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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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( 2988 1jmx_B)  (   15 1a12_A)     0.3000   0.2903   3.9720 (   1   21   36)   0     0.8632   0.8357   30  31
( 2988 1jmx_B)  ( 1250 1erj_A)     0.3333   0.3333   4.0021 (   0   33   45)   0     0.8990   0.8990   30  30
( 2988 1jmx_B)  ( 1643 1fwx_A)     0.3000   0.2432   5.3317 (   0   20   36)   0     0.9300   0.7556   30  37
( 2988 1jmx_B)  ( 2000 1gxr_A)     0.3333   0.3226   4.3081 (   0   31   45)   0     0.8990   0.8701   30  31
( 2988 1jmx_B)  ( 2988 1jmx_B)     1.0000   1.0000   0.0000 (   0  353  435)   0     1.0000   1.0000   30  30
( 2988 1jmx_B)  ( 3002 1jof_A)     0.8986   0.9293   5.0282 (   2  250  351)   0     0.8988   0.9296   30  29
( 2988 1jmx_B)  ( 3055 1jtd_B)     0.2333   0.3333   4.2859 (   0    8   21)   0     0.3745   0.3806   30  21
( 2988 1jmx_B)  ( 3148 1k32_A)     0.3968   0.3968   5.2029 (  48  193  300)   0     0.7981   0.7981   30  30
( 2988 1jmx_B)  ( 3158 1k3i_A)     0.3000   0.3103   3.2230 (   0   29   36)   0     0.8989   0.9297   30  29
( 2988 1jmx_B)  ( 3211 1k8k_C)     0.3667   0.3548   3.2539 (   0   40   55)   0     0.9295   0.9000   30  31
( 2988 1jmx_B)  ( 3506 1l0q_A)     0.8994   0.9634   4.0757 (   2  254  351)   0     0.8994   0.9634   30  28
( 2988 1jmx_B)  ( 3790 1m1x_A)     0.8658   0.8119   4.6437 (   0  216  325)   1     0.8658   0.8119   30  32
( 2988 1jmx_B)  ( 3908 1mda_H)     0.4333   0.4193   3.4004 (   0   51   78)   0     0.8414   0.8171   30  31
( 2988 1jmx_B)  ( 4223 1nex_B)     0.3333   0.3125   3.4597 (   0   32   45)   0     0.8657   0.8118   30  32
( 2988 1jmx_B)  ( 4359 1nr0_A)     0.3000   0.3462   3.1346 (   0   24   36)   0     0.8326   0.9601   30  26
( 2988 1jmx_B)  ( 4360 1nr0_A)     0.3000   0.3214   3.1572 (   0   26   36)   0     0.7270   0.7505   30  28
( 2988 1jmx_B)  ( 4706 1olz_A)     0.2333   0.2059   3.2498 (   0   12   21)   0     0.5134   0.5036   30  34
( 2988 1jmx_B)  ( 4869 1p22_A)     0.3333   0.3571   3.8267 (   0   30   45)   0     0.8977   0.9610   30  28
( 2988 1jmx_B)  ( 4969 1pby_B)     0.9666   0.9999   1.7673 (   4  322  406)   0     0.9666   0.9999   30  29
( 2988 1jmx_B)  ( 5009 1pgu_A)     0.4000   0.4285   4.6081 (   0   50   66)   0     0.8654   0.9268   30  28
( 2988 1jmx_B)  ( 5010 1pgu_A)     0.3000   0.3214   3.8340 (   0   25   36)   0     0.8656   0.9271   30  28
( 2988 1jmx_B)  ( 5314 1qfm_A)     0.3000   0.2727   4.1909 (   0   24   36)   0     0.8950   0.8151   30  33
( 2988 1jmx_B)  ( 5640 1ri6_A)     0.4667   0.5000   2.8645 (   0   68   91)   0     0.8989   0.9627   30  28
( 2988 1jmx_B)  ( 5888 1tbg_A)     0.3333   0.3333   3.5519 (   0   33   45)   0     0.9121   0.9121   30  30
( 2988 1jmx_B)  ( 6107 1utc_A)     0.3000   0.3103   5.9852 (   0   23   36)   0     0.8975   0.9280   30  29
( 2988 1jmx_B)  ( 6399 2bbk_H)     0.4524   0.4533   5.3511 (  50  230  351)   0     0.8654   0.8950   30  29

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