MutaBind2 evaluates the effects of mutations on protein-protein interactions for soluble complexes. It calculates changes in binding affinity upon single or multiple mutations and provides a structural model of mutated complex. The structure of a protein-protein complex is required for this method. MutaBind2 is the second version of MutaBind method. The method can be used for SARS-CoV-2 modeling.
Step 1 - Select Protein Complex
");
$("#pdb_form").submit();
console.log('single');
//setTimeout("manually_notice()", 20000 )
});
$("#multiple").on('click', function(){
$("#console").append("
Uploading data ... This may take a few seconds
");
$("#mutationType").val("1");
$("#pdb_form").submit();
console.log('multiple');
//setTimeout("manually_notice()", 20000 )
});
/*
$("#submit_button").on('click', function(){
$("#console").append("
Uploading data ... This may take a few seconds
");
})
*/
/*
$("#single").on('click', function(){
$("#console").append("
Uploading data ... This may take a few seconds
");
if ($('#pdb_file_input').get(0).files.length != 0) {
// there is a file, use it
return true; // submit
}
var asu_url = "//files.rcsb.org/download/" + $("#pdb_id_input").val().toUpperCase() + ".pdb";
var bio_url = "//files.rcsb.org/download/" + $("#pdb_id_input").val().toUpperCase() + ".pdb" + $("#bioassemblies").val();
var bio_alternative_url = asu_url;
$.when(
$.get(asu_url, function(data) {
$("#pdb_container_asu").val(data);
}, dataType="text"),
$.get(bio_url, function(data) {
$("#pdb_container_bio").val(data);
}, dataType="text").then(function(){}, function(){
return $.get(bio_alternative_url, function(data) {
$("#pdb_container_bio").val(data);
}, dataType="text");
})
).then(function() {
//ok, we loaded pdb. submit the form
//console.log($("#pdb_container_asu").val());
//console.log($("#pdb_container_bio").val());
$("#pdb_form").submit();
}, function() {
// error message:
$("#loading_message").remove();
var warning = "One of the files for selected PDB entry could not be received from the RCSB website";
$("#pdb_warning").css("display", "none")
.addClass("alert alert-box radius")
.text(warning)
.fadeIn("fast");
});
return false; // do not submit
});
$("#multiple").on('click', function(){
$("#console").append("
Uploading data ... This may take a few seconds
");
if ($('#pdb_file_input').get(0).files.length != 0) {
$("#mutationType").val("1");
$("#pdb_form").submit();
// there is a file, use it
return false; // submit
}
var asu_url = "//files.rcsb.org/download/" + $("#pdb_id_input").val().toUpperCase() + ".pdb";
var bio_url = "//files.rcsb.org/download/" + $("#pdb_id_input").val().toUpperCase() + ".pdb" + $("#bioassemblies").val();
var bio_alternative_url = asu_url;
$.when(
$.get(asu_url, function(data) {
$("#pdb_container_asu").val(data);
}, dataType="text"),
$.get(bio_url, function(data) {
$("#pdb_container_bio").val(data);
}, dataType="text").then(function(){}, function(){
return $.get(bio_alternative_url, function(data) {
$("#pdb_container_bio").val(data);
}, dataType="text");
})
).then(function() {
//ok, we loaded pdb. submit the form
//console.log($("#pdb_container_asu").val());
//console.log($("#pdb_container_bio").val());
//change the attribute type's value to 1, it means multiple mutation
//added by gavin
$("#mutationType").val("1");
$("#pdb_form").submit();
}, function() {
// error message:
$("#loading_message").remove();
var warning = "One of the files for selected PDB entry could not be received from the RCSB website";
$("#pdb_warning").css("display", "none")
.addClass("alert alert-box radius")
.text(warning)
.fadeIn("fast");
});
return false; // do not submit
});
*/
$("#load_example").click(function(){
$("#pdb_id_input").val("1CSE")
$("#example").val("1")
$("#pdb_id_input").trigger("propertychange")
return false;
})
});
Reference
Zhang N, Chen Y, Lu H, Zhao F, Alvarez RV, Goncearenco A, Panchenko AR, Li M. MutaBind2: Predicting the Impacts of Single and Multiple Mutations on Protein-Protein Interactions. iScience. PMID: 32169820
