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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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( 4990 1pe9_A)  (  386 1bhe  )     0.6844   0.6640   3.7073 (   6  113  231)   0     0.8072   0.7833   32  33
( 4990 1pe9_A)  (  429 1bn8_A)     0.9025   0.9025   2.1175 (  22  324  435)   0     0.9025   0.9025   32  32
( 4990 1pe9_A)  (  776 1dab_A)     0.5922   0.4115   4.1554 (  17  123  231)   0     0.7764   0.4803   32  52
( 4990 1pe9_A)  ( 1119 1ee6_A)     0.5885   0.7600   4.8840 (  12  104  190)   0     0.6558   0.9966   32  21
( 4990 1pe9_A)  ( 1324 1ezg_A)     0.1875   0.9999   1.8007 (   0    0   15)   0     0.1875   0.9999   32   6
( 4990 1pe9_A)  ( 1913 1gq8_A)     0.5269   0.5773   4.3664 (  14   94  171)   0     0.7428   0.8724   32  27
( 4990 1pe9_A)  ( 2132 1h80_A)     0.6058   0.5589   5.7923 (  10  104  190)   0     0.7885   0.7272   32  35
( 4990 1pe9_A)  ( 2196 1hf2_A)     0.2516   0.3236   3.8677 (   4   13   36)   0     0.3039   0.7996   32  10
( 4990 1pe9_A)  ( 2208 1hg8_A)     0.7784   0.7551   3.2750 (   8  181  300)   0     0.8116   0.7871   32  33
( 4990 1pe9_A)  ( 3179 1k4z_A)     0.2510   0.2578   5.0263 (  12   31   91)   0     0.4062   0.8121   32  16
( 4990 1pe9_A)  ( 3181 1k5c_A)     0.7794   0.7131   3.3336 (   7  179  300)   0     0.8120   0.7425   32  35
( 4990 1pe9_A)  ( 3209 1k8f_A)     0.3627   0.4547   5.7524 (   6   28   78)   0     0.4062   0.8120   32  16
( 4990 1pe9_A)  ( 3243 1kap_P)     0.3745   0.6945   5.1074 (   1   14   66)   1     0.4894   0.8817   32  17
( 4990 1pe9_A)  ( 4547 1o88_A)     0.5425   0.5889   4.5376 (  13   87  190)   0     0.7734   0.9081   32  27
( 4990 1pe9_A)  ( 4629 1ofd_A)     0.3083   0.3893   4.8432 (   6   24   55)   0     0.3437   0.6871   32  16
( 4990 1pe9_A)  ( 4630 1ofm_A)     0.7704   0.6065   3.2713 (  10  160  300)   0     0.8120   0.6340   32  41
( 4990 1pe9_A)  ( 4644 1ogm_X)     0.5909   0.6731   5.1032 (   5   81  171)   0     0.7256   0.8120   32  28
( 4990 1pe9_A)  ( 4990 1pe9_A)     1.0000   1.0000   0.0000 (   0  398  496)   0     1.0000   1.0000   32  32
( 4990 1pe9_A)  ( 5288 1qcx_A)     0.6134   0.6134   4.9452 (   8   95  190)   0     0.8288   0.8288   32  32
( 4990 1pe9_A)  ( 5359 1qjv_A)     0.7405   0.7191   3.1596 (  11  173  276)   0     0.7405   0.7191   32  33
( 4990 1pe9_A)  ( 5679 1rmg  )     0.8119   0.6340   3.5524 (   5  198  325)   0     0.8119   0.6340   32  41
( 4990 1pe9_A)  ( 5706 1ru4_A)     0.5744   0.5744   4.4729 (  19  129  231)   0     0.8368   0.8368   32  32
( 4990 1pe9_A)  ( 5714 1rwr_A)     0.5569   0.5845   4.8950 (  12   97  171)   0     0.6855   0.7222   32  30
( 4990 1pe9_A)  ( 5940 1tyv  )     0.5845   0.4397   5.3994 (   6   71  171)   0     0.6173   0.5104   32  43
( 4990 1pe9_A)  ( 6229 1vh4_A)     0.3750   0.4614   6.0448 (   0    2   66)   0     0.5619   0.6905   32  26

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