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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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( 1541 1fkn_A)  (  908 1dpj_A)     0.7440   0.7128   2.4168 (  26  249  300)   0     0.7440   0.7128   30  32
( 1541 1fkn_A)  ( 1541 1fkn_A)     1.0000   1.0000   0.0000 (   0  379  435)   0     1.0000   1.0000   30  30
( 1541 1fkn_A)  ( 1559 1fmb  )     0.2333   0.7683   5.8816 (   1   17   21)   0     0.2604   0.7683   30   9
( 1541 1fkn_A)  ( 2272 1hrn_A)     0.8222   0.8222   3.6505 (  14  242  300)   0     0.8222   0.8222   30  30
( 1541 1fkn_A)  ( 2751 1j71_A)     0.7739   0.7107   4.8700 (  17  223  276)   0     0.7976   0.7346   30  33
( 1541 1fkn_A)  ( 3611 1lf2_A)     0.8572   0.8854   3.7721 (  14  266  325)   0     0.8572   0.8854   30  29
( 1541 1fkn_A)  ( 4005 1mpp  )     0.7285   0.6491   3.5430 (  24  234  276)   0     0.7285   0.6491   30  35
( 1541 1fkn_A)  ( 4246 1nh0_A)     0.1333   0.4999   5.8441 (   0    5    6)   0     0.2333   0.8398   30   8
( 1541 1fkn_A)  ( 4378 1nso_A)     0.1333   0.5712   5.7940 (   0    5    6)   0     0.1401   0.5713   30   7
( 1541 1fkn_A)  ( 4618 1oew_A)     0.8318   0.8088   4.4501 (  20  268  325)   0     0.8318   0.8088   30  31
( 1541 1fkn_A)  ( 6394 2apr  )     0.8600   0.8330   3.7138 (  13  271  325)   0     0.8600   0.8330   30  31
( 1541 1fkn_A)  ( 6525 2rsp_A)     0.1659   0.3629   8.3090 (   2    9   10)   0     0.3234   0.5953   30  12
( 1541 1fkn_A)  ( 6610 4fiv  )     0.2333   0.8560   3.9167 (   1   16   21)   0     0.2333   0.8560   30   8

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