Crystal contacts: Difference between revisions
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In contrast, contacts between chains that occur in the native functional state of the molecule are called ''specific oligomeric contacts''. The resulting functional quaternary structure is called the [[Biological unit|biological unit or biological assembly]]. Specific oligomeric contacts occur through interfaces that have co-evolved to fit together and bind under the proper circumstances. Some molecules have multiple quaternary forms. For example, protein phosphorylation often controls the affinities of partner chains for each other. | In contrast, contacts between chains that occur in the native functional state of the molecule are called ''specific oligomeric contacts''. The resulting functional quaternary structure is called the [[Biological unit|biological unit or biological assembly]]. Specific oligomeric contacts occur through interfaces that have co-evolved to fit together and bind under the proper circumstances. Some molecules have multiple quaternary forms. For example, protein phosphorylation often controls the affinities of partner chains for each other. | ||
Crystal contacts tend to be smaller and to involve more hydrophilic surfaces, in contrast to specific oligomeric contacts which are larger and may bury some hydrophobic surface<ref>PMID: 9261866</ref> <ref>PMID: 9406542</ref> . These differences are used to predict which contacts occuring in a given protein crystal are ''crystal contacts'' and which are ''specific oligomeric contacts''<ref>PMID: 9787643</ref> <ref>PMID: 10944393</ref> <ref>PMID: 15895504</ref>. An early server with a high success rate at predicting quaternary structures was the | Crystal contacts tend to be smaller and to involve more hydrophilic surfaces, in contrast to specific oligomeric contacts which are larger and may bury some hydrophobic surface<ref>PMID: 9261866</ref> <ref>PMID: 9406542</ref> . These differences are used to predict which contacts occuring in a given protein crystal are ''crystal contacts'' and which are ''specific oligomeric contacts''<ref>PMID: 9787643</ref> <ref>PMID: 10944393</ref> <ref>PMID: 15895504</ref>. An early server with a high success rate at predicting quaternary structures was the [http://www.ebi.ac.uk/pdbe/pqs/ Probable Quaternary Structure Server (PQS)]<ref>PMID: 10944393</ref> at the European Bioinformatics Institute. No further updates with new structures have been done at PQS since August, 2009, and it is being phased out in 2010 in favor of a newer server, [http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html Protein Interfaces, Surfaces and Assemblies (PISA)]. | ||
==See Also== | ==See Also== | ||
[[Biological unit]] | *[[Biological unit]] which includes '''examples''' of crystal contacts. | ||
[[X-ray crystallography]] | *[[X-ray crystallography]] | ||
*[http://www.umass.edu/microbio/chime/pe_beta/pe/protexpl/xtlcon.htm Crystal Contacts] at Protein Explorer, with snapshots of examples. | |||
==References== | ==References== | ||
<references /> | <references /> | ||
