I've created a new plugin that will render <jmol> code fragments using JSmol (Javascript-based) rather than Jmol (Java based).

The old code looked something like:

<jmol :tutorials:2pfsA01_1wkbA01.pdb.gz 400 400>
jmolButton( "cartoon on; cpk off; wireframe off; select *A; color lightblue; select 
</jmol>

This now looks like:

<jsmol 2pfsA01 :tutorials:2pfsA01_1wkbA01.pdb.gz 400 400>
Jmol.jmolButton( "2pfsA01", "cartoon on; cpk off; wireframe off; select *A; color lightblue;" );
</jsmol>

Note a few things have changed:

1. the <jmol> tag is now replaced by <jsmol>

2. the <jsmol> tag requires you to enter in a unique <id> as the first argument, e.g. 2pf2A01

3. this <id> is used in subsequent calls such as jmolButton(“<script>”) have been changed to Jmol.jmolButton( “<id>”, “<script>” )

Example:

<jsmol 2pfsA01 :tutorials:2pfsA01_1wkbA01.pdb.gz 400 400>
Jmol.jmolButton( "2pfsA01", "cartoon on; cpk off; wireframe off; select *A; color lightblue; select 2-13:A, 14-32:A, 33-53:A, 63-67:A, 68-78:A, 79-93:A, 94-107:A, 108-116:A, 127-136:A, 137-145:A; color blue; select *B; color pink; select 33-44:B, 50-68:B, 74-84:B, 123-126:B, 128-138:B, 140-154:B, 527-540:B, 604-612:B, 616-625:B, 635-643:B; color red", "Click here" );
</jsmol>

Looks like:

<jsmol jsmolid :tutorials:2pfsA01_1wkbA01.pdb.gz 400 400> Jmol.jmolButton( “jsmolid”, “cartoon on; cpk off; wireframe off; select *A; color lightblue; select 2-13:A, 14-32:A, 33-53:A, 63-67:A, 68-78:A, 79-93:A, 94-107:A, 108-116:A, 127-136:A, 137-145:A; color blue; select *B; color pink; select 33-44:B, 50-68:B, 74-84:B, 123-126:B, 128-138:B, 140-154:B, 527-540:B, 604-612:B, 616-625:B, 635-643:B; color red”, “Click here” ); </jsmol>

<jmol jmolid :tutorials:2pfsA01_1wkbA01.pdb.gz 400 400> </jmol>