PDB
6XBL
Resolution
3.9 Å
Released
Sept. 30, 2020
Receptor
SMO
Class
F
Species
Homo sapiens
Ligands
SAG1.3
Cholesterol
Function
Agonist
Agonist
Reference
10.1038/S41589-020-0646-2
SAG1.3 Cholesterol

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Ligand Amino Acid Generic Number Segment Interaction Type
SAG1.3 N219 N-term polar (hydrogen bond)
SAG1.3 N219 N-term Van der Waals
Cholesterol W281 2.58x58 TM2 hydrophobic
SAG1.3 M301 ECL1 Van der Waals
SAG1.3 M301 ECL1 hydrophobic
SAG1.3 L303 ECL1 Van der Waals
SAG1.3 D382 ECL2 Van der Waals
SAG1.3 D384 ECL2 Van der Waals
Cholesterol F391 45.51x51 ECL2 hydrophobic
SAG1.3 Y394 ECL2 Van der Waals
Cholesterol Y394 ECL2 polar (hydrogen bond)
Cholesterol Y394 ECL2 Van der Waals
SAG1.3 Y394 ECL2 hydrophobic
SAG1.3 K395 ECL2 polar (charge-assisted hydrogen bond)
Cholesterol V404 5.47x47 TM5 Van der Waals
Cholesterol V404 5.47x47 TM5 hydrophobic
Cholesterol I408 5.51x51 TM5 hydrophobic
Cholesterol I408 5.51x51 TM5 Van der Waals
Cholesterol V463 6.44x44 TM6 Van der Waals
Cholesterol T466 6.47x47 TM6 Van der Waals
Cholesterol H470 6.51x51 TM6 Van der Waals
SAG1.3 D473 6.54x54 TM6 polar (charge-assisted hydrogen bond)
SAG1.3 W480 6.61x61 TM6 hydrophobic
SAG1.3 W480 6.61x61 TM6 Van der Waals
SAG1.3 E481 6.62x62 TM6 Van der Waals
SAG1.3 F484 6.65x65 TM6 hydrophobic
SAG1.3 F484 6.65x65 TM6 Van der Waals
SAG1.3 P513 ECL3 Van der Waals
SAG1.3 E518 7.38x38 TM7 Van der Waals
Cholesterol N521 7.41x41 TM7 Van der Waals
Cholesterol M525 7.45x45 TM7 hydrophobic
Cholesterol M525 7.45x45 TM7 Van der Waals
Cholesterol T528 7.48x48 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 W R N S N ICL1ECL1 M D G A R R E I V C R A D G T M R L G E P T S N E T ECL1ICL2 L G T T Y Q P L S G ICL2ECL2 Q V D G D S V S G I C F V G Y K ECL2ICL3 P G L L ICL3ECL3 G L P T K Q P I P D C E I K N R P ECL3N-term M A A A R P A R G P E L P L L G L L L L L L L G D P G R G A A S S G N A T G P G P R S A G G S A R R S A A V T G P P P P L S H C G R A A P C E P L R Y N V C L G S V L P Y G A T S T L L A G D S D S Q E E A H G K L V L W S G L R N A P R C W A V I Q P L L C A V Y M P K C E N D R V E L P S R T L C Q A T R G P C A I V E R E R G W P D F L R C T P D R F P E G C T N E V Q N I K F N S S G Q C E V P L V R T D N P K S W Y E D V E G C G I Q C Q N P L F N-termC-term G Q S D D E P K R I K K S K M I A K A F S K R H E L L Q N P G Q E L S F S M H T V S H D G P V A G L A F D L N E P S A D V S S A W A Q H V T K M V A R R G A I L P Q D I S V T P V A T P V P P E E Q A N L W L V E A E I S P E L Q K R L G R K K K R R K R K K E V C P L A P P P E L H P P A P A P S T I P R L P Q L P R Q K C L V A A G A W G A G D S C R Q G A W T L V S N P F C P E P S P P Q D P F L P S A P A P V A W A H G R R Q G L G P I H S R T N L M D T E L M D A D S D F C-term T E A E H Q D M H S Y I A A F G A V T G L C T L F T L A T F V A D R Y P A V I L F Y V N A C F F V G S I G W L A Q F L S C V I I F V I V Y Y A L M A G V V W F V V L T Y A W H T S F K A K T S Y F H L L T W S L P F V L T V A I L A V A N Y R Y R A G F V L A P I G L V L I V G G Y F L I R G V M T L F S I K S N H S E K A A S K I N E T M L R L G I F G F L A F G F V L I T F S C H F Y D F F N Q A E W E R S F R D Y V L C Q A N V T I S L L V E K I N L F A M F G T G I A M S T W V W T K A W R R L T T L L I T W C R
Helix box plot — Download: PNG | SVG L T C L G T V A G F A A I Y S H M D Q H 1 F Y V N A C F F V G S I G W L A Q F 2 V V F W V V G A M L A Y Y V I V F I I V 3 T S Y F H L L T W S L P F V L T V A I L 4 L F Y G G V I L V L G I P A L V F G A R Y 5 G I F G F L A F G F V L I T F S C H F Y 6 T S M A I G T G F M A F L N I K E V L L 7

GPCRdb(A)
GPCRdb(F)
SMO
TM2
2x57 2.58x58 W281
ECL2
45x51 45.51x51 F391
TM5
5x43 5.47x47 V404
5x47 5.51x51 I408
TM6
6x48 6.44x44 V463
6x51 6.47x47 T466
6x55 6.51x51 H470
6x58 6.54x54 D473
6x65 6.61x61 W480
6x66 6.62x62 E481
6x69 6.65x65 F484
TM7
7x35 7.38x38 E518
7x38 7.41x41 N521
7x42 7.45x45 M525
7x45 7.48x48 T528