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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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( 3390 1kpf  )  ( 1511 1fit  )     0.7500   0.6666   2.4846 (   0    8   15)   0     0.7500   0.6666    8   9
( 3390 1kpf  )  ( 1960 1guq_A)     0.6250   0.5000   3.2543 (   0    4   10)   0     0.6250   0.5000    8  10
( 3390 1kpf  )  ( 1961 1guq_A)     0.8749   0.6363   2.9292 (   0   13   21)   0     0.8749   0.6384    8  11
( 3390 1kpf  )  ( 3390 1kpf  )     1.0000   1.0000   0.0000 (   0   18   28)   0     1.0000   1.0000    8   8
( 3390 1kpf  )  ( 3580 1l9v_A)     0.7499   0.6000   3.0917 (   0    7   15)   0     0.7499   0.6000    8  10
( 3390 1kpf  )  ( 5849 1st0_A)     0.8750   0.4667   2.1904 (   0   13   21)   0     0.8750   0.4667    8  15

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