PDB
8XFS
Resolution
3.2 Å
Released
Dec. 4, 2024
Receptor
LGR4
Class
A
Species
Homo sapiens
Ligands
R-spondin-2
E3 ubiquitin-protein ligase ZNRF3
Function
Agonist
Unknown
Reference
—
R-spondin-2 E3 ubiquitin-protein ligase ZNRF3

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Ligand Amino Acid Generic Number Segment Interaction Type
R-spondin-2 Q113 N-term polar (hydrogen bond)
R-spondin-2 N114 N-term polar (hydrogen bond)
R-spondin-2 N114 N-term Van der Waals
R-spondin-2 D137 N-term polar (charge-assisted hydrogen bond)
R-spondin-2 A138 N-term hydrophobic
R-spondin-2 A138 N-term Van der Waals
R-spondin-2 H140 N-term polar (hydrogen bond)
R-spondin-2 H157 N-term aromatic (face-to-edge)
R-spondin-2 H157 N-term Van der Waals
R-spondin-2 W159 N-term Van der Waals
R-spondin-2 W159 N-term hydrophobic
R-spondin-2 D161 N-term Van der Waals
R-spondin-2 D162 N-term Van der Waals
R-spondin-2 Q180 N-term polar (hydrogen bond)
R-spondin-2 Q180 N-term Van der Waals
R-spondin-2 A181 N-term hydrophobic
R-spondin-2 A181 N-term Van der Waals
R-spondin-2 T183 N-term Van der Waals
R-spondin-2 L186 N-term Van der Waals
R-spondin-2 L186 N-term hydrophobic
R-spondin-2 V204 N-term hydrophobic
R-spondin-2 V204 N-term Van der Waals
R-spondin-2 V205 N-term Van der Waals
R-spondin-2 V205 N-term hydrophobic
R-spondin-2 H207 N-term polar (hydrogen bond)
R-spondin-2 H207 N-term Van der Waals
R-spondin-2 H209 N-term Van der Waals
R-spondin-2 N226 N-term Van der Waals
R-spondin-2 T229 N-term polar (hydrogen bond)
E3 ubiquitin-protein ligase ZNRF3 G435 N-term polar (hydrogen bond with backbone)
E3 ubiquitin-protein ligase ZNRF3 G435 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 N437 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 N437 N-term polar (hydrogen bond)
E3 ubiquitin-protein ligase ZNRF3 N458 N-term polar (hydrogen bond)
E3 ubiquitin-protein ligase ZNRF3 N458 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 R460 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 D477 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 I519 N-term hydrophobic
E3 ubiquitin-protein ligase ZNRF3 I519 N-term Van der Waals
E3 ubiquitin-protein ligase ZNRF3 S538 1.32x32 TM1 Van der Waals
E3 ubiquitin-protein ligase ZNRF3 M540 1.34x34 TM1 hydrophobic
E3 ubiquitin-protein ligase ZNRF3 M540 1.34x34 TM1 Van der Waals
E3 ubiquitin-protein ligase ZNRF3 I541 1.35x35 TM1 hydrophobic
E3 ubiquitin-protein ligase ZNRF3 I541 1.35x35 TM1 Van der Waals
E3 ubiquitin-protein ligase ZNRF3 E780 7.32x31 TM7 Van der Waals
E3 ubiquitin-protein ligase ZNRF3 S784 7.36x35 TM7 Van der Waals

NGL is a WebGL based 3D viewer powered by MMTF.

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NGL is a WebGL based 3D viewer powered by MMTF.

Download PDB file

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

GPCRdb(A)
GPCRdb(A)
LGR4
TM1
1x32 1.32x32 S538
1x34 1.34x34 M540
1x35 1.35x35 I541
TM7
7x31 7.32x31 E780
7x35 7.36x35 S784