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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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(  493 1byk_A)  (  493 1byk_A)     1.0000   1.0000   0.0000 (   0  108  171)   0     1.0000   1.0000   19  19
(  493 1byk_A)  (  784 1dbq_A)     0.8543   0.8181   2.4639 (   6   80  136)   0     0.8543   0.8181   19  20
(  493 1byk_A)  (  903 1dp4_A)     0.5261   0.3846   5.8221 (   0   24   45)   0     0.7744   0.6418   19  26
(  493 1byk_A)  (  928 1drk  )     0.9176   0.8386   2.2614 (   5   78  153)   0     0.9344   0.8492   19  21
(  493 1byk_A)  ( 1286 1ewk_A)     0.6767   0.5461   4.3759 (  10   73  153)   0     0.8169   0.5819   19  30
(  493 1byk_A)  ( 1791 1gca  )     0.8524   0.7513   2.6724 (   6   79  136)   0     0.8524   0.7513   19  22
(  493 1byk_A)  ( 1957 1gud_A)     0.7362   0.6361   5.2749 (   0   43   91)   0     0.7362   0.6586   19  22
(  493 1byk_A)  ( 2830 1jdp_A)     0.4737   0.3461   3.8440 (   0   19   36)   0     0.8199   0.6583   19  26
(  493 1byk_A)  ( 3084 1jx6_A)     0.6289   0.4992   2.5428 (   2   35   66)   0     0.8303   0.6860   19  24
(  493 1byk_A)  ( 3091 1jye_A)     0.9994   0.9044   2.7142 (   2   98  171)   0     0.9994   0.9044   19  21
(  493 1byk_A)  ( 5396 1qo0_A)     0.4737   0.3333   3.5014 (   0   22   36)   0     0.8379   0.6430   19  27
(  493 1byk_A)  ( 6095 1usg_A)     0.4737   0.3461   4.0688 (   0   16   36)   0     0.5814   0.4494   19  26
(  493 1byk_A)  ( 6645 8abp  )     0.7824   0.7329   2.8416 (  10   88  171)   0     0.8737   0.7942   19  22

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