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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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( 5476 1qwj_A)  ( 1043 1e5k_A)     0.8566   0.9223   3.3956 (   1   45   66)   0     0.8566   0.9223   14  13
( 5476 1qwj_A)  ( 1325 1ezi_A)     0.9912   0.8202   1.7438 (   3   69   91)   0     0.9912   0.8202   14  17
( 5476 1qwj_A)  ( 1590 1fo8_A)     0.8515   0.5213   4.5760 (   2   44   66)   0     0.8515   0.5213   14  23
( 5476 1qwj_A)  ( 1690 1g1l_A)     0.8218   0.6086   2.8845 (   7   67   91)   0     0.8218   0.6086   14  22
( 5476 1qwj_A)  ( 1776 1g97_A)     0.9732   0.7307   3.3730 (   4   69   91)   0     0.9732   0.7307   14  19
( 5476 1qwj_A)  ( 1787 1ga8_A)     0.8533   0.4997   3.9773 (   2   48   66)   0     0.8533   0.4997   14  24
( 5476 1qwj_A)  ( 2122 1h7e_A)     0.9020   0.6508   2.2572 (   6   71   91)   0     0.9020   0.6508   14  21
( 5476 1qwj_A)  ( 2402 1i52_A)     0.9186   0.8073   2.6878 (   3   61   78)   0     0.9236   0.8100   14  16
( 5476 1qwj_A)  ( 3068 1jv1_A)     0.9988   0.4242   4.0910 (   1   67   91)   0     0.9988   0.4242   14  33
( 5476 1qwj_A)  ( 3093 1jyk_A)     0.8355   0.6974   3.5003 (   3   45   66)   0     0.8355   0.6974   14  17
( 5476 1qwj_A)  ( 3466 1kws_A)     0.6427   0.5293   4.5250 (   0   25   36)   0     0.8263   0.6936   14  17
( 5476 1qwj_A)  ( 3651 1ll2_A)     0.6930   0.5541   4.2126 (   4   35   55)   0     0.7457   0.5694   14  19
( 5476 1qwj_A)  ( 4544 1o7q_A)     0.7132   0.6245   4.8605 (   1   29   45)   0     0.7841   0.6867   14  16
( 5476 1qwj_A)  ( 4719 1omz_A)     0.8565   0.5999   3.9468 (   1   46   66)   0     0.8565   0.5999   14  20
( 5476 1qwj_A)  ( 5159 1pzt_A)     0.3571   0.3333   4.2756 (   0    6   10)   0     0.7125   0.6654   14  15
( 5476 1qwj_A)  ( 5322 1qg8_A)     0.8565   0.6665   3.6667 (   1   42   66)   0     0.8565   0.6665   14  18
( 5476 1qwj_A)  ( 5476 1qwj_A)     1.0000   1.0000   0.0000 (   0   72   91)   0     1.0000   1.0000   14  14
( 5476 1qwj_A)  ( 5768 1s4n_A)     0.8405   0.4790   5.0970 (   3   49   66)   0     0.8501   0.4796   14  25
( 5476 1qwj_A)  ( 6228 1vh3_A)     0.8472   0.6294   2.2587 (   3   55   66)   0     0.8472   0.6391   14  19

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