------------------------------------------------------------------------------------------------------------------------- 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. ------------------------------------------------------------------------------------------------------------------------- [3566, 369]: Comparing 1l8a_A and 1bfd, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 41 (23 H + 18 S) secondary structure elements in 1bfd, of which 15 satisfy the size requirements. 4.51002 [ 3.92306] ((7 . 5) (8 . 6) (12 . 8) (15 . 10) (16 . 11) (18 . 14)) 7.478 {3/8:15} B:0 4.60001 [ 3.00004] ((11 . 5) (12 . 6) (15 . 7) (16 . 8) (17 . 9)) 4.213 {0/6:10} B:0 4.60001 [ 3.00005] ((8 . 2) (11 . 5) (15 . 7) (16 . 8) (17 . 9)) 4.341 {0/7:10} B:0 4.60003 [ 3.00012] ((3 . 1) (5 . 3) (7 . 7) (8 . 8) (12 . 11)) 5.396 {0/4:10} B:0 4.60005 [ 3.00020] ((7 . 5) (8 . 6) (12 . 8) (15 . 12) (16 . 13)) 6.117 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.5144 [and 1/min{score2}: 0.7463] [3566, 371]: Comparing 1l8a_A and 1bfd, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 41 (23 H + 18 S) secondary structure elements in 1bfd, of which 14 satisfy the size requirements. 1.91695 [ 1.16794] ((3 . 28) (4 . 29) (5 . 30) (7 . 32) (8 . 33) (9 . 34) (11 . 35) (12 . 36) (15 . 38) (16 . 39) (24 . 40) (25 . 41)) 3.447 {1/36:66} B:0 2.09136 [ 1.27471] ((3 . 28) (4 . 29) (5 . 30) (7 . 32) (8 . 33) (11 . 35) (12 . 36) (15 . 38) (16 . 39) (24 . 40) (25 . 41)) 3.492 {1/29:55} B:0 3.83338 [ 2.33356] ((3 . 28) (4 . 29) (5 . 30) (8 . 36) (12 . 39) (16 . 41)) 5.239 {0/7:15} B:0 3.83361 [ 2.33454] ((3 . 28) (4 . 29) (8 . 36) (12 . 39) (15 . 40) (16 . 41)) 7.961 {0/5:15} B:0 4.60007 [ 2.80031] ((8 . 29) (12 . 31) (16 . 33) (24 . 40) (25 . 41)) 6.507 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.5217 [and 1/min{score2}: 0.8562] [3566, 1908]: Comparing 1l8a_A and 1gpu_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 51 (31 H + 20 S) secondary structure elements in 1gpu_A, of which 18 satisfy the size requirements. 1.44801 [ 1.14655] ((2 . 1) (3 . 2) (4 . 3) (5 . 4) (6 . 5) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 14) (16 . 15) (24 . 16) (25 . 17) (26 . 19) (28 . 20)) 2.669 {5/84:120} B:0 1.55085 [ 1.23556] ((2 . 1) (3 . 2) (4 . 3) (5 . 4) (6 . 5) (7 . 6) (8 . 7) (11 . 9) (12 . 10) (15 . 14) (16 . 15) (24 . 16) (25 . 17) (26 . 19) (28 . 21)) 5.182 {5/71:105} B:0 3.28592 [ 2.57186] ((2 . 1) (3 . 2) (7 . 6) (8 . 7) (12 . 10) (15 . 16) (16 . 17)) 6.626 {0/11:21} B:0 3.28839 [ 2.57699] ((2 . 1) (3 . 2) (7 . 6) (8 . 7) (12 . 10) (16 . 15) (22 . 19)) 6.629 {1/13:21} B:0 4.60006 [ 3.60013] ((15 . 6) (16 . 7) (24 . 16) (25 . 17) (26 . 19)) 6.288 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.6906 [and 1/min{score2}: 0.8722] [3566, 1909]: Comparing 1l8a_A and 1gpu_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 51 (31 H + 20 S) secondary structure elements in 1gpu_A, of which 14 satisfy the size requirements. 2.29935 [ 1.84003] ((3 . 24) (4 . 25) (7 . 30) (8 . 31) (9 . 32) (11 . 33) (12 . 34) (15 . 36) (16 . 37) (24 . 38) (25 . 39)) 3.544 {5/29:55} B:0 2.50110 [ 2.28974] ((3 . 24) (4 . 25) (5 . 26) (7 . 30) (8 . 31) (9 . 32) (11 . 33) (12 . 34) (15 . 36) (16 . 37) (24 . 38) (25 . 39)) 4.583 {9/40:66} B:0 4.60006 [ 2.80026] ((8 . 25) (12 . 29) (15 . 30) (16 . 31) (25 . 39)) 6.229 {0/2:10} B:0 5.75001 [ 3.50002] ((8 . 29) (11 . 30) (12 . 31) (16 . 34)) 4.094 {0/2:6} B:0 5.75001 [ 3.50004] ((15 . 24) (16 . 25) (24 . 33) (25 . 34)) 4.629 {0/0:6} B:0 SIMILARITY (1/min{score1}): 0.4349 [and 1/min{score2}: 0.5940] [3566, 3044]: Comparing 1l8a_A and 1jsc_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 47 (27 H + 20 S) secondary structure elements in 1jsc_A, of which 15 satisfy the size requirements. 3.83360 [ 2.50095] ((7 . 4) (8 . 7) (11 . 9) (12 . 10) (15 . 12) (16 . 13)) 7.900 {0/5:15} B:0 4.51000 [ 3.92302] ((7 . 6) (8 . 7) (12 . 10) (15 . 12) (16 . 13) (18 . 16)) 7.117 {3/8:15} B:0 4.60000 [ 3.00002] ((8 . 3) (12 . 7) (15 . 9) (16 . 10) (17 . 11)) 3.339 {0/6:10} B:0 4.60002 [ 3.00009] ((3 . 2) (5 . 4) (7 . 9) (8 . 10) (12 . 15)) 4.991 {0/4:10} B:0 4.60003 [ 3.00009] ((3 . 2) (5 . 4) (7 . 9) (8 . 10) (12 . 13)) 5.048 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.5179 [and 1/min{score2}: 0.7700] [3566, 3046]: Comparing 1l8a_A and 1jsc_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 47 (27 H + 20 S) secondary structure elements in 1jsc_A, of which 12 satisfy the size requirements. 1.95899 [ 1.22228] ((3 . 35) (4 . 36) (5 . 37) (7 . 39) (8 . 40) (9 . 41) (11 . 42) (12 . 43) (15 . 44) (16 . 45) (24 . 46) (25 . 47)) 4.074 {4/38:66} B:0 2.12166 [ 1.26564] ((3 . 35) (4 . 36) (5 . 37) (7 . 39) (8 . 40) (11 . 42) (12 . 43) (15 . 44) (16 . 45) (24 . 46) (25 . 47)) 4.123 {3/29:55} B:0 4.60002 [ 2.40013] ((3 . 35) (4 . 36) (5 . 37) (8 . 43) (12 . 45)) 4.641 {0/4:10} B:0 4.60005 [ 2.40033] ((3 . 35) (5 . 37) (8 . 43) (12 . 45) (16 . 47)) 5.898 {0/6:10} B:0 4.60012 [ 2.40088] ((7 . 35) (8 . 36) (12 . 40) (15 . 42) (16 . 43)) 7.506 {0/1:10} B:0 SIMILARITY (1/min{score1}): 0.5105 [and 1/min{score2}: 0.9117] [3566, 3275]: Comparing 1l8a_A and 1kek_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 87 (51 H + 36 S) secondary structure elements in 1kek_A, of which 18 satisfy the size requirements. 2.19471 [ 1.96034] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 8) (12 . 9) (15 . 11) (16 . 12) (24 . 13) (25 . 14) (28 . 16)) 4.722 {6/34:66} B:0 4.60001 [ 3.60001] ((3 . 2) (5 . 4) (7 . 8) (8 . 9) (12 . 12)) 3.652 {0/5:10} B:0 4.60002 [ 3.60004] ((3 . 2) (5 . 4) (7 . 8) (8 . 12) (12 . 14)) 4.838 {0/4:10} B:0 4.62008 [ 3.64146] ((9 . 4) (12 . 5) (15 . 6) (16 . 7) (28 . 20)) 10.042 {1/6:10} B:0 4.69726 [ 3.79331] ((3 . 2) (4 . 12) (8 . 14) (16 . 15) (24 . 16)) 6.312 {1/4:10} B:0 SIMILARITY (1/min{score1}): 0.4752 [and 1/min{score2}: 0.6010] [3566, 3279]: Comparing 1l8a_A and 1kek_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 87 (51 H + 36 S) secondary structure elements in 1kek_A, of which 25 satisfy the size requirements. 3.90246 [ 4.22090] ((4 . 66) (8 . 71) (9 . 72) (11 . 73) (12 . 74) (16 . 76)) 3.563 {2/10:15} B:0 4.60000 [ 5.00000] ((4 . 66) (8 . 71) (12 . 74) (15 . 75) (16 . 76)) 2.724 {0/5:10} B:0 4.60004 [ 5.00003] ((11 . 63) (12 . 64) (15 . 65) (16 . 66) (25 . 71)) 5.548 {0/3:10} B:0 4.60005 [ 5.00004] ((5 . 65) (7 . 67) (12 . 71) (16 . 74) (25 . 78)) 6.074 {0/5:10} B:0 4.60007 [ 5.00005] ((5 . 65) (7 . 67) (16 . 74) (24 . 77) (25 . 78)) 6.413 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.5449 [and 1/min{score2}: 0.5063] [3566, 3566]: Comparing 1l8a_A and 1l8a_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. 1.00000 [ 1.00000] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 11) (12 . 12) (15 . 15) (16 . 16) (17 . 17) (18 . 18) (19 . 19) (20 . 20) (21 . 21) (22 . 22) (24 . 24) (25 . 25) (26 . 26) (27 . 27) (28 . 28)) 0.000 {0/214:253} B:0 2.09114 [ 2.09114] ((2 . 2) (3 . 3) (4 . 4) (7 . 7) (8 . 8) (12 . 12) (15 . 15) (16 . 16) (17 . 18) (25 . 25) (28 . 28)) 3.552 {1/36:55} B:0 2.09114 [ 2.09114] ((2 . 2) (3 . 3) (4 . 4) (7 . 7) (8 . 8) (12 . 12) (15 . 15) (16 . 16) (18 . 17) (25 . 25) (28 . 28)) 3.552 {1/36:55} B:0 3.83659 [ 3.83659] ((2 . 2) (3 . 3) (7 . 7) (12 . 8) (18 . 17) (22 . 20)) 7.666 {1/11:15} B:0 3.83659 [ 3.83659] ((2 . 2) (3 . 3) (7 . 7) (8 . 12) (17 . 18) (20 . 22)) 7.666 {1/11:15} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [3566, 3567]: Comparing 1l8a_A and 1l8a_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 13 satisfy the size requirements. 2.41831 [ 1.73558] ((3 . 30) (4 . 32) (7 . 36) (8 . 37) (11 . 39) (12 . 40) (15 . 41) (16 . 42) (24 . 43) (25 . 44)) 3.392 {3/19:45} B:0 2.76179 [ 2.53069] ((3 . 30) (4 . 32) (5 . 34) (7 . 36) (8 . 37) (11 . 39) (12 . 40) (15 . 41) (16 . 42) (24 . 43) (25 . 44)) 3.671 {7/28:55} B:0 3.99608 [ 2.79594] ((5 . 30) (7 . 36) (8 . 37) (12 . 40) (15 . 41) (16 . 42)) 4.997 {2/8:15} B:0 4.60018 [ 2.60097] ((7 . 34) (8 . 37) (11 . 39) (12 . 40) (16 . 42)) 8.178 {0/4:10} B:0 4.60044 [ 2.60246] ((3 . 29) (7 . 36) (8 . 37) (12 . 40) (15 . 43)) 10.319 {0/1:10} B:0 SIMILARITY (1/min{score1}): 0.4301 [and 1/min{score2}: 0.7031] [3566, 4263]: Comparing 1l8a_A and 1ni4_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 26 (14 H + 12 S) secondary structure elements in 1ni4_A, of which 21 satisfy the size requirements. 1.77048 [ 1.61703] ((2 . 4) (3 . 5) (4 . 6) (5 . 7) (6 . 8) (7 . 9) (8 . 10) (9 . 11) (11 . 12) (12 . 13) (16 . 18) (24 . 19) (25 . 20)) 3.450 {2/50:78} B:0 2.02787 [ 1.93164] ((2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 9) (8 . 10) (9 . 11) (11 . 12) (12 . 13) (16 . 18) (24 . 19) (25 . 20) (26 . 21)) 4.705 {8/49:78} B:0 2.30027 [ 2.21061] ((2 . 4) (3 . 5) (4 . 6) (7 . 9) (8 . 10) (9 . 11) (11 . 12) (12 . 13) (16 . 18) (24 . 19) (25 . 20) (26 . 21)) 4.566 {8/41:66} B:0 2.87534 [ 2.62545] ((2 . 4) (3 . 5) (4 . 6) (7 . 9) (8 . 10) (12 . 13) (15 . 19) (16 . 20)) 6.783 {0/13:28} B:0 3.83337 [ 3.50005] ((2 . 4) (3 . 5) (4 . 6) (8 . 13) (12 . 18) (16 . 20)) 4.887 {0/7:15} B:0 SIMILARITY (1/min{score1}): 0.5648 [and 1/min{score2}: 0.6184] [3566, 4264]: Comparing 1l8a_A and 1ni4_B, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 31 (17 H + 14 S) secondary structure elements in 1ni4_B, of which 17 satisfy the size requirements. 2.43436 [ 2.15857] ((3 . 2) (4 . 3) (7 . 6) (8 . 7) (9 . 8) (11 . 10) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.364 {4/20:55} B:0 2.76783 [ 2.31591] ((2 . 4) (7 . 6) (8 . 7) (9 . 9) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 7.004 {4/20:36} B:0 3.06571 [ 2.98003] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.419 {10/34:66} B:0 3.11789 [ 3.03668] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (9 . 8) (11 . 10) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.589 {9/30:66} B:0 3.90253 [ 2.99501] ((5 . 2) (7 . 6) (8 . 7) (12 . 11) (15 . 13) (16 . 14)) 5.792 {1/5:15} B:0 SIMILARITY (1/min{score1}): 0.4763 [and 1/min{score2}: 0.6383] [3566, 4702]: Comparing 1l8a_A and 1ols_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 23 (16 H + 7 S) secondary structure elements in 1ols_A, of which 18 satisfy the size requirements. 1.53372 [ 1.20080] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 10) (12 . 11) (15 . 15) (16 . 16) (24 . 17) (25 . 18) (27 . 20)) 4.304 {1/75:105} B:0 1.64300 [ 1.28601] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 10) (12 . 11) (15 . 15) (16 . 16) (24 . 17) (25 . 18)) 3.299 {1/62:91} B:0 1.76935 [ 1.38487] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (7 . 7) (8 . 8) (9 . 9) (11 . 10) (12 . 11) (15 . 15) (16 . 16) (24 . 17) (25 . 18)) 2.979 {1/51:78} B:0 2.22670 [ 2.07284] ((2 . 2) (3 . 3) (4 . 4) (5 . 6) (7 . 7) (8 . 8) (9 . 9) (11 . 10) (12 . 11) (15 . 15) (16 . 16) (24 . 17) (25 . 18)) 4.068 {10/51:78} B:0 3.28572 [ 2.57144] ((2 . 2) (3 . 3) (4 . 4) (7 . 7) (8 . 8) (12 . 11) (16 . 18)) 2.854 {0/10:21} B:0 SIMILARITY (1/min{score1}): 0.6520 [and 1/min{score2}: 0.8328] [3566, 4703]: Comparing 1l8a_A and 1ols_B, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 29 (15 H + 14 S) secondary structure elements in 1ols_B, of which 15 satisfy the size requirements. 2.32493 [ 1.58403] ((3 . 2) (4 . 3) (7 . 6) (8 . 7) (11 . 9) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.386 {2/19:45} B:0 2.51808 [ 2.22592] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 9) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.553 {6/28:55} B:0 2.56824 [ 2.29723] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 10) (12 . 11) (15 . 13) (16 . 14) (24 . 15) (25 . 16)) 4.296 {6/27:55} B:0 4.60001 [ 3.00004] ((8 . 3) (11 . 6) (12 . 7) (15 . 9) (16 . 11)) 4.198 {0/3:10} B:0 4.60001 [ 3.00005] ((8 . 5) (11 . 6) (12 . 7) (15 . 9) (16 . 11)) 4.393 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.4660 [and 1/min{score2}: 0.6518] [3566, 4796]: Comparing 1l8a_A and 1ovm_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 43 (25 H + 18 S) secondary structure elements in 1ovm_A, of which 14 satisfy the size requirements. 4.60002 [ 2.80007] ((3 . 28) (5 . 30) (7 . 35) (8 . 36) (12 . 40)) 4.507 {0/5:10} B:0 4.60013 [ 2.80057] ((5 . 30) (7 . 35) (8 . 36) (12 . 40) (15 . 41)) 7.561 {0/4:10} B:0 4.60017 [ 2.80074] ((7 . 32) (8 . 33) (12 . 36) (16 . 40) (17 . 41)) 8.072 {0/4:10} B:0 4.60025 [ 2.80110] ((3 . 28) (4 . 29) (12 . 40) (15 . 41) (16 . 42)) 8.920 {0/3:10} B:0 4.60049 [ 2.80219] ((7 . 28) (8 . 29) (12 . 31) (16 . 33) (25 . 42)) 10.598 {0/1:10} B:0 SIMILARITY (1/min{score1}): 0.5211 [and 1/min{score2}: 0.8502] [3566, 4846]: Comparing 1l8a_A and 1ozh_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 48 (27 H + 21 S) secondary structure elements in 1ozh_A, of which 16 satisfy the size requirements. 1.96199 [ 1.45511] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 11) (16 . 12) (24 . 13) (25 . 14)) 4.214 {3/28:66} B:0 2.10217 [ 1.48715] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 9) (12 . 10) (15 . 11) (16 . 12) (24 . 13) (25 . 14)) 4.334 {2/25:55} B:0 4.60001 [ 3.20004] ((8 . 3) (11 . 6) (12 . 7) (15 . 9) (16 . 10)) 4.416 {0/3:10} B:0 4.60002 [ 3.20006] ((3 . 2) (5 . 4) (7 . 9) (8 . 10) (12 . 14)) 4.672 {0/4:10} B:0 4.60002 [ 3.20006] ((3 . 2) (5 . 4) (7 . 9) (8 . 10) (12 . 12)) 4.706 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.5097 [and 1/min{score2}: 0.6872] [3566, 4848]: Comparing 1l8a_A and 1ozh_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 48 (27 H + 21 S) secondary structure elements in 1ozh_A, of which 15 satisfy the size requirements. 1.93362 [ 1.30779] ((3 . 33) (4 . 34) (5 . 35) (7 . 37) (8 . 38) (9 . 39) (11 . 40) (12 . 41) (15 . 43) (16 . 44) (24 . 45) (25 . 46)) 3.179 {3/36:66} B:0 2.09711 [ 1.38556] ((3 . 33) (4 . 34) (5 . 35) (7 . 37) (8 . 38) (11 . 40) (12 . 41) (15 . 43) (16 . 44) (24 . 45) (25 . 46)) 3.182 {2/29:55} B:0 2.30108 [ 1.50387] ((4 . 36) (7 . 37) (8 . 38) (9 . 39) (11 . 40) (12 . 41) (15 . 43) (16 . 44) (24 . 45) (25 . 46)) 2.878 {1/21:45} B:0 3.83357 [ 2.50085] ((7 . 35) (8 . 38) (9 . 39) (11 . 40) (12 . 41) (16 . 44)) 7.677 {0/8:15} B:0 3.84019 [ 2.52441] ((7 . 37) (8 . 38) (12 . 41) (15 . 43) (16 . 44) (19 . 47)) 6.304 {1/9:15} B:0 SIMILARITY (1/min{score1}): 0.5239 [and 1/min{score2}: 0.7913] [3566, 5071]: Comparing 1l8a_A and 1pox_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 46 (27 H + 19 S) secondary structure elements in 1pox_A, of which 16 satisfy the size requirements. 1.92382 [ 1.35420] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 11) (16 . 12) (24 . 13) (25 . 14)) 4.249 {2/30:66} B:0 2.09176 [ 1.45707] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 9) (12 . 10) (15 . 11) (16 . 12) (24 . 13) (25 . 14)) 4.380 {1/25:55} B:0 3.83358 [ 2.66741] ((7 . 4) (8 . 7) (11 . 9) (12 . 10) (15 . 11) (16 . 12)) 7.790 {0/6:15} B:0 4.51002 [ 3.96984] ((7 . 6) (8 . 7) (12 . 10) (15 . 11) (16 . 12) (18 . 15)) 7.378 {3/8:15} B:0 4.60003 [ 3.20008] ((3 . 2) (5 . 4) (7 . 9) (8 . 10) (12 . 12)) 5.143 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.5346 [and 1/min{score2}: 0.7384] [3566, 5073]: Comparing 1l8a_A and 1pox_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 46 (27 H + 19 S) secondary structure elements in 1pox_A, of which 16 satisfy the size requirements. 1.82027 [ 1.36535] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (15 . 41) (16 . 42) (24 . 43) (25 . 44) (26 . 45)) 3.793 {5/48:78} B:0 1.96350 [ 1.45880] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (15 . 41) (16 . 42) (24 . 43) (25 . 44)) 3.505 {4/37:66} B:0 1.98442 [ 1.50807] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (16 . 42) (24 . 43) (25 . 44) (26 . 45)) 3.827 {5/42:66} B:0 2.43582 [ 2.29414] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (11 . 38) (12 . 39) (15 . 41) (16 . 42) (24 . 43) (25 . 44) (26 . 45) (27 . 46)) 4.794 {11/49:78} B:0 3.46969 [ 2.73159] ((7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (16 . 42) (22 . 45)) 5.992 {3/13:21} B:0 SIMILARITY (1/min{score1}): 0.5494 [and 1/min{score2}: 0.7493] [3566, 5123]: Comparing 1l8a_A and 1pvd_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 44 (23 H + 21 S) secondary structure elements in 1pvd_A, of which 14 satisfy the size requirements. 2.09288 [ 1.28139] ((3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (11 . 8) (12 . 9) (15 . 10) (16 . 11) (24 . 12) (25 . 13)) 5.014 {1/20:55} B:0 3.90250 [ 2.59936] ((3 . 2) (5 . 4) (7 . 8) (8 . 9) (11 . 10) (12 . 11)) 5.134 {1/5:15} B:0 4.60001 [ 2.80005] ((8 . 3) (11 . 6) (12 . 7) (15 . 8) (16 . 9)) 4.058 {0/4:10} B:0 4.60004 [ 2.80017] ((3 . 2) (5 . 4) (7 . 8) (8 . 11) (12 . 13)) 5.585 {0/4:10} B:0 4.60007 [ 2.80029] ((7 . 6) (8 . 7) (12 . 9) (15 . 12) (16 . 13)) 6.410 {0/3:10} B:0 SIMILARITY (1/min{score1}): 0.4778 [and 1/min{score2}: 0.7805] [3566, 5125]: Comparing 1l8a_A and 1pvd_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 44 (23 H + 21 S) secondary structure elements in 1pvd_A, of which 15 satisfy the size requirements. 1.91700 [ 1.25119] ((3 . 29) (4 . 30) (5 . 31) (7 . 33) (8 . 34) (9 . 35) (11 . 36) (12 . 37) (15 . 40) (16 . 41) (24 . 42) (25 . 43)) 3.847 {1/36:66} B:0 2.28605 [ 2.09561] ((3 . 29) (4 . 30) (5 . 31) (7 . 33) (8 . 34) (9 . 35) (11 . 36) (12 . 37) (15 . 40) (16 . 41) (24 . 42) (25 . 43) (26 . 44)) 4.850 {9/44:78} B:0 2.33061 [ 2.07251] ((3 . 29) (4 . 30) (5 . 31) (7 . 33) (8 . 34) (9 . 35) (11 . 36) (12 . 37) (15 . 40) (16 . 41) (25 . 43) (26 . 44)) 4.815 {8/40:66} B:0 4.60002 [ 3.00006] ((3 . 29) (5 . 31) (7 . 36) (8 . 37) (12 . 41)) 4.488 {0/5:10} B:0 4.60008 [ 3.00029] ((8 . 30) (12 . 32) (15 . 33) (16 . 34) (25 . 43)) 6.745 {0/1:10} B:0 SIMILARITY (1/min{score1}): 0.5651 [and 1/min{score2}: 0.8655] [3566, 5438]: Comparing 1l8a_A and 1qs0_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 27 (20 H + 7 S) secondary structure elements in 1qs0_A, of which 20 satisfy the size requirements. 1.54897 [ 1.35686] ((2 . 4) (3 . 5) (4 . 6) (5 . 7) (6 . 8) (7 . 10) (8 . 11) (9 . 12) (11 . 13) (12 . 14) (15 . 18) (16 . 19) (24 . 20) (25 . 21) (26 . 23)) 4.919 {5/73:105} B:0 1.64301 [ 1.42880] ((2 . 4) (3 . 5) (4 . 6) (5 . 7) (6 . 8) (7 . 10) (8 . 11) (9 . 12) (11 . 13) (12 . 14) (15 . 18) (16 . 19) (24 . 20) (25 . 21)) 3.393 {1/62:91} B:0 1.64327 [ 1.42920] ((2 . 4) (3 . 5) (4 . 6) (5 . 7) (7 . 10) (8 . 11) (9 . 12) (11 . 13) (12 . 14) (15 . 18) (16 . 19) (24 . 20) (25 . 21) (27 . 25)) 4.578 {1/63:91} B:0 3.83335 [ 3.33336] ((2 . 4) (3 . 5) (4 . 6) (7 . 10) (8 . 14) (12 . 19)) 3.930 {0/6:15} B:0 3.83345 [ 3.33350] ((2 . 4) (3 . 5) (4 . 6) (7 . 10) (8 . 14) (15 . 20)) 6.377 {0/7:15} B:0 SIMILARITY (1/min{score1}): 0.6456 [and 1/min{score2}: 0.7370] [3566, 6049]: Comparing 1l8a_A and 1umd_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 23 (16 H + 7 S) secondary structure elements in 1umd_A, of which 19 satisfy the size requirements. 1.64679 [ 1.36409] ((2 . 1) (3 . 2) (4 . 3) (5 . 4) (6 . 5) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 14) (16 . 15) (24 . 16) (25 . 17)) 3.781 {3/59:91} B:0 1.77564 [ 1.47284] ((2 . 1) (3 . 2) (4 . 3) (5 . 4) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 14) (16 . 15) (24 . 16) (25 . 17)) 3.480 {3/49:78} B:0 2.55622 [ 2.11229] ((2 . 1) (4 . 3) (7 . 6) (8 . 7) (9 . 8) (11 . 9) (12 . 10) (15 . 14) (16 . 15)) 3.174 {1/22:36} B:0 3.83339 [ 3.16677] ((2 . 1) (3 . 2) (4 . 3) (7 . 6) (12 . 15) (16 . 17)) 5.437 {0/9:15} B:0 4.60003 [ 3.80005] ((2 . 1) (3 . 2) (8 . 10) (12 . 15) (16 . 17)) 5.252 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.6840 [and 1/min{score2}: 0.8133] [3566, 6074]: Comparing 1l8a_A and 1upa_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 47 (28 H + 19 S) secondary structure elements in 1upa_A, of which 14 satisfy the size requirements. 2.30606 [ 1.85303] ((3 . 1) (4 . 2) (5 . 3) (7 . 5) (8 . 6) (11 . 7) (12 . 8) (15 . 10) (16 . 11) (24 . 12) (25 . 13)) 5.912 {4/23:55} B:0 2.30729 [ 1.43141] ((3 . 1) (4 . 2) (7 . 5) (8 . 6) (11 . 7) (12 . 8) (15 . 10) (16 . 11) (24 . 12) (25 . 13)) 4.523 {1/13:45} B:0 4.51001 [ 3.88343] ((7 . 5) (8 . 6) (12 . 8) (15 . 10) (16 . 11) (18 . 14)) 7.221 {3/8:15} B:0 4.60001 [ 2.80005] ((8 . 2) (11 . 5) (12 . 6) (15 . 7) (16 . 8)) 4.111 {0/3:10} B:0 4.60001 [ 2.80006] ((3 . 1) (7 . 7) (8 . 8) (11 . 10) (12 . 11)) 4.345 {0/0:10} B:0 SIMILARITY (1/min{score1}): 0.4780 [and 1/min{score2}: 0.7825] [3566, 6076]: Comparing 1l8a_A and 1upa_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 47 (28 H + 19 S) secondary structure elements in 1upa_A, of which 13 satisfy the size requirements. 1.91981 [ 1.10036] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (15 . 42) (16 . 43) (24 . 44) (25 . 45)) 3.826 {2/37:66} B:0 2.09145 [ 1.18479] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (11 . 38) (12 . 39) (15 . 42) (16 . 43) (24 . 44) (25 . 45)) 3.866 {1/28:55} B:0 4.60002 [ 2.60013] ((3 . 31) (5 . 33) (7 . 38) (8 . 39) (12 . 43)) 4.904 {0/5:10} B:0 4.60003 [ 2.60016] ((8 . 32) (15 . 37) (19 . 40) (24 . 44) (25 . 45)) 5.199 {0/7:10} B:0 4.60008 [ 2.60045] ((3 . 31) (5 . 33) (7 . 38) (12 . 43) (16 . 45)) 6.741 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.5209 [and 1/min{score2}: 0.9088] [3566, 6375]: Comparing 1l8a_A and 1zpd_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 46 (26 H + 20 S) secondary structure elements in 1zpd_A, of which 14 satisfy the size requirements. 2.09241 [ 1.27935] ((3 . 1) (4 . 2) (5 . 3) (7 . 5) (8 . 6) (11 . 7) (12 . 8) (15 . 10) (16 . 11) (24 . 12) (25 . 13)) 5.337 {1/22:55} B:0 3.83782 [ 2.35302] ((3 . 1) (5 . 3) (7 . 7) (8 . 8) (9 . 9) (12 . 11)) 5.408 {1/10:15} B:0 4.60000 [ 2.80001] ((8 . 2) (12 . 6) (15 . 7) (16 . 8) (17 . 9)) 2.580 {0/6:10} B:0 4.60001 [ 2.80004] ((8 . 4) (11 . 5) (15 . 7) (16 . 8) (17 . 9)) 3.990 {0/7:10} B:0 4.60001 [ 2.80005] ((8 . 2) (11 . 5) (15 . 7) (16 . 8) (17 . 9)) 4.132 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.4841 [and 1/min{score2}: 0.7816] [3566, 6377]: Comparing 1l8a_A and 1zpd_A, based on their crossing files. There are 58 (40 H + 18 S) secondary structure elements in 1l8a_A, of which 23 satisfy the size requirements. There are 46 (26 H + 20 S) secondary structure elements in 1zpd_A, of which 15 satisfy the size requirements. 1.91949 [ 1.26007] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (15 . 42) (16 . 43) (24 . 44) (25 . 45)) 3.719 {2/38:66} B:0 2.77574 [ 2.67675] ((3 . 31) (4 . 32) (5 . 33) (7 . 35) (8 . 36) (9 . 37) (11 . 38) (12 . 39) (15 . 42) (16 . 43) (24 . 44) (25 . 45) (26 . 46)) 6.076 {13/49:78} B:0 4.60001 [ 3.00004] ((3 . 31) (5 . 33) (7 . 38) (8 . 39) (12 . 43)) 4.092 {0/5:10} B:0 4.60003 [ 3.00012] ((5 . 31) (7 . 35) (8 . 39) (15 . 42) (16 . 43)) 5.448 {0/5:10} B:0 4.60004 [ 3.00013] ((8 . 32) (12 . 34) (15 . 35) (19 . 40) (24 . 44)) 5.480 {0/5:10} B:0 SIMILARITY (1/min{score1}): 0.5647 [and 1/min{score2}: 0.8621] -------------------------------------------------------------------------------------------------------------------------