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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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( 4350 1npy_A)  (   41 1a4i_A)     0.6000   0.8570   3.0496 (   0    2   15)   0     0.6000   0.8570   10   7
( 4350 1npy_A)  (  258 1b0a_A)     0.5000   0.7141   4.1514 (   0    0   10)   0     0.5999   0.8565   10   7
( 4350 1npy_A)  (  505 1c1d_A)     0.5385   0.5736   5.1637 (   1    7   15)   0     0.5385   0.5736   10   9
( 4350 1npy_A)  ( 1116 1edz_A)     0.6000   0.7499   3.3041 (   0    2   15)   0     0.6233   0.7499   10   8
( 4350 1npy_A)  ( 1947 1gtm_A)     0.4000   0.4444   4.9034 (   0    0    6)   0     0.5993   0.6655   10   9
( 4350 1npy_A)  ( 2015 1gz3_A)     0.4000   0.2353   3.7723 (   0    3    6)   0     0.5990   0.3529   10  17
( 4350 1npy_A)  ( 2269 1hrd_A)     0.5385   0.4419   5.2166 (   1    7   15)   0     0.5984   0.4611   10  13
( 4350 1npy_A)  ( 2308 1hwx_A)     0.5385   0.4718   4.9597 (   1    7   15)   0     0.5385   0.4718   10  12
( 4350 1npy_A)  ( 3609 1leh_A)     0.4999   0.6245   5.9450 (   0    4   10)   0     0.5381   0.6245   10   8
( 4350 1npy_A)  ( 3733 1lu9_A)     0.6000   0.6666   3.3752 (   0    6   15)   0     0.6000   0.6666   10   9
( 4350 1npy_A)  ( 4350 1npy_A)     1.0000   1.0000   0.0000 (   0   28   45)   0     1.0000   1.0000   10  10
( 4350 1npy_A)  ( 4446 1nyt_A)     0.8999   0.9998   2.6079 (   0   19   36)   0     0.8999   0.9998   10   9
( 4350 1npy_A)  ( 6256 1vi2_A)     0.9999   0.9999   1.7277 (   0   28   45)   0     0.9999   0.9999   10  10

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