FATCAT comparison of close homologs

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When to use: To study the conformational changes (mainly) caused by the changes of functional states, i.e., substrate binding, interacting, et al., instead of divergence

A simple how: Homologs are first collected by blast the sequence of the query against the whole PDB sequences (with E-value<=1e-4; sequence identity>=60%); then the structures of the homologs are compared to the query by FATCAT

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(Note 1: You can either upload local PDB files or simply provide PDB codes (eg. 1abo) or SCOP domain code (eg. d1mt0a_))
(Note 2: FATCAT server will automatically download the PDB files from RCSB when PDB codes are provided or from SCOP if domain codes are provided)
(Note 3: If your PDB has more than one chain AND you do not want to use the 1st chain, please define the Chain; otherwise, the 1st chain will be used)
(Note 4: Type in "zero" instead of "0" for chain 0; the server will not recognize 0)

Search against PDB as of Jan 22, 2020

Alignment model (when rigid is selected, FATCAT is forced to run rigid comparison)

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Current support provided by
NIH grant GM101457 - Development of the Flexible Comparative Modeling Toolkit

Previous supports provided by
NSF grant DBI-0349600, NIH grant GM63208 and NIH grant GM076221