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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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( 2992 1jnd_A)  (  417 1bkf  )     0.9056   0.8086   4.1365 (   1   12   15)   1     0.9056   0.8086    6   7
( 2992 1jnd_A)  ( 1114 1edq_A)     0.9999   0.9999   1.6727 (   0   12   15)   0     0.9999   0.9999    6   6
( 2992 1jnd_A)  ( 1243 1eq3_A)     0.6665   0.5714   4.1896 (   0    3    6)   0     0.6665   0.5714    6   7
( 2992 1jnd_A)  ( 1474 1fd9_A)     0.6613   0.3634  10.2392 (   0    5    6)   0     0.9054   0.5397    6  11
( 2992 1jnd_A)  ( 1890 1goi_A)     0.9999   0.8571   2.1984 (   0   13   15)   0     0.9999   0.8571    6   7
( 2992 1jnd_A)  ( 2223 1hkk_A)     0.9999   0.8571   1.7871 (   0   13   15)   0     0.9999   0.8571    6   7
( 2992 1jnd_A)  ( 2604 1itx_A)     0.9999   0.8571   1.6597 (   0   13   15)   0     0.9999   0.8571    6   7
( 2992 1jnd_A)  ( 2642 1ix5_A)     0.6531   0.3989  12.9856 (   0    4    6)   0     0.6531   0.3989    6  10
( 2992 1jnd_A)  ( 2992 1jnd_A)     1.0000   1.0000   0.0000 (   0   13   15)   0     1.0000   1.0000    6   6
( 2992 1jnd_A)  ( 2998 1jnt_A)   nil
( 2992 1jnd_A)  ( 3075 1jvw_A)     0.1996   0.1957   8.6774 (   2    4    6)   0     0.9056   0.5397    6  11
( 2992 1jnd_A)  ( 3289 1kfw_A)     0.9999   0.9999   1.4774 (   0   12   15)   0     0.9999   0.9999    6   6
( 2992 1jnd_A)  ( 3423 1kt1_A)   nil
( 2992 1jnd_A)  ( 3847 1m5y_A)     0.5648   0.5142   7.0771 (   1    6   10)   0     0.5652   0.5145    6   8
( 2992 1jnd_A)  ( 3848 1m5y_A)     0.3879   0.3790   6.7652 (   1    4    6)   0     0.3880   0.3790    6   7
( 2992 1jnd_A)  ( 4690 1okg_A)     0.6658   0.6658   6.4962 (   0    4    6)   0     0.6667   0.6667    6   6
( 2992 1jnd_A)  ( 5022 1pin_A)     0.6640   0.5702   8.5599 (   0    4    6)   0     0.6640   0.5702    6   7
( 2992 1jnd_A)  ( 5222 1q6h_A)     0.6632   0.3332   9.1346 (   0    3    6)   0     0.8330   0.4167    6  12
( 2992 1jnd_A)  ( 6565 3eip_A)     0.8319   0.7136   5.4888 (   0    7   10)   0     0.8319   0.7136    6   7

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