Structure information

Rhodopsin

PROTEIN CLASS

Class A (Rhodopsin)

PDB CODE

4WW3

SPECIES

Todarodes pacificus

RESOLUTION

2.800

PREFERRED CHAIN

A

REFERENCE

10.1371/JOURNAL.PONE.0126970

PUBLICATION DATE

June 17, 2015

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

Download PDB file

Ligand Interaction Browser

Download list in excel
Ligand Amino Acid Generic Number Segment Interaction Type
Ligand Amino Acid Generic Number Segment Interaction Type
Retinal (all-trans) Y111 3.28x28 TM3 hydrophobic
Retinal (all-trans) F120 3.37x37 TM3 hydrophobic
Retinal (all-trans) F188 45.52x52 ECL2 hydrophobic
Retinal (all-trans) F205 5.43x44 TM5 hydrophobic
Retinal (all-trans) F209 5.47x47 TM5 hydrophobic
Retinal (all-trans) F270 6.44x44 TM6 hydrophobic
Retinal (all-trans) W274 6.48x48 TM6 hydrophobic
Retinal (all-trans) A278 6.52x52 TM6 hydrophobic

Ligands

Retinal (all-trans)

3D interaction viewer Download PDB file

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


Residue Diagrams

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

Residue Table


GPCRdb(A)
GPCRdb(A)
Rhodopsin
TM3
3x28 3.28x28 Y111
3x37 3.37x37 F120
ECL2
45x52 45.52x52 F188
TM5
5x44 5.43x44 F205
5x47 5.47x47 F209
TM6
6x44 6.44x44 F270
6x48 6.48x48 W274
6x52 6.52x52 A278