How to convert Convert SDF to SVG (Scalable Vector Graphics) using "sdf2svg" PHP script? I want to see the molecule structure as a SVG file.

If you want to convert molecule structures in SDF format to SVG (Scalable Vector Graphics) format to be viewed on Web pages directly, you can download and install the "sdf2svg" open source PHP script developed by Ronnie Persson.

1. Download "df2svg_beta_with_samples.zip" from sourceforge.net/projects/sdf2svg under the "beta_with_sample" folder.

2. Unzip all files from "df2svg_beta_with_samples.zip" into a folder called "sdf2svg". You should see the following contents:

fyicenter$ ls -l sdf2svg
-rwxr-xr-x   1 fyicenter  staff   1141 Apr  6 19:52 index.html
-rwxr-xr-x@  1 fyicenter  staff   3416 Apr  6 19:46 outputsvg.php
-rwxr-xr-x@  1 fyicenter  staff   2311 Apr  6 19:46 sample.php
-rwxr-xr-x@  1 fyicenter  staff  14956 Apr  6 19:46 sample.sdf
-rwxr-xr-x@  1 fyicenter  staff   3463 Apr  6 19:46 sample2.php
drwxr-xr-x@ 12 fyicenter  staff    408 Apr  6 19:46 sdf2svg

3. Move this folder to the Apache Web server. And adjust ownership and permission of this folder to be served as PHP scripts.

4. Run the first sample PHP page. You should see a picture of 4 molecules in SVG format converted from a SDF file.

5. If you are using the latest PHP release, you have to fix few syntax issues in the PHP script source code.

⇒ Online Tools for SDF/Mol File

⇐ Convert SDF to SVG using Open Babel

⇑ Introduction to SDF/Mol File Format

⇑⇑ SDF/Mol File FAQ