HOMCOS:download data (PDB:20230906)

You can download datasets of current HOMCOS database(PDB:20230906).
Each protein chain in HOMCOS has three cluster ID numbers:"cluster95", "cluster40", and "clusterE4. These clustering data are used for statistial analyses on non-redundant data, and fast database searchings.
These clustering numbers are based on the clustering using the sequence search "blastp". The single linkage clustering algorithm has been used.　Following three linking conditions are used: (1) E-value of "blastp" has to be less than 0.001. (2) The number of aligned residues are more than 80 % of the longer sequence length. (3) The sequence identity is more than equal to 95 % for "cluster95", or 40 % for "cluster40" and 0 % for "clusterE4".
Following four criteria are used for choosing one representative chain from a cluster. 1) Experimental method has a following priority:"X-RAY DIFFRACTION" > "SOLUTION NMR" > "ELECTRON MICROSCOPY" > others. 2) Better resolution. 3) Young [pdb_id] in alphabetical order. 4) Young [asym_id] in alphabetical order.

All the protein chains with cluster IDs	[show] [download]
Representative protein chains for "cluster95"	[show] [download]
Representative protein chains for "cluster40"	[show] [download]
Representative protein chains for "clusterE4"	[show] [download]

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