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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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( 4284 1nki_A)  (  611 1cjx_A)     0.4545   0.4167   2.2054 (   0    5   10)   0     0.5449   0.4996   11  12
( 4284 1nki_A)  (  612 1cjx_A)     0.4545   0.3571   5.4425 (   0    1   10)   0     0.4609   0.4202   11  14
( 4284 1nki_A)  ( 1105 1ecs_A)     0.9023   0.9892   3.1805 (   1   22   45)   0     0.9023   0.9892   11  10
( 4284 1nki_A)  ( 1365 1f1u_A)     0.4545   0.5000   2.3839 (   0    5   10)   0     0.7015   0.7600   11  10
( 4284 1nki_A)  ( 1366 1f1u_A)     0.4545   0.4167   2.1754 (   0    4   10)   0     0.6353   0.5826   11  12
( 4284 1nki_A)  ( 1451 1f9z_A)     0.7805   0.8182   3.8268 (   2   19   45)   0     0.8936   0.9755   11  10
( 4284 1nki_A)  ( 2819 1jc4_A)     0.5447   0.5447   8.1228 (   0    9   15)   0     0.5447   0.5447   11  11
( 4284 1nki_A)  ( 2890 1jif_A)     0.7112   0.7112   3.4914 (   3   24   45)   0     0.7112   0.7112   11  11
( 4284 1nki_A)  ( 3175 1k4n_A)     0.4545   0.3571   3.3669 (   0    5   10)   0     0.5283   0.4232   11  14
( 4284 1nki_A)  ( 3347 1kll_A)     0.7651   0.7651   3.7776 (   1   11   36)   0     0.7784   0.7784   11  11
( 4284 1nki_A)  ( 3456 1kw3_B)     0.4545   0.5000   2.4531 (   0    4   10)   0     0.4545   0.5000   11  10
( 4284 1nki_A)  ( 3457 1kw3_B)     0.4545   0.4545   4.3084 (   0    5   10)   0     0.5448   0.5448   11  11
( 4284 1nki_A)  ( 4006 1mpy_A)     0.4545   0.5000   2.8347 (   0    6   10)   0     0.4786   0.5041   11  10
( 4284 1nki_A)  ( 4007 1mpy_A)     0.4363   0.3763   5.3020 (   1    7   10)   0     0.4363   0.4223   11  13
( 4284 1nki_A)  ( 4284 1nki_A)     1.0000   1.0000   0.0000 (   0   36   55)   0     1.0000   1.0000   11  11
( 4284 1nki_A)  ( 5349 1qip_A)     0.9060   0.7097   3.2149 (   3   36   55)   0     0.9060   0.7097   11  15
( 4284 1nki_A)  ( 5597 1r9c_A)     0.9091   0.9999   1.4882 (   0   22   45)   0     0.9091   0.9999   11  10

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