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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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( 5349 1qip_A)  (  611 1cjx_A)     0.3333   0.4167   2.4944 (   0    7   10)   0     0.3333   0.4167   15  12
( 5349 1qip_A)  (  612 1cjx_A)     0.3333   0.3571   4.2996 (   0    5   10)   0     0.3899   0.4145   15  14
( 5349 1qip_A)  ( 1105 1ecs_A)     0.6659   0.9941   3.4826 (   1   26   45)   0     0.6659   0.9941   15  10
( 5349 1qip_A)  ( 1365 1f1u_A)     0.3333   0.5000   3.2932 (   0    4   10)   0     0.3333   0.5000   15  10
( 5349 1qip_A)  ( 1366 1f1u_A)     0.3186   0.3776   3.1948 (   1    5   10)   0     0.3962   0.4887   15  12
( 5349 1qip_A)  ( 1451 1f9z_A)     0.6666   0.9997   2.9100 (   0   21   45)   0     0.6666   0.9997   15  10
( 5349 1qip_A)  ( 2819 1jc4_A)     0.3671   0.4375   3.8614 (   2   10   15)   0     0.3671   0.4545   15  11
( 5349 1qip_A)  ( 2890 1jif_A)     0.6660   0.9058   4.3056 (   1   28   45)   0     0.6660   0.9058   15  11
( 5349 1qip_A)  ( 3175 1k4n_A)     0.3331   0.3568  10.7297 (   0    6   10)   0     0.3436   0.3568   15  14
( 5349 1qip_A)  ( 3347 1kll_A)     0.5999   0.8179   3.8755 (   0   13   36)   0     0.5999   0.8179   15  11
( 5349 1qip_A)  ( 3456 1kw3_B)     0.3333   0.5000   2.4754 (   0    4   10)   0     0.3333   0.5000   15  10
( 5349 1qip_A)  ( 3457 1kw3_B)     0.3333   0.4545   4.1084 (   0    5   10)   0     0.4051   0.4611   15  11
( 5349 1qip_A)  ( 4006 1mpy_A)     0.3333   0.5000   3.7783 (   0    4   10)   0     0.3333   0.5000   15  10
( 5349 1qip_A)  ( 4007 1mpy_A)     0.3333   0.3846   2.0875 (   0    2   10)   0     0.3670   0.4026   15  13
( 5349 1qip_A)  ( 4284 1nki_A)     0.7097   0.9060   3.2149 (   3   36   55)   0     0.7097   0.9060   15  11
( 5349 1qip_A)  ( 5349 1qip_A)     1.0000   1.0000   0.0000 (   0   91  105)   0     1.0000   1.0000   15  15
( 5349 1qip_A)  ( 5597 1r9c_A)     0.6516   0.9061   2.9949 (   2   24   45)   0     0.6516   0.9061   15  10

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