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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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( 5964 1uby  )  (  844 1di1_A)     0.6658   0.7131   5.3555 (   1   30   45)   0     0.6658   0.7131   15  14
( 5964 1uby  )  ( 1323 1ezf_A)     0.4000   0.3000   5.3380 (   0    8   15)   0     0.5296   0.3991   15  20
( 5964 1uby  )  ( 3317 1kiy_A)     0.7320   0.6463   6.3718 (   0   37   55)   0     0.7320   0.6463   15  17
( 5964 1uby  )  ( 4102 1n1b_A)     0.7323   0.7323   5.9793 (   0   38   55)   0     0.7323   0.7323   15  15
( 5964 1uby  )  ( 5092 1ps1_A)     0.4824   0.4726   6.1538 (   9   45   66)   0     0.4824   0.4726   15  17
( 5964 1uby  )  ( 5689 1rqj_A)     0.7329   0.7077   6.3685 (   5   44   78)   0     0.7401   0.7136   15  16
( 5964 1uby  )  ( 5702 1rtr_A)     0.7951   0.8502   5.5472 (   2   43   66)   0     0.7951   0.8502   15  14
( 5964 1uby  )  ( 5964 1uby  )     1.0000   1.0000   0.0000 (   0   83  105)   0     1.0000   1.0000   15  15
( 5964 1uby  )  ( 6169 1v4e_A)     0.7647   0.7955   4.6792 (   6   58   78)   0     0.7647   0.8084   15  14
( 5964 1uby  )  ( 6623 5eau  )     0.7467   0.7099   6.5002 (   4   43   66)   0     0.7467   0.7099   15  16

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