Structure information

Rhodopsin

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

4X1H

SPECIES

Bos taurus

RESOLUTION

2.290

PREFERRED CHAIN

A

REFERENCE

10.1016/J.STR.2015.09.015

PUBLICATION DATE

Nov. 4, 2015

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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
B-Nonylglucoside T118 3.33x33 TM3 polar (hydrogen bond with backbone)
B-Nonylglucoside T118 3.33x33 TM3 Van der Waals
B-Nonylglucoside G121 3.36x36 TM3 Van der Waals
B-Nonylglucoside E122 3.37x37 TM3 polar (charge-assisted hydrogen bond)
B-Nonylglucoside I189 45.52x52 ECL2 hydrophobic
B-Nonylglucoside I189 45.52x52 ECL2 Van der Waals
B-Nonylglucoside Y191 ECL2 hydrophobic
B-Nonylglucoside Y191 ECL2 Van der Waals
B-Nonylglucoside M207 5.42x43 TM5 Van der Waals
B-Nonylglucoside M207 5.42x43 TM5 hydrophobic
B-Nonylglucoside F212 5.47x47 TM5 hydrophobic
B-Nonylglucoside F212 5.47x47 TM5 Van der Waals
B-Nonylglucoside W265 6.48x48 TM6 hydrophobic
B-Nonylglucoside W265 6.48x48 TM6 Van der Waals
B-Nonylglucoside Y268 6.51x51 TM6 Van der Waals
B-Nonylglucoside Y268 6.51x51 TM6 polar (hydrogen bond)
B-Nonylglucoside A269 6.52x52 TM6 hydrophobic
B-Nonylglucoside A269 6.52x52 TM6 Van der Waals
B-Nonylglucoside A272 6.55x55 TM6 hydrophobic
B-Nonylglucoside A272 6.55x55 TM6 Van der Waals
B-Nonylglucoside K296 7.43x42 TM7 Van der Waals

Ligands

B-Nonylglucoside

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Residue Diagrams

F N I P F G L M I L L F M Y A A L M S F 1 L N L A V A D L F M V G F G F T T T L Y T 2 V V L S W L A I E G G L T A F F G E L N 3 A I M G V A F T W V M A L A C A A P P L 4 Y C F F I V I L P I I F H V V F M Y I V F 5 I I M V I A F L I C W L P Y A G V A F Y 6 V P N Y V A S T K A F F A P I T M F I 7
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ICL1 K K L R ICL1ECL1 Y F V F ECL1ICL2 P M S N F R F ICL2ECL2 W S R Y I P E G M Q C S C G I D Y Y T P H E E T ECL2ICL3 Q E ICL3ECL3 Q G S D F ECL3N-term M N G T E G P N F Y V P F S N K T G V V R S P F E A P Q Y Y L A N-termC-term C G K N P L G D D E A S T T V S K T E T S Q V A P A C-term E P W Q F S M L A A Y M F L L I M L G F P I N F L T L Y V T V Q H T P L N Y I L L N L A V A D L F M V F G G F T T T L Y T S L H G G P T G C N L E G F F A T L G G E I A L W S L V V L A I E R Y V V V C K G E N H A I M G V A F T W V M A L A C A A P P L V G N N E S F V I Y M F V V H F I I P L I V I F F C Y G Q L V F T V K E A A A Q Q S A T T Q K A E K E V T R M V I I M V I A F L I C W L P Y A G V A F Y I F T H G P I F M T I P A F F A K T S A V Y N P V I Y I M M N K Q M V T F R N C T L C
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Residue Table


GPCRdb(A)
GPCRdb(A)
Rhodopsin
TM3
3x33 3.33x33 T118
3x36 3.36x36 G121
3x37 3.37x37 E122
ECL2
45x52 45.52x52 I189
TM5
5x43 5.42x43 M207
5x47 5.47x47 F212
TM6
6x48 6.48x48 W265
6x51 6.51x51 Y268
6x52 6.52x52 A269
6x55 6.55x55 A272
TM7
7x42 7.43x42 K296