DBAli MULTIPLE STRUCTURE ALIGNMENTS
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This tar file contains all multiple structure alignments stored in the DBAli database.
The alignments were calculated by the MODELLER program (1) using the SALIGN command (2).

The alignments in PIR format can be found under the sub-directory "fams" and named with 
the corresponding family ID from DBAli. Please, note that families composed by single 
chains do not have a PIR alignment file.

Additionally, three files are provided with information on the MSA in DBAli. The date 
of the MSA last update is indicated by year (YYYY), month (MM) and day (DD).

YYYYMMDD_dbali_1_90_90_30.cls
	Initial DBAli clustering in DBAli to remove redundancy with limits:
		RMSD             [  0.00 to   1.00]
		IDentity         [ 90.00 to 100.00]
		Structural EqPos [ 90.00 to 100.00]
		Length differece [  0.00 to  30.00]

YYYYMMDD_dbali_3_20_75_50.cls
	Second DBAli clustering to generate sets of related structures with limits:
		RMSD             [  0.00 to   3.00]
		IDentity         [ 20.00 to 100.00]
		Structural EqPos [ 75.00 to 100.00]
		Length differece [  0.00 to  50.00]

YYYYMMDD_dbali_msa.sql
	MySQL tables containing general information on the DBAli MSA.

Please, send your suggestion to: Marc A. Marti-Renom (marcius@salilab.org)

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(1) Sali, A., and Blundell, T.L. 1993. J Mol Biol 234: 779-815.
(2) Madhusudhan, M.S., Marti-Renom, M.A., Eswar, N., and Sali, A. (in preparation).

