 1-(7-37) A209 ECL1 polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) Q210 ECL1 polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) Q210 ECL1 Van der Waals
glucagon-like peptide 1-(7-37) H212 ECL1 aromatic (face-to-face)
glucagon-like peptide 1-(7-37) H212 ECL1 Van der Waals
glucagon-like peptide 1-(7-37) W214 ECL1 aromatic (face-to-edge)
glucagon-like peptide 1-(7-37) W214 ECL1 Van der Waals
glucagon-like peptide 1-(7-37) F230 3.33x33 TM3 Van der Waals
glucagon-like peptide 1-(7-37) M233 3.36x36 TM3 Van der Waals
glucagon-like peptide 1-(7-37) Q234 3.37x37 TM3 polar (hydrogen bond)
glucagon-like peptide 1-(7-37) Q234 3.37x37 TM3 Van der Waals
glucagon-like peptide 1-(7-37) V237 3.40x40 TM3 Van der Waals
glucagon-like peptide 1-(7-37) V237 3.40x40 TM3 hydrophobic
glucagon-like peptide 1-(7-37) Y241 3.44x44 TM3 hydrophobic
glucagon-like peptide 1-(7-37) Y241 3.44x44 TM3 Van der Waals
glucagon-like peptide 1-(7-37) T298 45.52x52 ECL2 Van der Waals
glucagon-like peptide 1-(7-37) R299 ECL2 polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) R299 ECL2 polar (hydrogen bond with backbone)
glucagon-like peptide 1-(7-37) N300 ECL2 polar (hydrogen bond)
glucagon-like peptide 1-(7-37) W306 5.36x37 TM5 Van der Waals
glucagon-like peptide 1-(7-37) W306 5.36x37 TM5 aromatic (edge-to-face)
glucagon-like peptide 1-(7-37) R310 5.40x40 TM5 Van der Waals
glucagon-like peptide 1-(7-37) I313 5.43x43 TM5 hydrophobic
glucagon-like peptide 1-(7-37) D372 ECL3 polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) R380 7.35x34 TM7 polar (charge-assisted hydrogen bond)
glucagon-like peptide 1-(7-37) L384 7.39x38 TM7 hydrophobic
glucagon-like peptide 1-(7-37) L384 7.39x38 TM7 Van der Waals
glucagon-like peptide 1-(7-37) L388 7.43x42 TM7 hydrophobic
glucagon-like peptide 1-(7-37) L388 7.43x42 TM7 Van der Waals

Ligands

glucagon-like peptide 1-(7-37)

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CHEMBL5197819

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Residue Diagrams

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
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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
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Residue Table


GPCRdb(A)
GPCRdb(B)
GLP-1 receptor
TM1
1x29 1.33x33 E138
1x32 1.36x36 L141
1x33 1.37x37 L142
1x35 1.39x39 L144
1x36 1.40x40 Y145
1x39 1.43x43 Y148
1x43 1.47x47 Y152
TM2
2x53 2.60x60 R190
2x60 2.67x67 K197
2x61 2.68x68 D198
2x64 2.71x71 L201
2x65 2.72x72 K202
2x68 2.75x75 Y205
2x69 2.76x76 S206
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
5x44 5.40x40 R310
5x47 5.43x43 I313
TM7
7x30 7.35x34 R380
7x34 7.39x38 L384
7x38 7.43x42 L388