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Top-ranked similarities (based on backbone shifts), as measured by a combination of score and contiguity.
Some relevant parameters:  
        HELIX min length: 5     STRAND min length: 3
        shift-tolerance = -10    permissible-violations = 4   max-breaks = NIL   retain-m = 100   best-n = 100
        anglethresh = 0.5    septhresh = 5   min_length = 4   rmsd-tol = 9.9999999999999E12

Legend:
( ix1 chain1 )  ( ix2 chain2 )   rho___12 rho___21 L2_ERROR (Xbad Xsig Xtot) BRK   maxrho12 maxrho21  SS1 SS2

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( 4329 1nnw_A)  (  208 1aui_A)     0.7506   0.5893   4.0485 (   6   69  105)   0     0.7506   0.5893   19  25
( 4329 1nnw_A)  ( 1730 1g5b_A)     0.4209   0.4442   3.4601 (   1   21   28)   0     0.4648   0.4676   19  18
( 4329 1nnw_A)  ( 2253 1hp1_A)     0.2973   0.2960   5.5155 (  12   36   78)   0     0.7338   0.6648   19  21
( 4329 1nnw_A)  ( 2504 1ii7_A)     0.3684   0.2692   3.5601 (   0   10   21)   0     0.7119   0.5329   19  26
( 4329 1nnw_A)  ( 2942 1jk7_A)     0.6434   0.5481   3.3568 (   7   56   91)   0     0.6434   0.5481   19  24
( 4329 1nnw_A)  ( 4329 1nnw_A)     1.0000   1.0000   0.0000 (   0  134  171)   0     1.0000   1.0000   19  19
( 4329 1nnw_A)  ( 5998 1uf3_A)     0.7232   0.7232   3.9687 (   3   42   91)   0     0.7232   0.7232   19  19
( 4329 1nnw_A)  ( 6109 1ute_A)     0.4274   0.4153   3.7466 (  11   49   78)   0     0.4962   0.4643   19  22
( 4329 1nnw_A)  ( 6613 4kbp_A)     0.3158   0.3333   5.5270 (   0   10   15)   0     0.3205   0.3333   19  18

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