Answers.Body: <p>The answer, as provided in the comments by gilleain is No. The commenter wanted to know why I asked this. The reason is I heard sulfur dioxide as silent speech when thinking about antibodies that’s why I asked.</p>
  
  <p>I searched the file <a href="https://files.rcsb.org/view/1P9S.cif" rel="nofollow noreferrer">https://files.rcsb.org/view/1P9S.cif</a> for the SO2 molecule and didn't find it. I got confirmation in the comments of the question.</p>
  
  <p>Would anyone be interested in an app that takes a .cif file of a molecule and allows you to search the file for any type of element or molecule in it? Would that help anyone with their research?</p>
  
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2021-06-07T08:59:01.263Z
Answers.Text: Sorry, I do not see the advantage. All three PDB databases allow ligand search by name, residue name or SMILES in the browser. The PDBe has a decent API (https://www.ebi.ac.uk/pdbe/pdbe-rest-api), which gives info of which ligands are present, without downloading the structure. Furthermore, most instances of elements beyond the 6 of life are crystallisation artefacts, so it is way safer to search for enzymes that are expected to have more exotic elements, e.g. tungsten in a W-enzyme as seen in PDB:2W7Z.
Answers.UserDisplayName: Matteo Ferla
Answers.ContentLicense: CC BY-SA 4.0
Answers.CreationDate: 2020-03-10T12:17:51.303Z
Answers.LastActivityDate: 2020-03-10T12:17:51.303Z
Answers.UserDisplayName: Andy
Body: <p>Does the protein structure shown in the JSmol link have any Sulfur Dioxide molecules?</p>
  <p><a href="https://i.sstatic.net/QTds1.jpg" rel="nofollow noreferrer"><img src="https://i.sstatic.net/QTds1.jpg" alt="enter image description here" /></a></p>
  <p>In the picture, the Sulfur element is yellow and Oxygen is red (see <a href="http://jmol.sourceforge.net/jscolors/" rel="nofollow noreferrer">here</a>)</p>
  <p><a href="https://www.viprbrc.org/brc/structureOperation.spg?accession=1P9S&amp;decorator=corona&amp;context=1583712525175" rel="nofollow noreferrer">https://www.viprbrc.org/brc/structureOperation.spg?accession=1P9S&amp;decorator=corona&amp;context=1583712525175</a></p>
  <p>Link to mmcif file (I have the VS Code plugin installed):</p>
  <p><a href="https://files.rcsb.org/view/1P9S.cif" rel="nofollow noreferrer">https://files.rcsb.org/view/1P9S.cif</a></p>
  
Tags: <protein-structure><molecular-genetics>
Title: Are there any Sulfur Dioxide molecules in this structure?
ThreadText: # Are there any Sulfur Dioxide molecules in this structure?
  
  (Asked by: username_0 on 2020-03-09)
  
  Does the protein structure shown in the JSmol link have any Sulfur Dioxide molecules?
  
  [![enter image description here](https://i.sstatic.net/QTds1.jpg)](https://i.sstatic.net/QTds1.jpg)
  
  In the picture, the Sulfur element is yellow and Oxygen is red (see [here](http://jmol.sourceforge.net/jscolors/))
  
  <https://www.viprbrc.org/brc/structureOperation.spg?accession=1P9S&decorator=corona&context=1583712525175>
  
  Link to mmcif file (I have the VS Code plugin installed):
  
  <https://files.rcsb.org/view/1P9S.cif>
  
  **Tags:** protein-structure, molecular-genetics
  
  
  ---
  
  ## 1 answers
  
  ### Answer by username_0 on 2020-03-10. Score: 2
  
  The answer, as provided in the comments by gilleain is No. The commenter wanted to know why I asked this. The reason is I heard sulfur dioxide as silent speech when thinking about antibodies that’s why I asked.
  
  I searched the file <https://files.rcsb.org/view/1P9S.cif> for the SO2 molecule and didn't find it. I got confirmation in the comments of the question.
  
  Would anyone be interested in an app that takes a .cif file of a molecule and allows you to search the file for any type of element or molecule in it? Would that help anyone with their research?
  
  > **Comments:**
  > **username_1**: Sorry, I do not see the advantage. All three PDB databases allow ligand search by name, residue name or SMILES in the browser. The PDBe has a decent API (https://www.ebi.ac.uk/pdbe/pdbe-rest-api), which gives info of which ligands are present, without downloading the structure. Furthermore, most instances of elements beyond the 6 of life are crystallisation artefacts, so it is way safer to search for enzymes that are expected to have more exotic elements, e.g. tungsten in a W-enzyme as seen in PDB:2W7Z.  
  
  ---
  
  