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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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( 5411 1qpo_A)  (  454 1brw_A)     0.7135   0.6246   5.7491 (   0    1   10)   0     0.7135   0.6246    7   8
( 5411 1qpo_A)  ( 1557 1fm0_E)     0.7124   0.4165   7.2008 (   0    0   10)   0     0.7124   0.4165    7  12
( 5411 1qpo_A)  ( 1586 1fo4_A)     0.7123   0.4997   7.3215 (   0    1   10)   0     0.7123   0.4997    7  10
( 5411 1qpo_A)  ( 2906 1jj2_H)     0.7129   0.4998   6.6860 (   0    0   10)   0     0.7129   0.4998    7  10
( 5411 1qpo_A)  ( 3038 1jro_B)     0.7120   0.6238   7.5643 (   0    1   10)   0     0.7120   0.6238    7   8
( 5411 1qpo_A)  ( 4137 1n62_B)     0.7124   0.4165   7.2099 (   0    1   10)   0     0.7124   0.4165    7  12
( 5411 1qpo_A)  ( 4485 1o4u_A)     0.8779   0.7355   2.7570 (   1   11   21)   0     0.8779   0.7355    7   9
( 5411 1qpo_A)  ( 5267 1qap_A)     0.8569   0.9995   3.4345 (   0    6   15)   0     0.8569   0.9995    7   6
( 5411 1qpo_A)  ( 5411 1qpo_A)     1.0000   1.0000   0.0000 (   0   12   21)   0     1.0000   1.0000    7   7
( 5411 1qpo_A)  ( 6071 1uou_A)     0.7135   0.6246   5.6949 (   0    1   10)   0     0.7135   0.6246    7   8
( 5411 1qpo_A)  ( 6309 1vlb_A)     0.7124   0.6240   7.2215 (   0    1   10)   0     0.7124   0.6240    7   8
( 5411 1qpo_A)  ( 6547 2tpt  )     0.7132   0.6244   6.2512 (   0    1   10)   0     0.7132   0.6244    7   8

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