File:Visual cycle.svg
Summary
| Description |
English: The chemical reactions involved in a visual cycle. Image generated as PDF using LaTeX and then converted to SVG using dvisvgm. The resulting SVG was manually edited. |
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| Date | |||
| Source | Own work | ||
| Author | Krishnavedala | ||
| SVG development | Category:Valid SVG created with Other tools:Diagrams#Visual%20cycle.svg
|
LaTeX Source Code
Click to the right to expand |
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\documentclass[12pt,border=0pt,tikz,class=scrartcl]{standalone}
\usepackage[T1]{fontenc}
\usepackage[latin1]{inputenc}
\usepackage{lmodern}
\usepackage{mathtools,amssymb}
\usepackage{pgfplots}
\pgfplotsset{compat=1.10}
\usetikzlibrary{positioning,calc,arrows,fit,backgrounds,decorations.text,shapes}
\usepackage{chemfig,chemmacros}
\renewcommand*{\familydefault}{\sfdefault}
\renewcommand*\printatom[1]{\ensuremath{\mathsf{#1}}}
\setatomsep{1.5em}
\setdoublesep{.6ex}
\setarrowdefault{,1,ultra thick}
\setbondstyle{thick,cap=round}
\pagestyle{empty}
\begin{document}
\begin{tikzpicture}
\node (n1) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=^[::-60]N(-[6,.6,,1,draw=none]H|^{\scriptstyle+})-[::60,,,1]R|hodopsin
)-(-[::-30])(-[::-90])--)}
};
\node at ($(n1)-(25em,0)$) (n2) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]O
)-(-[::-30])(-[::-90])--)}
};
\node at ($(n2)-(2,4.8)$) (n3) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[::60](-[2])
=_[::-60]-[::60]-[::-60]OH
)-(-[::-30])(-[::-90])--)}
};
\node at ($(n3)-(0,3.8)$) (n4) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[::60](-[2])
=_[::-60]-[::60]-[::-60]OH
)-(-[:120])(-[:60])--)}
};
\node at ($(n4.west)-(0,4)$) (n5) [anchor=west] {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[::60](-[2])
=_[::-60]-[::60]-[::-60]O-[::60](=[2]O)-[::-60]R
)-(-[:120])(-[:60])--)}
};
\node at ($(n5)+(34em,0)$) (n6) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[6](-[::-60])=^[::60]-[::-60]-[::60]OH
)-(-[:120])(-[:60])--)}
};
\node at ($(n6)+(0,4)$) (n7) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[6](-[::-60])=^[::60]-[::-60]=^[::60]O
)-(-[:120])(-[:60])--)}
};
\node at ($(n7.east)+(.1,2.9)$) (n8) [anchor=south east] {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[6](-[::-60])=^[::60]-[::-60]=^[::60]
N(-[6,.6,,1,draw=none]H|^{\scriptstyle+})-[::60,,,1]R|hodopsin
)-(-[:120])(-[:60])--)}
};
\node at ($(n5.east)!.5!(n6.west)-(3.7,4)$) (n9) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[6](-[::-60])=^[::60]-[::-60]-[::60]OH
)-(-[:120])(-[:60])--)}
};
\node at ($(n5.east)!.5!(n6.west)+(3.7,-4.5)$) (n10) {
\chemfig{*6(--(-)=(
-=_[::-60]-[::60](-[2])
=_[::-60]-[::60]=_[::-60]-[6](-[::-60])=^[::60]-[::-60]-[::60]O-[::-60] (-[::60]R)=[::-60]O
)-(-[:120])(-[:60])--)}
};
\begin{pgfonlayer}{background}
\node [rounded corners=2em,draw=green,fill=yellow!30,line width=6pt,fit=(n1) (n2) (n3) (n8),inner sep=8pt] (big1) {};
\node [rounded corners=2em,draw=green,fill=cyan!30,line width=6pt,fit=(n4) (n5) (n6) (n7) (n9) (n10),inner sep=8pt] (big2) {};
\end{pgfonlayer}
\draw [-latex,ultra thick]
(n1.west) -- (n2.east)
node [pos=.5,above] {\large\chemfig[green!50!black]{H_2O}};
\draw [-latex,ultra thick]
(n2.south) node [above right] {\large all-trans retinal}
-- (n3.north)
node [pos=.5,left] {\large\color{green!50!black}all-trans RDH};
\draw [-latex,ultra thick]
(n3.south) node [above right] {\large all-trans retinol}
-- (n4.north);
\draw [-latex,ultra thick]
(n4.south) node [above right] {\large all-trans retinol}
-- (n4.north |- n5.north)
node [pos=.5,right] {\large\color{green!50!black}LRAT};
\draw [-latex,ultra thick]
node at ($(n5)+(1,-1)$) {\large all-trans retinyl ester}
(n5.east) -- (n6.west)
node [pos=.5,above] {\large\color{green!50!black}RPE65};
\draw [very thick]
(n9.north) .. controls ++(0,1.5) and ++(-1.5,0) .. ($(n5.east)!.5!(n6.west)$);
\draw [-latex,very thick]
($(n5.east)!.5!(n6.west)$) .. controls ++(1.5,0) and ++(0,1.5) .. (n10.north);
\draw [-latex,ultra thick]
node at ($(n6)+(0,-1)$) {\large 11-cis retinol}
(n6.north) -- ($(n7.south)+(0,.45)$)
node [pos=.5,left] {\large\color{green!50!black}11-cis RDH}
node [pos=1,above] {\large 11-cis retinal};
\draw [-latex,ultra thick]
(n7.north) -- (n7.north |- n8.south)
node [pos=1,left] {\large 11-cis retinilidene};
\draw [-latex,ultra thick]
(n8.north) -- ($(n1.south)-(0,.1)$)
node [pos=1,above] {\large all-trans retinilidene}
node [pos=.5,right,inner xsep=8pt] {\large\color{green!50!black}h$\nu$};
\draw [decorate, decoration={brace,amplitude=2em}, ultra thick]
(big1.south west) -- (big1.north west)
node [pos=.5,anchor=south,xshift=-20pt,rotate=90] {\Large Rod outer segment};
\draw [decorate, decoration={brace,amplitude=2em}, ultra thick]
(big2.south west) -- (big2.north west)
node [pos=.5,anchor=south,xshift=-20pt,rotate=90] {\Large Retinal pigment epithelium};
\end{tikzpicture}
\end{document}
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Licensing
I, the copyright holder of this work, hereby publish it under the following license:
This file is licensed under the Creative Commons Attribution-Share Alike 4.0 International license.
- You are free:
- to share – to copy, distribute and transmit the work
- to remix – to adapt the work
- Under the following conditions:
- attribution – You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use.
- share alike – If you remix, transform, or build upon the material, you must distribute your contributions under the same or compatible license as the original.
