------------------------------------------------------------------------------------------------------------------------- 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. ------------------------------------------------------------------------------------------------------------------------- [3651, 1043]: Comparing 1ll2_A and 1e5k_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 18 (8 H + 10 S) secondary structure elements in 1e5k_A, of which 13 satisfy the size requirements. 1.75031 [ 1.24920] ((1 . 1) (2 . 5) (3 . 6) (4 . 7) (7 . 9) (8 . 10) (10 . 11) (11 . 12) (13 . 14) (14 . 15) (15 . 16)) 3.436 {3/36:55} B:0 3.24992 [ 2.39744] ((1 . 1) (2 . 5) (8 . 6) (10 . 9) (13 . 10) (25 . 18)) 8.236 {2/11:15} B:0 3.80002 [ 2.60005] ((4 . 5) (5 . 6) (7 . 9) (14 . 15) (15 . 16)) 3.866 {0/4:10} B:0 3.80002 [ 2.60007] ((1 . 1) (4 . 5) (5 . 6) (7 . 9) (15 . 16)) 4.171 {0/4:10} B:0 3.80061 [ 2.60190] ((2 . 5) (4 . 9) (5 . 10) (7 . 11) (8 . 12)) 9.677 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.5721 [and 1/min{score2}: 0.8046] [3651, 1325]: Comparing 1ll2_A and 1ezi_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 21 (9 H + 12 S) secondary structure elements in 1ezi_A, of which 17 satisfy the size requirements. 1.75050 [ 1.57754] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 8) (8 . 9) (10 . 10) (11 . 11) (13 . 17) (14 . 18)) 4.522 {3/36:55} B:0 1.94650 [ 1.76368] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 8) (8 . 9) (10 . 10) (13 . 17) (14 . 18)) 4.391 {3/28:45} B:0 1.96176 [ 1.78407] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 8) (8 . 9) (11 . 11) (13 . 17) (14 . 18)) 4.509 {3/26:45} B:0 2.47341 [ 2.39218] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (8 . 9) (10 . 10) (13 . 17) (14 . 18) (25 . 21)) 4.856 {6/27:45} B:0 3.16687 [ 2.83362] ((1 . 1) (4 . 4) (7 . 8) (8 . 9) (10 . 10) (11 . 11)) 6.403 {0/9:15} B:0 SIMILARITY (1/min{score1}): 0.5713 [and 1/min{score2}: 0.6339] [3651, 1590]: Comparing 1ll2_A and 1fo8_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 29 (14 H + 15 S) secondary structure elements in 1fo8_A, of which 23 satisfy the size requirements. 1.54312 [ 1.75849] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 14) (14 . 15) (15 . 16) (21 . 19)) 3.819 {7/57:91} B:0 1.59956 [ 1.92589] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (13 . 14) (15 . 16) (21 . 19)) 3.022 {3/42:66} B:0 1.63929 [ 1.87866] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (13 . 14) (14 . 15) (15 . 16) (21 . 19)) 3.605 {6/47:78} B:0 1.73938 [ 1.94762] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (13 . 14) (14 . 15) (15 . 17) (21 . 19)) 4.029 {6/41:78} B:0 3.80008 [ 4.60005] ((1 . 1) (2 . 2) (4 . 4) (11 . 11) (15 . 15)) 5.830 {0/5:10} B:0 SIMILARITY (1/min{score1}): 0.6480 [and 1/min{score2}: 0.5687] [3651, 1690]: Comparing 1ll2_A and 1g1l_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 29 (15 H + 14 S) secondary structure elements in 1g1l_A, of which 22 satisfy the size requirements. 1.40654 [ 1.60400] ((1 . 1) (2 . 7) (3 . 8) (4 . 9) (5 . 11) (7 . 12) (8 . 13) (9 . 14) (10 . 15) (11 . 16) (13 . 21) (14 . 22) (15 . 23) (21 . 25)) 4.398 {5/59:91} B:0 1.43911 [ 1.58694] ((1 . 1) (2 . 7) (3 . 8) (4 . 9) (5 . 11) (7 . 12) (8 . 13) (9 . 14) (10 . 15) (11 . 16) (13 . 21) (14 . 22) (15 . 23) (21 . 25) (25 . 26)) 4.924 {8/70:105} B:0 3.16670 [ 3.66669] ((1 . 8) (2 . 9) (3 . 11) (13 . 21) (14 . 22) (15 . 23)) 4.201 {0/9:15} B:0 3.80015 [ 4.40009] ((1 . 1) (4 . 7) (5 . 8) (7 . 12) (10 . 15)) 6.762 {0/5:10} B:0 3.80015 [ 4.40010] ((1 . 8) (2 . 9) (3 . 11) (4 . 12) (5 . 13)) 6.862 {0/2:10} B:0 SIMILARITY (1/min{score1}): 0.7110 [and 1/min{score2}: 0.6301] [3651, 1776]: Comparing 1ll2_A and 1g97_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 56 (14 H + 42 S) secondary structure elements in 1g97_A, of which 19 satisfy the size requirements. 1.57151 [ 1.57151] ((1 . 1) (2 . 6) (3 . 7) (4 . 8) (5 . 9) (7 . 10) (8 . 12) (10 . 13) (11 . 14) (13 . 20) (14 . 21) (15 . 22) (25 . 25)) 5.308 {6/54:78} B:0 1.58612 [ 1.58612] ((1 . 1) (2 . 6) (3 . 7) (4 . 8) (5 . 9) (7 . 10) (8 . 12) (10 . 13) (11 . 14) (13 . 20) (14 . 21) (15 . 22)) 4.319 {2/45:66} B:0 1.73052 [ 1.73052] ((1 . 1) (2 . 6) (3 . 7) (5 . 9) (7 . 10) (8 . 12) (10 . 13) (11 . 14) (13 . 20) (14 . 21) (15 . 22)) 4.195 {2/40:55} B:0 2.71431 [ 2.71431] ((1 . 1) (2 . 6) (3 . 7) (5 . 9) (8 . 12) (10 . 13) (11 . 14)) 3.276 {0/13:21} B:0 3.16670 [ 3.16670] ((1 . 1) (5 . 7) (7 . 10) (8 . 12) (10 . 13) (11 . 14)) 3.935 {0/11:15} B:0 SIMILARITY (1/min{score1}): 0.6363 [and 1/min{score2}: 0.6363] [3651, 1787]: Comparing 1ll2_A and 1ga8_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 26 (16 H + 10 S) secondary structure elements in 1ga8_A, of which 24 satisfy the size requirements. 1.21336 [ 1.46287] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (11 . 12) (13 . 16) (14 . 18) (15 . 19) (19 . 22) (21 . 24) (25 . 25)) 2.886 {9/102:136} B:0 2.00552 [ 2.06252] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (11 . 12) (13 . 16) (14 . 18) (15 . 19) (19 . 22) (21 . 24) (25 . 25) (26 . 26)) 3.459 {23/117:153} B:0 2.08343 [ 2.14713] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (11 . 12) (13 . 16) (14 . 18) (15 . 19) (19 . 22) (21 . 24) (25 . 25) (26 . 26)) 3.360 {21/103:136} B:0 2.30967 [ 2.35712] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (11 . 12) (13 . 16) (14 . 17) (15 . 19) (20 . 22) (21 . 24) (25 . 25) (26 . 26)) 4.248 {23/101:136} B:0 2.71433 [ 3.42859] ((1 . 3) (3 . 6) (13 . 16) (14 . 18) (15 . 19) (21 . 24) (25 . 25)) 3.817 {0/17:21} B:0 SIMILARITY (1/min{score1}): 0.8242 [and 1/min{score2}: 0.6836] [3651, 2122]: Comparing 1ll2_A and 1h7e_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 23 (11 H + 12 S) secondary structure elements in 1h7e_A, of which 21 satisfy the size requirements. 1.58585 [ 1.75187] ((1 . 1) (2 . 5) (3 . 6) (4 . 7) (5 . 8) (7 . 9) (8 . 10) (10 . 11) (11 . 12) (13 . 18) (14 . 19) (15 . 21)) 4.104 {2/46:66} B:0 2.71446 [ 3.00013] ((1 . 1) (4 . 5) (5 . 6) (7 . 9) (8 . 10) (10 . 11) (11 . 12)) 5.491 {0/15:21} B:0 3.80002 [ 4.20001] ((1 . 6) (2 . 7) (3 . 8) (14 . 19) (20 . 23)) 3.868 {0/0:10} B:0 3.80004 [ 4.20003] ((3 . 1) (4 . 5) (5 . 6) (7 . 9) (10 . 11)) 5.017 {0/6:10} B:0 3.80075 [ 4.20056] ((2 . 5) (4 . 9) (5 . 10) (7 . 11) (8 . 12)) 10.208 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.6823 [and 1/min{score2}: 0.6179] [3651, 2402]: Comparing 1ll2_A and 1i52_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 22 (10 H + 12 S) secondary structure elements in 1i52_A, of which 16 satisfy the size requirements. 1.70942 [ 1.52542] ((1 . 1) (2 . 6) (3 . 7) (5 . 10) (7 . 11) (8 . 12) (10 . 13) (11 . 14) (13 . 18) (14 . 19) (15 . 20) (25 . 22)) 4.417 {6/49:66} B:0 1.73013 [ 1.45932] ((1 . 1) (2 . 6) (3 . 7) (5 . 10) (7 . 11) (8 . 12) (10 . 13) (11 . 14) (13 . 18) (14 . 19) (15 . 20)) 3.549 {2/41:55} B:0 2.71435 [ 2.28582] ((1 . 1) (2 . 6) (5 . 7) (7 . 11) (8 . 12) (10 . 13) (11 . 14)) 4.247 {0/16:21} B:0 3.16673 [ 2.66676] ((1 . 1) (4 . 6) (5 . 7) (7 . 11) (8 . 12) (10 . 13)) 4.696 {0/10:15} B:0 3.80009 [ 3.20015] ((1 . 1) (2 . 6) (3 . 7) (5 . 10) (20 . 22)) 6.001 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.5850 [and 1/min{score2}: 0.6853] [3651, 3068]: Comparing 1ll2_A and 1jv1_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 47 (22 H + 25 S) secondary structure elements in 1jv1_A, of which 33 satisfy the size requirements. 1.63478 [ 2.76025] ((1 . 9) (2 . 11) (3 . 12) (4 . 13) (5 . 15) (7 . 22) (8 . 23) (10 . 24) (11 . 25) (13 . 31) (14 . 32) (15 . 38)) 6.908 {4/42:66} B:0 2.22730 [ 2.80118] ((1 . 9) (2 . 11) (3 . 12) (4 . 13) (5 . 15) (7 . 21) (8 . 23) (10 . 24) (11 . 25) (13 . 31) (14 . 32) (15 . 38) (25 . 41)) 6.222 {11/52:78} B:0 2.61581 [ 3.02541] ((1 . 9) (2 . 11) (3 . 12) (4 . 13) (5 . 15) (6 . 21) (7 . 22) (8 . 23) (10 . 24) (11 . 25) (13 . 31) (14 . 32) (15 . 38)) 7.114 {13/51:78} B:0 3.16709 [ 5.50008] ((1 . 12) (3 . 15) (7 . 22) (8 . 23) (10 . 24) (11 . 25)) 7.714 {0/11:15} B:0 3.80002 [ 6.60000] ((1 . 12) (2 . 13) (3 . 15) (7 . 21) (8 . 23)) 4.173 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.6303 [and 1/min{score2}: 0.3881] [3651, 3093]: Comparing 1ll2_A and 1jyk_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 25 (10 H + 15 S) secondary structure elements in 1jyk_A, of which 17 satisfy the size requirements. 1.92439 [ 1.86414] ((1 . 1) (2 . 6) (3 . 7) (4 . 8) (5 . 9) (7 . 10) (8 . 12) (9 . 13) (11 . 14) (13 . 19) (14 . 20) (15 . 21) (21 . 24)) 3.831 {8/46:78} B:0 3.17876 [ 2.85016] ((1 . 1) (4 . 6) (7 . 10) (8 . 12) (9 . 13) (11 . 14)) 6.084 {1/9:15} B:0 3.34350 [ 3.07026] ((1 . 1) (2 . 6) (3 . 7) (5 . 9) (15 . 21) (20 . 25)) 6.484 {2/9:15} B:0 3.80009 [ 3.40012] ((1 . 1) (4 . 6) (5 . 7) (7 . 10) (11 . 14)) 5.933 {0/5:10} B:0 3.80019 [ 3.40027] ((1 . 7) (2 . 8) (3 . 9) (4 . 10) (5 . 12)) 7.249 {0/2:10} B:0 SIMILARITY (1/min{score1}): 0.5196 [and 1/min{score2}: 0.5364] [3651, 3466]: Comparing 1ll2_A and 1kws_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 23 (10 H + 13 S) secondary structure elements in 1kws_A, of which 17 satisfy the size requirements. 1.72738 [ 1.54561] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 6) (8 . 8) (10 . 10) (11 . 11) (13 . 16) (15 . 18)) 3.509 {0/34:55} B:0 2.00870 [ 1.93514] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 6) (8 . 8) (10 . 10) (11 . 11) (13 . 16) (15 . 18) (20 . 21)) 4.577 {8/45:66} B:0 2.23395 [ 2.15853] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 6) (8 . 8) (11 . 11) (13 . 16) (15 . 18) (20 . 21)) 4.068 {7/35:55} B:0 3.80002 [ 3.40003] ((1 . 3) (2 . 4) (3 . 5) (8 . 8) (15 . 18)) 4.190 {0/6:10} B:0 3.80009 [ 3.40013] ((3 . 1) (7 . 4) (8 . 5) (10 . 6) (13 . 7)) 6.009 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.5789 [and 1/min{score2}: 0.6470] [3651, 3651]: Comparing 1ll2_A and 1ll2_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. 1.00000 [ 1.00000] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 13) (14 . 14) (15 . 15) (19 . 19) (20 . 20) (21 . 21) (25 . 25) (26 . 26)) 0.000 {0/139:171} B:0 1.18776 [ 1.18776] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 13) (14 . 14) (15 . 15) (21 . 21) (26 . 25)) 3.283 {0/93:120} B:0 1.18776 [ 1.18776] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 13) (14 . 14) (15 . 15) (21 . 21) (25 . 26)) 3.283 {0/93:120} B:0 1.18779 [ 1.18779] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 11) (13 . 13) (14 . 14) (15 . 15) (20 . 20) (21 . 21) (26 . 25)) 3.366 {0/91:120} B:0 1.18779 [ 1.18779] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 11) (13 . 13) (14 . 14) (15 . 15) (20 . 20) (21 . 21) (25 . 26)) 3.366 {0/91:120} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [3651, 4544]: Comparing 1ll2_A and 1o7q_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 26 (15 H + 11 S) secondary structure elements in 1o7q_A, of which 16 satisfy the size requirements. 1.58374 [ 1.33401] ((1 . 5) (2 . 7) (3 . 8) (5 . 10) (7 . 11) (8 . 13) (9 . 14) (11 . 16) (13 . 19) (14 . 20) (15 . 21) (21 . 25)) 2.899 {1/37:66} B:0 2.37501 [ 2.00002] ((1 . 5) (2 . 7) (3 . 8) (5 . 10) (7 . 11) (8 . 13) (9 . 14) (11 . 16)) 2.666 {0/15:28} B:0 2.37531 [ 2.00052] ((1 . 5) (2 . 7) (3 . 8) (5 . 10) (7 . 12) (8 . 13) (9 . 14) (11 . 16)) 5.737 {0/13:28} B:0 2.37558 [ 2.00097] ((1 . 5) (2 . 7) (3 . 10) (7 . 12) (13 . 19) (14 . 20) (15 . 21) (21 . 25)) 6.716 {0/13:28} B:0 2.71457 [ 2.28619] ((1 . 5) (2 . 7) (3 . 8) (5 . 10) (7 . 12) (13 . 19) (21 . 25)) 6.201 {0/8:21} B:0 SIMILARITY (1/min{score1}): 0.6835 [and 1/min{score2}: 0.8107] [3651, 4719]: Comparing 1ll2_A and 1omz_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 21 (8 H + 13 S) secondary structure elements in 1omz_A, of which 20 satisfy the size requirements. 1.64230 [ 1.68427] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 6) (8 . 7) (9 . 8) (10 . 9) (11 . 10) (13 . 14) (14 . 15) (15 . 17) (21 . 19)) 3.414 {8/57:91} B:0 3.16670 [ 3.33336] ((1 . 1) (2 . 2) (3 . 3) (5 . 5) (8 . 10) (13 . 14)) 4.097 {0/9:15} B:0 3.43769 [ 3.57069] ((1 . 10) (3 . 14) (6 . 16) (7 . 17) (8 . 18) (14 . 20)) 7.140 {1/4:15} B:0 3.80005 [ 4.00004] ((1 . 3) (2 . 4) (3 . 5) (13 . 14) (15 . 17)) 5.093 {0/7:10} B:0 3.80033 [ 4.00029] ((1 . 1) (2 . 2) (4 . 6) (5 . 7) (13 . 14)) 8.319 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.6511 [and 1/min{score2}: 0.6238] [3651, 5159]: Comparing 1ll2_A and 1pzt_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 19 (8 H + 11 S) secondary structure elements in 1pzt_A, of which 15 satisfy the size requirements. 3.17862 [ 2.52409] ((3 . 3) (5 . 5) (8 . 7) (9 . 8) (13 . 12) (15 . 14)) 3.863 {1/9:15} B:0 3.80004 [ 3.00008] ((3 . 3) (4 . 4) (5 . 5) (13 . 12) (15 . 14)) 4.868 {0/7:10} B:0 3.80023 [ 3.00047] ((1 . 3) (2 . 4) (3 . 5) (4 . 6) (5 . 7)) 7.577 {0/1:10} B:0 3.81132 [ 3.02285] ((1 . 3) (4 . 4) (10 . 11) (14 . 13) (15 . 14)) 7.745 {1/8:10} B:0 4.07287 [ 3.48589] ((3 . 3) (4 . 4) (5 . 5) (14 . 13) (15 . 14)) 5.871 {2/7:10} B:0 SIMILARITY (1/min{score1}): 0.5260 [and 1/min{score2}: 0.6658] [3651, 5322]: Comparing 1ll2_A and 1qg8_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 21 (11 H + 10 S) secondary structure elements in 1qg8_A, of which 18 satisfy the size requirements. 1.46228 [ 1.38549] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 14) (15 . 17) (21 . 19)) 4.526 {1/43:78} B:0 1.50811 [ 1.45754] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (13 . 14) (14 . 15) (15 . 17) (21 . 19)) 4.788 {6/52:91} B:0 1.58386 [ 1.50063] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (13 . 14) (15 . 17) (21 . 19)) 3.286 {1/35:66} B:0 3.16792 [ 3.00147] ((1 . 1) (2 . 2) (7 . 10) (13 . 14) (15 . 17) (21 . 19)) 10.107 {0/8:15} B:0 3.80029 [ 3.60034] ((2 . 7) (3 . 8) (9 . 14) (10 . 15) (15 . 21)) 8.052 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.6839 [and 1/min{score2}: 0.7218] [3651, 5476]: Comparing 1ll2_A and 1qwj_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 20 (9 H + 11 S) secondary structure elements in 1qwj_A, of which 14 satisfy the size requirements. 1.80488 [ 1.44291] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 9) (8 . 10) (10 . 11) (11 . 12) (13 . 15) (14 . 16)) 4.213 {4/35:55} B:0 2.37502 [ 1.75006] ((1 . 1) (2 . 4) (3 . 5) (4 . 6) (5 . 7) (8 . 10) (10 . 11) (11 . 12)) 3.022 {0/17:28} B:0 2.37507 [ 1.75019] ((1 . 1) (2 . 4) (3 . 5) (5 . 7) (7 . 9) (8 . 10) (10 . 11) (11 . 12)) 4.020 {0/20:28} B:0 3.16671 [ 2.33344] ((1 . 1) (2 . 4) (5 . 5) (7 . 9) (8 . 10) (10 . 11)) 4.360 {0/10:15} B:0 3.80003 [ 2.80006] ((3 . 1) (4 . 4) (5 . 5) (7 . 9) (21 . 17)) 4.380 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.5694 [and 1/min{score2}: 0.7457] [3651, 5768]: Comparing 1ll2_A and 1s4n_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 33 (21 H + 12 S) secondary structure elements in 1s4n_A, of which 25 satisfy the size requirements. 1.49103 [ 1.93628] ((1 . 2) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (7 . 9) (8 . 11) (10 . 13) (11 . 14) (13 . 21) (14 . 23) (15 . 25) (21 . 28)) 2.961 {4/51:78} B:0 3.80002 [ 5.00001] ((1 . 4) (2 . 5) (3 . 6) (7 . 9) (11 . 14)) 4.191 {0/6:10} B:0 3.80005 [ 5.00002] ((1 . 4) (2 . 5) (3 . 6) (7 . 9) (10 . 13)) 5.247 {0/6:10} B:0 3.80050 [ 5.00022] ((3 . 2) (4 . 3) (5 . 4) (7 . 5) (8 . 6)) 9.206 {0/3:10} B:0 3.87099 [ 5.03175] ((1 . 4) (2 . 5) (3 . 6) (7 . 10) (11 . 14)) 6.337 {1/5:10} B:0 SIMILARITY (1/min{score1}): 0.6707 [and 1/min{score2}: 0.5165] [3651, 6228]: Comparing 1ll2_A and 1vh3_A, based on their crossing files. There are 26 (14 H + 12 S) secondary structure elements in 1ll2_A, of which 19 satisfy the size requirements. There are 19 (9 H + 10 S) secondary structure elements in 1vh3_A, of which 19 satisfy the size requirements. 1.58377 [ 1.58377] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 6) (8 . 7) (10 . 8) (11 . 9) (13 . 15) (14 . 16) (15 . 18)) 4.610 {0/47:66} B:0 2.71431 [ 2.71431] ((1 . 1) (2 . 2) (3 . 3) (5 . 5) (8 . 7) (10 . 8) (11 . 9)) 3.208 {0/15:21} B:0 3.80067 [ 3.80067] ((2 . 2) (4 . 6) (5 . 7) (7 . 8) (8 . 9)) 9.922 {0/7:10} B:0 4.75004 [ 4.75004] ((7 . 2) (8 . 3) (11 . 5) (26 . 17)) 5.939 {0/4:6} B:0 4.75013 [ 4.75013] ((5 . 1) (7 . 2) (8 . 3) (26 . 17)) 7.784 {0/3:6} B:0 SIMILARITY (1/min{score1}): 0.6314 [and 1/min{score2}: 0.6314] -------------------------------------------------------------------------------------------------------------------------