PDB
9U4W
Resolution
3.2 Å
Released
June 11, 2025
Receptor
GnRH1
Class
A
Species
Sus scrofa
Ligand
CHEMBL266314
Function
Agonist
Reference
10.1073/PNAS.2500112122

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Ligand Amino Acid Generic Number Segment Interaction Type
CHEMBL266314 P29 N-term polar (hydrogen bond)
CHEMBL266314 R38 1.35x35 TM1 polar (charge-assisted hydrogen bond)
CHEMBL266314 D98 2.61x60 TM2 polar (charge-assisted hydrogen bond)
CHEMBL266314 W101 2.64x63 TM2 polar (hydrogen bond)
CHEMBL266314 N102 2.65x64 TM2 polar (hydrogen bond)
CHEMBL266314 V105 ECL1 Van der Waals
CHEMBL266314 K121 3.32x32 TM3 polar (charge-assisted hydrogen bond)
CHEMBL266314 L122 3.33x33 TM3 Van der Waals
CHEMBL266314 M125 3.36x36 TM3 polar (hydrogen bond)
CHEMBL266314 Q174 4.60x61 TM4 Van der Waals
CHEMBL266314 F178 4.64x65 TM4 polar (hydrogen bond)
CHEMBL266314 F193 ECL2 polar (hydrogen bond)
CHEMBL266314 Q195 ECL2 polar (hydrogen bond)
CHEMBL266314 V197 45.51x51 ECL2 polar (hydrogen bond)
CHEMBL266314 T198 45.52x52 ECL2 Van der Waals
CHEMBL266314 H199 ECL2 Van der Waals
CHEMBL266314 T215 5.42x43 TM5 polar (hydrogen bond)
CHEMBL266314 T215 5.42x43 TM5 polar (hydrogen bond)
CHEMBL266314 L219 5.46x461 TM5 Van der Waals
CHEMBL266314 Y283 6.51x51 TM6 polar (hydrogen bond)
CHEMBL266314 Y283 6.51x51 TM6 polar (hydrogen bond)
CHEMBL266314 Y284 6.52x52 TM6 hydrophobic
CHEMBL266314 Y284 6.52x52 TM6 Van der Waals
CHEMBL266314 L286 6.54x54 TM6 Van der Waals
CHEMBL266314 G287 6.55x55 TM6 Van der Waals
CHEMBL266314 Y290 6.58x58 TM6 aromatic (face-to-edge)
CHEMBL266314 Y290 6.58x58 TM6 polar (hydrogen bond)
CHEMBL266314 W291 6.59x59 TM6 aromatic (edge-to-face)
CHEMBL266314 W291 6.59x59 TM6 Van der Waals
CHEMBL266314 M296 ECL3 polar (hydrogen bond)
CHEMBL266314 V297 ECL3 polar (hydrogen bond)
CHEMBL266314 N305 7.35x34 TM7 polar (hydrogen bond)
CHEMBL266314 N305 7.35x34 TM7 polar (hydrogen bond)
CHEMBL266314 H306 7.36x35 TM7 Van der Waals
CHEMBL266314 F309 7.39x38 TM7 polar (hydrogen bond)
CHEMBL266314 F309 7.39x38 TM7 aromatic (edge-to-face)

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

GPCRdb(A)
GPCRdb(A)
GnRH1 receptor
TM1
1x35 1.35x35 R38
TM2
2x60 2.61x60 D98
2x63 2.64x63 W101
2x64 2.65x64 N102
TM3
3x32 3.32x32 K121
3x33 3.33x33 L122
3x36 3.36x36 M125
TM4
4x61 4.60x61 Q174
4x65 4.64x65 F178
ECL2
45x51 45.51x51 V197
45x52 45.52x52 T198
TM5
5x43 5.42x43 T215
5x461 5.46x461 L219
TM6
6x51 6.51x51 Y283
6x52 6.52x52 Y284
6x54 6.54x54 L286
6x55 6.55x55 G287
6x58 6.58x58 Y290
6x59 6.59x59 W291
TM7
7x34 7.35x34 N305
7x35 7.36x35 H306
7x38 7.39x38 F309