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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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(  611 1cjx_A)  (  611 1cjx_A)     1.0000   1.0000   0.0000 (   0   59   66)   0     1.0000   1.0000   12  12
(  611 1cjx_A)  (  612 1cjx_A)     0.8200   0.7080   6.7312 (   2   35   45)   0     0.8227   0.7093   12  14
(  611 1cjx_A)  ( 1105 1ecs_A)     0.4167   0.5000   2.4382 (   0    6   10)   0     0.5831   0.6994   12  10
(  611 1cjx_A)  ( 1365 1f1u_A)     0.7353   0.8651   2.7916 (   2   28   36)   0     0.7499   0.8997   12  10
(  611 1cjx_A)  ( 1366 1f1u_A)     0.4705   0.4705   3.6234 (   6   29   45)   0     0.5396   0.5396   12  12
(  611 1cjx_A)  ( 1451 1f9z_A)     0.4167   0.5000   2.4957 (   0    5   10)   0     0.4167   0.5000   12  10
(  611 1cjx_A)  ( 2819 1jc4_A)     0.8331   0.9087   3.4948 (   0   35   45)   0     0.8331   0.9087   12  11
(  611 1cjx_A)  ( 2890 1jif_A)     0.4167   0.4545   3.4582 (   0    6   10)   0     0.4292   0.4545   12  11
(  611 1cjx_A)  ( 3175 1k4n_A)     0.8325   0.7139   3.6389 (   1   36   45)   0     0.8325   0.7139   12  14
(  611 1cjx_A)  ( 3347 1kll_A)     0.4167   0.4545   3.6573 (   0    4   10)   0     0.4167   0.4545   12  11
(  611 1cjx_A)  ( 3456 1kw3_B)     0.7490   0.8975   2.8966 (   1   28   36)   0     0.7490   0.8975   12  10
(  611 1cjx_A)  ( 3457 1kw3_B)     0.7496   0.8175   4.6722 (   0   24   36)   0     0.7496   0.8175   12  11
(  611 1cjx_A)  ( 4006 1mpy_A)     0.7488   0.8971   2.6471 (   1   27   36)   0     0.7499   0.8997   12  10
(  611 1cjx_A)  ( 4007 1mpy_A)     0.7499   0.6922   3.1401 (   0   24   36)   0     0.7499   0.6922   12  13
(  611 1cjx_A)  ( 4284 1nki_A)     0.4167   0.4545   2.2054 (   0    5   10)   0     0.4996   0.5449   12  11
(  611 1cjx_A)  ( 5349 1qip_A)     0.4167   0.3333   2.4944 (   0    7   10)   0     0.4167   0.3333   12  15
(  611 1cjx_A)  ( 5597 1r9c_A)     0.4813   0.5576  10.5735 (   1    8   15)   0     0.4813   0.5576   12  10

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