------------------------------------------------------------------------------------------------------------------------- Will print the top 5 alignments (based on backbone shifts) for each pairing of chains, 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: score1 [score2] pairings L2ERR {Xbad/Xsig:Xtot} Breaks (score2 is the score from protein2's perspective, not the minimum of the two perspectives as in some earlier printouts.) Recall that "SIMILARITY" refers to similarities over all alignments not just the top ones. ------------------------------------------------------------------------------------------------------------------------- [3338, 288]: Comparing 1kkx_A and 1b4a_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 12 (6 H + 6 S) secondary structure elements in 1b4a_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 328]: Comparing 1kkx_A and 1b9m_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 25 (10 H + 15 S) secondary structure elements in 1b9m_A, of which 10 satisfy the size requirements. 1.50521 [ 2.50113] ((2 . 3) (4 . 4) (5 . 5) (6 . 8)) 8.251 {0/4:6} B:0 1.53808 [ 2.50850] ((1 . 4) (2 . 5) (4 . 8) (5 . 9)) 13.677 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6644 [and 1/min{score2}: 0.3998] [3338, 410]: Comparing 1kkx_A and 1bja_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (5 H + 2 S) secondary structure elements in 1bja_A, of which 7 satisfy the size requirements. 1.50036 [ 1.75022] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 4.217 {0/5:6} B:0 1.50518 [ 1.75327] ((1 . 1) (2 . 2) (3 . 3) (6 . 7)) 8.240 {0/6:6} B:0 1.51828 [ 1.76161] ((1 . 1) (2 . 2) (3 . 3) (5 . 7)) 11.329 {0/5:6} B:0 5.01021 [ 5.01877] ((1 . 1) (3 . 2) (4 . 3) (6 . 7)) 7.911 {3/6:6} B:0 SIMILARITY (1/min{score1}): 0.6665 [and 1/min{score2}: 0.5714] [3338, 424]: Comparing 1kkx_A and 1bm9_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (4 H + 2 S) secondary structure elements in 1bm9_A, of which 6 satisfy the size requirements. 2.14983 [ 2.14983] ((1 . 1) (2 . 2) (4 . 3) (6 . 6)) 11.825 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.4652 [and 1/min{score2}: 0.4652] [3338, 509]: Comparing 1kkx_A and 1c20_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 10 (8 H + 2 S) secondary structure elements in 1c20_A, of which 8 satisfy the size requirements. 1.07821 [ 1.36895] ((1 . 2) (2 . 5) (3 . 6) (4 . 7) (5 . 8) (6 . 9)) 3.064 {1/13:15} B:0 1.20012 [ 1.60005] ((1 . 2) (2 . 5) (4 . 7) (5 . 8) (6 . 9)) 2.732 {0/9:10} B:0 1.20253 [ 1.60107] ((1 . 2) (2 . 5) (3 . 7) (5 . 8) (6 . 9)) 5.823 {0/9:10} B:0 1.37883 [ 1.68674] ((1 . 2) (2 . 5) (3 . 6) (4 . 7) (6 . 8)) 5.754 {1/9:10} B:0 1.51086 [ 2.00461] ((1 . 5) (2 . 7) (3 . 8) (5 . 10)) 9.926 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.9275 [and 1/min{score2}: 0.7305] [3338, 576]: Comparing 1kkx_A and 1cf7_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (3 H + 3 S) secondary structure elements in 1cf7_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 904]: Comparing 1kkx_A and 1dp7_P, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (3 H + 4 S) secondary structure elements in 1dp7_P, of which 7 satisfy the size requirements. NO SIMILARITY! [3338, 997]: Comparing 1kkx_A and 1e17_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (4 H + 3 S) secondary structure elements in 1e17_A, of which 6 satisfy the size requirements. 2.14330 [ 2.14330] ((1 . 1) (2 . 3) (3 . 4) (4 . 5)) 7.154 {1/5:6} B:0 1.50071 [ 1.50071] ((1 . 1) (3 . 4) (4 . 5) (5 . 3)) 5.000 {0/5:6} B:1 SIMILARITY (1/min{score1}): 0.6664 [and 1/min{score2}: 0.6664] [3338, 1461]: Comparing 1kkx_A and 1fc3_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (8 H + 0 S) secondary structure elements in 1fc3_A, of which 8 satisfy the size requirements. 1.20225 [ 1.60095] ((1 . 1) (2 . 2) (4 . 4) (5 . 5) (6 . 8)) 5.652 {0/9:10} B:0 1.50079 [ 2.00033] ((1 . 1) (2 . 2) (4 . 4) (5 . 5)) 5.140 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.8318 [and 1/min{score2}: 0.6246] [3338, 1576]: Comparing 1kkx_A and 1fnn_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 27 (19 H + 8 S) secondary structure elements in 1fnn_A, of which 7 satisfy the size requirements. 2.14596 [ 2.24769] ((1 . 21) (2 . 23) (4 . 24) (6 . 27)) 9.874 {1/5:6} B:0 2.57760 [ 2.63843] ((1 . 20) (2 . 21) (4 . 23) (6 . 24)) 5.883 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.4660 [and 1/min{score2}: 0.4449] [3338, 1595]: Comparing 1kkx_A and 1fp1_D, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 28 (17 H + 11 S) secondary structure elements in 1fp1_D, of which 8 satisfy the size requirements. 4.01969 [ 4.06115] ((1 . 2) (2 . 3) (4 . 4) (5 . 6)) 5.705 {2/5:6} B:0 5.01028 [ 5.03188] ((1 . 1) (2 . 3) (4 . 4) (5 . 6)) 8.787 {2/4:6} B:0 5.01031 [ 5.03191] ((1 . 1) (2 . 3) (3 . 4) (5 . 6)) 9.187 {2/4:6} B:0 SIMILARITY (1/min{score1}): 0.2488 [and 1/min{score2}: 0.2462] [3338, 1597]: Comparing 1kkx_A and 1fp2_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 33 (21 H + 12 S) secondary structure elements in 1fp2_A, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 1664]: Comparing 1kkx_A and 1fzp_B, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (6 H + 0 S) secondary structure elements in 1fzp_B, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 1973]: Comparing 1kkx_A and 1gvj_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 12 (8 H + 4 S) secondary structure elements in 1gvj_A, of which 11 satisfy the size requirements. 2.14725 [ 2.92688] ((1 . 7) (2 . 8) (5 . 11) (6 . 12)) 10.646 {1/5:6} B:0 2.57881 [ 3.13306] ((1 . 7) (2 . 8) (4 . 11) (5 . 12)) 9.025 {1/4:6} B:0 2.58392 [ 3.13591] ((1 . 4) (2 . 7) (4 . 8) (6 . 11)) 13.125 {1/4:6} B:0 4.01989 [ 4.20703] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 8.159 {2/5:6} B:0 4.02065 [ 4.20769] ((1 . 3) (2 . 7) (4 . 8) (6 . 11)) 11.474 {2/5:6} B:0 SIMILARITY (1/min{score1}): 0.4657 [and 1/min{score2}: 0.3417] [3338, 1999]: Comparing 1kkx_A and 1gxq_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 11 (4 H + 7 S) secondary structure elements in 1gxq_A, of which 9 satisfy the size requirements. 4.01967 [ 4.09659] ((2 . 5) (4 . 7) (5 . 8) (6 . 9)) 5.012 {2/5:6} B:0 4.01979 [ 4.09671] ((2 . 5) (3 . 7) (5 . 8) (6 . 9)) 7.199 {2/5:6} B:0 4.02010 [ 4.09700] ((1 . 5) (2 . 7) (4 . 8) (5 . 9)) 9.451 {2/5:6} B:0 SIMILARITY (1/min{score1}): 0.2488 [and 1/min{score2}: 0.2441] [3338, 2162]: Comparing 1kkx_A and 1hbx_G, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 12 (7 H + 5 S) secondary structure elements in 1hbx_G, of which 11 satisfy the size requirements. 1.52857 [ 2.75476] ((1 . 2) (2 . 5) (4 . 6) (6 . 9)) 12.699 {0/4:6} B:0 2.04582 [ 2.88885] ((1 . 2) (2 . 5) (3 . 6) (6 . 10)) 23.607 {1/6:6} B:0 2.58057 [ 3.13404] ((1 . 1) (2 . 5) (4 . 6) (6 . 9)) 10.977 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.6542 [and 1/min{score2}: 0.3630] [3338, 2224]: Comparing 1kkx_A and 1hkq_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 11 (6 H + 5 S) secondary structure elements in 1hkq_A, of which 10 satisfy the size requirements. 2.14267 [ 2.72423] ((1 . 1) (2 . 2) (4 . 5) (5 . 6)) 5.606 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.4667 [and 1/min{score2}: 0.3671] [3338, 2278]: Comparing 1kkx_A and 1hsj_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 40 (22 H + 18 S) secondary structure elements in 1hsj_A, of which 7 satisfy the size requirements. 1.50121 [ 1.75076] ((1 . 33) (2 . 34) (4 . 36) (5 . 37)) 5.722 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.6661 [and 1/min{score2}: 0.5712] [3338, 2410]: Comparing 1kkx_A and 1i5z_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 17 (6 H + 11 S) secondary structure elements in 1i5z_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 2482]: Comparing 1kkx_A and 1ig6_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (7 H + 0 S) secondary structure elements in 1ig6_A, of which 6 satisfy the size requirements. 2.14358 [ 2.14358] ((1 . 1) (3 . 5) (5 . 6) (6 . 7)) 7.605 {1/5:6} B:0 2.14464 [ 2.14464] ((1 . 1) (2 . 4) (3 . 5) (5 . 6)) 8.825 {1/5:6} B:0 2.32786 [ 2.32786] ((1 . 1) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (6 . 7)) 4.182 {3/13:15} B:0 SIMILARITY (1/min{score1}): 0.4665 [and 1/min{score2}: 0.4665] [3338, 2544]: Comparing 1kkx_A and 1in4_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 24 (17 H + 7 S) secondary structure elements in 1in4_A, of which 7 satisfy the size requirements. 2.14233 [ 2.24453] ((2 . 18) (4 . 19) (5 . 20) (6 . 21)) 3.259 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.4668 [and 1/min{score2}: 0.4455] [3338, 2703]: Comparing 1kkx_A and 1j1v_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (6 H + 0 S) secondary structure elements in 1j1v_A, of which 6 satisfy the size requirements. 1.38093 [ 1.38093] ((1 . 1) (2 . 3) (4 . 4) (5 . 5) (6 . 6)) 7.098 {1/9:10} B:0 1.50018 [ 1.50018] ((2 . 1) (3 . 2) (4 . 3) (5 . 4)) 3.567 {0/4:6} B:0 1.50296 [ 1.50296] ((1 . 1) (2 . 3) (4 . 4) (6 . 6)) 7.156 {0/5:6} B:0 2.14270 [ 2.14270] ((2 . 1) (3 . 2) (4 . 3) (6 . 4)) 5.706 {1/5:6} B:0 4.45045 [ 4.45045] ((1 . 1) (3 . 5) (4 . 4) (5 . 3) (6 . 6)) 7.184 {4/9:10} B:2 SIMILARITY (1/min{score1}): 0.7242 [and 1/min{score2}: 0.7242] [3338, 2862]: Comparing 1kkx_A and 1jgs_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (6 H + 2 S) secondary structure elements in 1jgs_A, of which 8 satisfy the size requirements. 1.50176 [ 2.00074] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 6.283 {0/5:6} B:0 1.54444 [ 2.01932] ((1 . 3) (2 . 4) (4 . 7) (6 . 8)) 14.238 {0/4:6} B:0 2.14493 [ 2.38035] ((1 . 1) (2 . 2) (4 . 4) (6 . 7)) 9.091 {1/5:6} B:0 2.14636 [ 2.38139] ((1 . 1) (2 . 2) (4 . 4) (5 . 7)) 10.129 {1/5:6} B:0 4.02028 [ 4.06171] ((1 . 1) (2 . 3) (3 . 4) (6 . 7)) 10.247 {2/5:6} B:0 SIMILARITY (1/min{score1}): 0.6659 [and 1/min{score2}: 0.4998] [3338, 2871]: Comparing 1kkx_A and 1jhg_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (6 H + 0 S) secondary structure elements in 1jhg_A, of which 6 satisfy the size requirements. 1.57913 [ 1.57913] ((1 . 1) (2 . 2) (4 . 3) (6 . 4)) 16.590 {0/5:6} B:0 4.02002 [ 4.02002] ((1 . 1) (2 . 3) (4 . 5) (5 . 6)) 9.009 {2/5:6} B:0 6.00597 [ 6.00597] ((1 . 2) (2 . 3) (4 . 5) (5 . 6)) 9.161 {3/5:6} B:0 SIMILARITY (1/min{score1}): 0.6333 [and 1/min{score2}: 0.6333] [3338, 3237]: Comparing 1kkx_A and 1ka8_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (4 H + 4 S) secondary structure elements in 1ka8_A, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 3296]: Comparing 1kkx_A and 1kgs_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 20 (8 H + 12 S) secondary structure elements in 1kgs_A, of which 9 satisfy the size requirements. NO SIMILARITY! [3338, 3338]: Comparing 1kkx_A and 1kkx_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. 1.00000 [ 1.00000] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6)) 0.000 {0/13:15} B:0 6.00590 [ 6.00590] ((1 . 1) (2 . 3) (4 . 5) (5 . 6)) 7.205 {3/5:6} B:0 6.00590 [ 6.00590] ((1 . 1) (3 . 2) (5 . 4) (6 . 5)) 7.205 {3/5:6} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [3338, 3438]: Comparing 1kkx_A and 1ku9_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1ku9_A, of which 8 satisfy the size requirements. 1.50146 [ 2.00062] ((1 . 1) (2 . 2) (4 . 4) (5 . 5)) 5.994 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.6660 [and 1/min{score2}: 0.4998] [3338, 3604]: Comparing 1kkx_A and 1ldj_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 43 (33 H + 10 S) secondary structure elements in 1ldj_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 3639]: Comparing 1kkx_A and 1lj9_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1lj9_A, of which 8 satisfy the size requirements. 1.50672 [ 2.00285] ((1 . 1) (2 . 2) (4 . 5) (6 . 8)) 8.796 {0/4:6} B:0 1.50926 [ 2.00393] ((1 . 1) (2 . 4) (3 . 5) (6 . 8)) 9.536 {0/4:6} B:0 1.51074 [ 2.00456] ((1 . 1) (2 . 4) (4 . 5) (6 . 8)) 9.900 {0/3:6} B:0 1.52644 [ 2.01136] ((1 . 4) (2 . 5) (4 . 8) (6 . 9)) 12.449 {0/4:6} B:0 2.57786 [ 2.72449] ((1 . 1) (2 . 2) (4 . 4) (5 . 5)) 6.964 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.6637 [and 1/min{score2}: 0.4993] [3338, 3681]: Comparing 1kkx_A and 1lnw_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (6 H + 2 S) secondary structure elements in 1lnw_A, of which 8 satisfy the size requirements. 1.50725 [ 2.00307] ((1 . 1) (2 . 2) (4 . 4) (6 . 7)) 8.965 {0/4:6} B:0 2.57803 [ 2.72463] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 7.481 {1/4:6} B:0 7.50315 [ 7.50961] ((1 . 1) (2 . 2) (3 . 7) (4 . 4)) 11.354 {3/4:6} B:1 SIMILARITY (1/min{score1}): 0.6635 [and 1/min{score2}: 0.4992] [3338, 3746]: Comparing 1kkx_A and 1lva_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 22 (12 H + 10 S) secondary structure elements in 1lva_A, of which 6 satisfy the size requirements. 5.01038 [ 5.01038] ((2 . 1) (4 . 3) (5 . 4) (6 . 7)) 9.828 {2/4:6} B:0 SIMILARITY (1/min{score1}): 0.1996 [and 1/min{score2}: 0.1996] [3338, 3748]: Comparing 1kkx_A and 1lva_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 22 (12 H + 10 S) secondary structure elements in 1lva_A, of which 6 satisfy the size requirements. 2.57879 [ 2.57879] ((2 . 13) (4 . 14) (5 . 15) (6 . 18)) 8.983 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.3878 [and 1/min{score2}: 0.3878] [3338, 3934]: Comparing 1kkx_A and 1mij_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (8 H + 0 S) secondary structure elements in 1mij_A, of which 6 satisfy the size requirements. 1.50956 [ 1.50956] ((1 . 2) (2 . 3) (4 . 4) (6 . 5)) 9.614 {0/4:6} B:0 2.14585 [ 2.14585] ((1 . 1) (2 . 3) (4 . 4) (6 . 5)) 9.797 {1/5:6} B:0 1.50354 [ 1.50354] ((1 . 7) (2 . 3) (4 . 4) (6 . 5)) 7.485 {0/4:6} B:1 SIMILARITY (1/min{score1}): 0.6651 [and 1/min{score2}: 0.6651] [3338, 3960]: Comparing 1kkx_A and 1mkm_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 18 (10 H + 8 S) secondary structure elements in 1mkm_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 4082]: Comparing 1kkx_A and 1mzb_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 10 (5 H + 5 S) secondary structure elements in 1mzb_A, of which 10 satisfy the size requirements. 1.50053 [ 2.50012] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 4.660 {0/5:6} B:0 1.50099 [ 2.50021] ((1 . 1) (2 . 2) (4 . 3) (6 . 4)) 5.442 {0/5:6} B:0 1.50245 [ 2.50053] ((1 . 1) (2 . 2) (3 . 3) (5 . 4)) 6.825 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.6664 [and 1/min{score2}: 0.4000] [3338, 4537]: Comparing 1kkx_A and 1o7f_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 39 (19 H + 20 S) secondary structure elements in 1o7f_A, of which 9 satisfy the size requirements. NO SIMILARITY! [3338, 4697]: Comparing 1kkx_A and 1okr_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1okr_A, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 4714]: Comparing 1kkx_A and 1omi_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 21 (9 H + 12 S) secondary structure elements in 1omi_A, of which 10 satisfy the size requirements. 4.02000 [ 4.14490] ((1 . 12) (2 . 16) (4 . 19) (5 . 21)) 8.923 {2/5:6} B:0 SIMILARITY (1/min{score1}): 0.2488 [and 1/min{score2}: 0.2413] [3338, 4745]: Comparing 1kkx_A and 1opc, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 10 (3 H + 7 S) secondary structure elements in 1opc, of which 9 satisfy the size requirements. NO SIMILARITY! [3338, 4840]: Comparing 1kkx_A and 1oyw_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 41 (24 H + 17 S) secondary structure elements in 1oyw_A, of which 10 satisfy the size requirements. 1.50151 [ 2.50033] ((2 . 33) (3 . 34) (4 . 35) (6 . 36)) 6.049 {0/5:6} B:0 2.15156 [ 2.72857] ((1 . 33) (2 . 35) (4 . 36) (6 . 40)) 12.455 {1/5:6} B:0 6.25227 [ 6.26646] ((1 . 33) (2 . 34) (3 . 35) (4 . 36) (6 . 40)) 9.799 {5/8:10} B:0 SIMILARITY (1/min{score1}): 0.6660 [and 1/min{score2}: 0.3999] [3338, 4872]: Comparing 1kkx_A and 1p2f_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 20 (8 H + 12 S) secondary structure elements in 1p2f_A, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 4894]: Comparing 1kkx_A and 1p4x_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 17 (11 H + 6 S) secondary structure elements in 1p4x_A, of which 8 satisfy the size requirements. 1.50188 [ 2.00079] ((1 . 1) (2 . 2) (4 . 4) (5 . 5)) 6.386 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.6658 [and 1/min{score2}: 0.4998] [3338, 4895]: Comparing 1kkx_A and 1p4x_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 17 (11 H + 6 S) secondary structure elements in 1p4x_A, of which 7 satisfy the size requirements. 1.50178 [ 1.75112] ((1 . 9) (2 . 10) (4 . 12) (5 . 13)) 6.303 {0/5:6} B:0 2.14507 [ 2.24691] ((1 . 9) (2 . 10) (4 . 13) (6 . 16)) 9.206 {1/5:6} B:0 8.00254 [ 8.00465] ((1 . 9) (2 . 10) (3 . 16) (4 . 13)) 9.887 {4/5:6} B:1 SIMILARITY (1/min{score1}): 0.6659 [and 1/min{score2}: 0.5711] [3338, 4986]: Comparing 1kkx_A and 1pdn_C, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (6 H + 2 S) secondary structure elements in 1pdn_C, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 5074]: Comparing 1kkx_A and 1pp7_U, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 13 (7 H + 6 S) secondary structure elements in 1pp7_U, of which 10 satisfy the size requirements. 2.14409 [ 2.72492] ((1 . 2) (2 . 5) (4 . 8) (5 . 9)) 8.262 {1/5:6} B:0 4.02009 [ 4.14498] ((1 . 1) (2 . 4) (4 . 5) (5 . 8)) 9.403 {2/5:6} B:0 8.00248 [ 8.01902] ((1 . 2) (2 . 8) (5 . 9) (6 . 4)) 6.559 {4/5:6} B:1 SIMILARITY (1/min{score1}): 0.4664 [and 1/min{score2}: 0.3670] [3338, 5110]: Comparing 1kkx_A and 1pue_E, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (3 H + 4 S) secondary structure elements in 1pue_E, of which 7 satisfy the size requirements. NO SIMILARITY! [3338, 5180]: Comparing 1kkx_A and 1q1h_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (5 H + 2 S) secondary structure elements in 1q1h_A, of which 7 satisfy the size requirements. 1.50084 [ 1.75053] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 5.219 {0/4:6} B:0 1.50242 [ 1.75153] ((1 . 1) (2 . 2) (3 . 3) (5 . 4)) 6.808 {0/4:6} B:0 2.14373 [ 2.24575] ((1 . 1) (2 . 2) (3 . 3) (6 . 7)) 7.811 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.6663 [and 1/min{score2}: 0.5713] [3338, 5508]: Comparing 1kkx_A and 1qzz_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 30 (20 H + 10 S) secondary structure elements in 1qzz_A, of which 6 satisfy the size requirements. 1.50269 [ 1.50269] ((2 . 2) (4 . 4) (5 . 5) (6 . 8)) 6.991 {0/4:6} B:0 2.57871 [ 2.57871] ((1 . 2) (2 . 4) (4 . 5) (6 . 8)) 8.858 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.6655 [and 1/min{score2}: 0.6655] [3338, 5612]: Comparing 1kkx_A and 1rep_C, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 21 (11 H + 10 S) secondary structure elements in 1rep_C, of which 11 satisfy the size requirements. 1.50185 [ 2.75030] ((1 . 2) (2 . 3) (4 . 5) (5 . 6)) 6.362 {0/4:6} B:0 2.57841 [ 3.13284] ((2 . 3) (4 . 5) (5 . 6) (6 . 2)) 8.340 {1/4:6} B:1 SIMILARITY (1/min{score1}): 0.6658 [and 1/min{score2}: 0.3636] [3338, 5613]: Comparing 1kkx_A and 1rep_C, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 21 (11 H + 10 S) secondary structure elements in 1rep_C, of which 8 satisfy the size requirements. 1.50034 [ 2.00014] ((2 . 14) (4 . 16) (5 . 18) (6 . 19)) 4.171 {0/4:6} B:0 1.50764 [ 2.00324] ((1 . 14) (2 . 16) (3 . 18) (4 . 19)) 9.085 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6665 [and 1/min{score2}: 0.5000] [3338, 5750]: Comparing 1kkx_A and 1s29_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1s29_A, of which 8 satisfy the size requirements. 2.57778 [ 2.72442] ((3 . 1) (4 . 2) (5 . 3) (6 . 5)) 6.680 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.3879 [and 1/min{score2}: 0.3671] [3338, 5764]: Comparing 1kkx_A and 1s3j_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1s3j_A, of which 9 satisfy the size requirements. 1.54246 [ 2.26301] ((1 . 4) (2 . 5) (4 . 8) (6 . 9)) 14.070 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6483 [and 1/min{score2}: 0.4419] [3338, 5776]: Comparing 1kkx_A and 1s7a_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1s7a_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 5829]: Comparing 1kkx_A and 1smt_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 7 (5 H + 2 S) secondary structure elements in 1smt_A, of which 7 satisfy the size requirements. 1.50264 [ 1.75167] ((2 . 2) (4 . 3) (5 . 4) (6 . 7)) 6.959 {0/4:6} B:0 2.57758 [ 2.63841] ((1 . 1) (2 . 2) (4 . 3) (5 . 4)) 5.759 {1/4:6} B:0 SIMILARITY (1/min{score1}): 0.6655 [and 1/min{score2}: 0.5709] [3338, 5959]: Comparing 1kkx_A and 1ub9_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (6 H + 3 S) secondary structure elements in 1ub9_A, of which 8 satisfy the size requirements. NO SIMILARITY! [3338, 5972]: Comparing 1kkx_A and 1ucr_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (5 H + 3 S) secondary structure elements in 1ucr_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 6025]: Comparing 1kkx_A and 1uhw_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (4 H + 4 S) secondary structure elements in 1uhw_A, of which 6 satisfy the size requirements. 1.50996 [ 1.50996] ((1 . 1) (2 . 4) (3 . 5) (4 . 7)) 9.713 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6623 [and 1/min{score2}: 0.6623] [3338, 6346]: Comparing 1kkx_A and 1xgs_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 24 (7 H + 17 S) secondary structure elements in 1xgs_A, of which 6 satisfy the size requirements. NO SIMILARITY! [3338, 6450]: Comparing 1kkx_A and 2fok_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 44 (27 H + 17 S) secondary structure elements in 2fok_A, of which 10 satisfy the size requirements. 6.00591 [ 6.04476] ((1 . 1) (3 . 4) (4 . 6) (6 . 7)) 7.470 {3/5:6} B:0 SIMILARITY (1/min{score1}): 0.1665 [and 1/min{score2}: 0.1654] [3338, 6451]: Comparing 1kkx_A and 2fok_A, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 44 (27 H + 17 S) secondary structure elements in 2fok_A, of which 11 satisfy the size requirements. NO SIMILARITY! [3338, 6476]: Comparing 1kkx_A and 2hts, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 9 (5 H + 4 S) secondary structure elements in 2hts, of which 7 satisfy the size requirements. 1.50227 [ 1.75143] ((2 . 2) (4 . 5) (5 . 6) (6 . 7)) 6.699 {0/4:6} B:0 2.57779 [ 2.63860] ((2 . 1) (4 . 5) (5 . 6) (6 . 7)) 6.699 {1/4:6} B:0 2.57820 [ 2.63898] ((3 . 1) (4 . 2) (5 . 6) (6 . 5)) 7.894 {1/4:6} B:1 SIMILARITY (1/min{score1}): 0.6657 [and 1/min{score2}: 0.5710] [3338, 6480]: Comparing 1kkx_A and 2irf_G, based on their crossing files. There are 6 (6 H + 0 S) secondary structure elements in 1kkx_A, of which 6 satisfy the size requirements. There are 8 (4 H + 4 S) secondary structure elements in 2irf_G, of which 7 satisfy the size requirements. NO SIMILARITY! -------------------------------------------------------------------------------------------------------------------------