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bkoep's clarification from the blog comments:
 
bkoep's clarification from the blog comments:
   
<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;">In Foldit, all CPK modes (including Score/Hydro+CPK) color </span>nitrogen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> atoms blue and </span>oxygen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> atoms red. Imagining blue donors and red acceptors is a helpful simplification, but is not strictly correct. While </span>nitrogen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> is </span>''usually''<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> a donor and </span>oxygen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> is </span>''usually''<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> an acceptor, there are exceptions to this rule. For example, the </span>[http://www.cryst.bbk.ac.uk/PPS2/course/section7/os_hres.gif link above]<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> shows that one </span>N<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> of histidine can accept an H-bond, whereas the </span>O<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;">of serine can also donate an H-bond.</span>
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<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;">In Foldit, all CPK modes (including Score/Hydro+CPK) color </span>nitrogen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> atoms blue and </span>oxygen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> atoms red. Imagining blue donors and red acceptors is a helpful simplification, but is not strictly correct. While </span>nitrogen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> is </span>''usually''<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> a donor and </span>oxygen<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> is </span>''usually''<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> an acceptor, there are exceptions to this rule. For example, the following image </span><span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;">shows that one </span>N<span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;"> of histidine can accept an H-bond, whereas the </span>O <span style="color:rgb(51,51,51);font-family:helvetica,sans-serif;font-size:12px;line-height:normal;">of serine can also donate an H-bond.</span>
   
 
http://www.cryst.bbk.ac.uk/PPS2/course/section7/os_hres.gif
 
http://www.cryst.bbk.ac.uk/PPS2/course/section7/os_hres.gif

Revision as of 04:24, May 16, 2015

A Hydrogen Bond Network is a 'web' of hydrogen bonds that connects the sidechains of multiple residues. When constructed across protein interfaces, these networks help to make the interface more stable.

Hydrogen Bond Network Filter

Introduced in May 2015 this filter allows folders to improve the stability of their folds.

Read the introductory blog

CPK coloring

bkoep's clarification from the blog comments:

In Foldit, all CPK modes (including Score/Hydro+CPK) color nitrogen atoms blue and oxygen atoms red. Imagining blue donors and red acceptors is a helpful simplification, but is not strictly correct. While nitrogen is usually a donor and oxygen is usually an acceptor, there are exceptions to this rule. For example, the following image shows that one N of histidine can accept an H-bond, whereas the of serine can also donate an H-bond.

http://www.cryst.bbk.ac.uk/PPS2/course/section7/os_hres.gif

This link in particular should be helpful for determining how many hydrogen bonds are required to completely satisfy each residue type. For example, note that the N of tryptophan can only make one H-bond, whereas the N of lysine can make three!

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