------------------------------------------------------------------------------------------------------------------------- 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. ------------------------------------------------------------------------------------------------------------------------- [2171, 67]: Comparing 1hcd and 1a8d, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 42 (7 H + 35 S) secondary structure elements in 1a8d, of which 16 satisfy the size requirements. 1.06995 [ 1.36495] ((1 . 24) (2 . 26) (3 . 27) (4 . 30) (5 . 31) (6 . 32) (7 . 34) (8 . 37) (9 . 38) (10 . 39) (12 . 40) (13 . 42)) 4.996 {4/54:66} B:0 1.12801 [ 1.47074] ((1 . 24) (2 . 26) (3 . 27) (4 . 30) (5 . 31) (6 . 32) (8 . 37) (9 . 38) (10 . 39) (12 . 40) (13 . 42)) 4.296 {3/45:55} B:0 2.40013 [ 3.20005] ((4 . 37) (5 . 38) (6 . 39) (7 . 40) (10 . 42)) 4.620 {0/7:10} B:0 2.40044 [ 3.20019] ((3 . 30) (6 . 32) (7 . 34) (10 . 37) (12 . 38)) 6.323 {0/9:10} B:0 2.44451 [ 3.21913] ((4 . 26) (5 . 27) (9 . 30) (10 . 31) (12 . 32)) 8.736 {1/8:10} B:0 SIMILARITY (1/min{score1}): 0.9384 [and 1/min{score2}: 0.7337] [2171, 218]: Comparing 1hcd and 1ava_C, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 15 (2 H + 13 S) secondary structure elements in 1ava_C, of which 11 satisfy the size requirements. 1.44089 [ 1.35606] ((1 . 1) (3 . 4) (4 . 5) (5 . 6) (8 . 10) (9 . 11) (10 . 13) (12 . 14) (13 . 15)) 4.204 {3/29:36} B:0 1.50119 [ 1.45397] ((1 . 1) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (8 . 10) (9 . 11) (10 . 12) (12 . 14) (13 . 15)) 4.717 {5/38:45} B:0 1.69710 [ 1.66503] ((1 . 1) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (8 . 10) (9 . 11) (10 . 13) (12 . 14) (13 . 15)) 4.494 {6/38:45} B:0 2.40025 [ 2.20032] ((3 . 6) (7 . 10) (10 . 13) (12 . 14) (13 . 15)) 5.482 {0/9:10} B:0 3.00028 [ 2.75037] ((3 . 5) (5 . 6) (10 . 10) (12 . 11)) 6.682 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.7980 [and 1/min{score2}: 0.8567] [2171, 223]: Comparing 1hcd and 1avw_B, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 13 (1 H + 12 S) secondary structure elements in 1avw_B, of which 13 satisfy the size requirements. 1.13182 [ 1.19193] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 13)) 4.357 {5/56:66} B:0 1.28216 [ 1.34133] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 7) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 13)) 4.336 {5/47:55} B:0 2.00037 [ 2.16696] ((5 . 7) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 13)) 5.276 {0/12:15} B:0 2.42744 [ 2.62168] ((2 . 5) (4 . 7) (5 . 8) (8 . 10) (9 . 11)) 5.983 {1/9:10} B:0 2.75591 [ 2.89462] ((3 . 2) (5 . 4) (9 . 7) (10 . 8) (13 . 10)) 9.422 {2/9:10} B:0 SIMILARITY (1/min{score1}): 0.9764 [and 1/min{score2}: 0.9070] [2171, 372]: Comparing 1hcd and 1bfg, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 14 (4 H + 10 S) secondary structure elements in 1bfg, of which 10 satisfy the size requirements. 1.25281 [ 1.08577] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 10) (9 . 11) (13 . 14)) 3.068 {3/38:45} B:0 2.40204 [ 2.00351] ((4 . 1) (6 . 3) (8 . 6) (10 . 8) (13 . 11)) 9.272 {0/8:10} B:0 2.42858 [ 2.04849] ((1 . 2) (2 . 3) (4 . 6) (6 . 8) (8 . 11)) 8.633 {1/9:10} B:0 2.44352 [ 2.07315] ((5 . 3) (8 . 6) (9 . 7) (10 . 8) (13 . 11)) 6.716 {1/8:10} B:0 2.44486 [ 2.07535] ((4 . 1) (8 . 6) (9 . 7) (10 . 8) (13 . 11)) 9.207 {1/8:10} B:0 SIMILARITY (1/min{score1}): 0.8317 [and 1/min{score2}: 0.9960] [2171, 822]: Comparing 1hcd and 1dfc_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 54 (7 H + 47 S) secondary structure elements in 1dfc_A, of which 10 satisfy the size requirements. 1.21004 [ 1.01713] ((1 . 15) (2 . 16) (3 . 17) (4 . 18) (5 . 19) (8 . 23) (9 . 24) (10 . 25) (12 . 26) (13 . 27)) 2.936 {2/39:45} B:0 2.44310 [ 2.07247] ((5 . 16) (7 . 17) (8 . 18) (9 . 19) (13 . 23)) 4.597 {1/8:10} B:0 2.44315 [ 2.07256] ((3 . 17) (4 . 18) (5 . 19) (9 . 25) (13 . 27)) 5.057 {1/8:10} B:0 3.06919 [ 2.61551] ((3 . 23) (4 . 25) (5 . 26) (7 . 27)) 5.963 {1/6:6} B:0 3.06980 [ 2.61650] ((6 . 15) (8 . 17) (10 . 18) (12 . 19)) 8.764 {1/6:6} B:0 SIMILARITY (1/min{score1}): 0.8265 [and 1/min{score2}: 0.9833] [2171, 823]: Comparing 1hcd and 1dfc_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 54 (7 H + 47 S) secondary structure elements in 1dfc_A, of which 10 satisfy the size requirements. 1.52523 [ 1.44320] ((1 . 28) (2 . 29) (3 . 30) (4 . 32) (5 . 33) (6 . 34) (7 . 35) (8 . 37) (9 . 38) (13 . 41)) 3.842 {5/37:45} B:0 2.42933 [ 2.04973] ((4 . 28) (6 . 30) (8 . 33) (10 . 35) (13 . 38)) 9.560 {1/9:10} B:0 2.44518 [ 2.07588] ((1 . 32) (2 . 33) (3 . 34) (5 . 37) (9 . 41)) 9.577 {1/8:10} B:0 2.44525 [ 2.07599] ((4 . 28) (8 . 33) (9 . 34) (10 . 35) (13 . 38)) 9.649 {1/8:10} B:0 2.75595 [ 2.52285] ((2 . 28) (3 . 29) (5 . 32) (7 . 34) (9 . 37)) 9.490 {2/9:10} B:0 SIMILARITY (1/min{score1}): 0.7488 [and 1/min{score2}: 0.8969] [2171, 824]: Comparing 1hcd and 1dfc_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 54 (7 H + 47 S) secondary structure elements in 1dfc_A, of which 7 satisfy the size requirements. 1.71430 [ 1.00006] ((2 . 43) (4 . 45) (5 . 46) (8 . 49) (9 . 50) (10 . 51) (12 . 53)) 1.997 {0/17:21} B:0 2.44682 [ 1.59718] ((3 . 43) (5 . 45) (9 . 49) (10 . 50) (12 . 51)) 11.013 {1/8:10} B:0 3.00002 [ 1.75008] ((6 . 43) (8 . 45) (9 . 46) (13 . 49)) 3.303 {0/4:6} B:0 3.16086 [ 2.89750] ((3 . 43) (8 . 49) (9 . 50) (10 . 51) (12 . 53)) 4.045 {2/7:10} B:0 6.09171 [ 6.01091] ((4 . 43) (6 . 45) (10 . 49) (13 . 53)) 8.308 {3/5:6} B:0 SIMILARITY (1/min{score1}): 0.5833 [and 1/min{score2}: 0.9999] [2171, 918]: Comparing 1hcd and 1dqg_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 16 (4 H + 12 S) secondary structure elements in 1dqg_A, of which 11 satisfy the size requirements. 1.18104 [ 1.11205] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (12 . 13)) 4.187 {4/47:55} B:0 2.01621 [ 1.85427] ((3 . 2) (5 . 5) (7 . 7) (9 . 9) (10 . 10) (12 . 11)) 10.348 {1/13:15} B:0 2.40284 [ 2.20368] ((3 . 2) (5 . 5) (6 . 6) (7 . 7) (12 . 11)) 10.076 {0/8:10} B:0 2.44448 [ 2.25711] ((4 . 1) (6 . 3) (8 . 6) (9 . 7) (13 . 10)) 8.695 {1/8:10} B:0 3.00039 [ 2.75051] ((2 . 2) (4 . 3) (6 . 5) (7 . 6)) 7.265 {0/6:6} B:0 SIMILARITY (1/min{score1}): 0.8945 [and 1/min{score2}: 0.9666] [2171, 1240]: Comparing 1hcd and 1epw_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 103 (40 H + 63 S) secondary structure elements in 1epw_A, of which 15 satisfy the size requirements. 3.00013 [ 3.75006] ((5 . 87) (6 . 88) (7 . 89) (10 . 90)) 5.471 {0/6:6} B:0 3.00013 [ 3.75007] ((9 . 92) (10 . 93) (12 . 94) (13 . 97)) 5.505 {0/5:6} B:0 3.00046 [ 3.75023] ((2 . 92) (6 . 97) (8 . 98) (9 . 99)) 7.538 {0/5:6} B:0 3.00054 [ 3.75028] ((3 . 90) (5 . 92) (6 . 93) (12 . 98)) 7.863 {0/5:6} B:0 3.00127 [ 3.75065] ((3 . 94) (4 . 97) (8 . 100) (9 . 101)) 9.740 {0/3:6} B:0 SIMILARITY (1/min{score1}): 0.7606 [and 1/min{score2}: 0.6893] [2171, 1822]: Comparing 1hcd and 1ggp_B, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 28 (4 H + 24 S) secondary structure elements in 1ggp_B, of which 9 satisfy the size requirements. 1.70443 [ 1.58297] ((1 . 15) (4 . 19) (5 . 20) (6 . 21) (7 . 22) (9 . 24) (10 . 25) (12 . 26) (13 . 28)) 4.902 {5/33:36} B:0 2.40007 [ 1.80017] ((1 . 21) (5 . 24) (6 . 25) (7 . 26) (8 . 28)) 4.043 {0/9:10} B:0 2.42725 [ 1.86238] ((1 . 15) (5 . 21) (9 . 24) (12 . 26) (13 . 28)) 4.867 {1/9:10} B:0 2.44431 [ 1.89942] ((4 . 15) (8 . 20) (9 . 21) (10 . 22) (13 . 24)) 8.435 {1/8:10} B:0 3.00065 [ 2.25154] ((3 . 19) (8 . 24) (9 . 25) (10 . 26)) 8.242 {0/3:6} B:0 SIMILARITY (1/min{score1}): 0.5867 [and 1/min{score2}: 0.7085] [2171, 2171]: Comparing 1hcd and 1hcd, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 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) (12 . 12) (13 . 13)) 0.000 {0/60:66} B:0 2.01403 [ 2.01403] ((2 . 1) (3 . 2) (5 . 4) (7 . 6) (9 . 8) (12 . 10)) 9.074 {1/13:15} B:0 2.01403 [ 2.01403] ((1 . 2) (2 . 3) (4 . 5) (6 . 7) (8 . 9) (10 . 12)) 9.074 {1/13:15} B:0 2.01773 [ 2.01773] ((3 . 2) (5 . 4) (7 . 6) (9 . 8) (10 . 9) (12 . 10)) 8.832 {1/12:15} B:0 2.01773 [ 2.01773] ((2 . 3) (4 . 5) (6 . 7) (8 . 9) (9 . 10) (10 . 12)) 8.832 {1/12:15} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [2171, 2306]: Comparing 1hcd and 1hwm_B, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 31 (7 H + 24 S) secondary structure elements in 1hwm_B, of which 11 satisfy the size requirements. 1.11994 [ 1.03710] ((1 . 17) (2 . 18) (3 . 19) (4 . 21) (5 . 22) (6 . 23) (7 . 24) (9 . 27) (10 . 28) (12 . 29) (13 . 31)) 4.094 {3/48:55} B:0 1.20046 [ 1.10059] ((2 . 18) (3 . 19) (4 . 21) (5 . 22) (6 . 23) (7 . 24) (9 . 27) (10 . 28) (12 . 29) (13 . 31)) 3.791 {0/39:45} B:0 2.02410 [ 1.86440] ((4 . 17) (6 . 19) (8 . 22) (9 . 23) (10 . 24) (13 . 27)) 9.049 {1/11:15} B:0 2.40015 [ 2.20019] ((5 . 23) (7 . 24) (9 . 27) (12 . 29) (13 . 31)) 4.807 {0/6:10} B:0 2.40113 [ 2.20147] ((2 . 19) (4 . 22) (6 . 24) (8 . 27) (10 . 29)) 8.002 {0/8:10} B:0 SIMILARITY (1/min{score1}): 0.9112 [and 1/min{score2}: 0.9915] [2171, 2495]: Comparing 1hcd and 1ihk_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 18 (7 H + 11 S) secondary structure elements in 1ihk_A, of which 13 satisfy the size requirements. 1.19557 [ 1.26708] ((1 . 2) (2 . 3) (3 . 4) (4 . 6) (5 . 7) (6 . 8) (7 . 9) (8 . 11) (9 . 12) (10 . 13) (13 . 16)) 3.589 {4/45:55} B:0 2.01536 [ 2.17879] ((3 . 3) (5 . 6) (7 . 8) (9 . 11) (10 . 12) (12 . 13)) 9.911 {1/13:15} B:0 2.01905 [ 2.18171] ((4 . 2) (6 . 4) (8 . 7) (9 . 8) (10 . 9) (13 . 12)) 9.720 {1/12:15} B:0 2.15971 [ 2.29608] ((4 . 2) (5 . 3) (6 . 4) (8 . 7) (10 . 9) (13 . 12)) 10.022 {2/13:15} B:0 2.40028 [ 2.60022] ((2 . 8) (3 . 9) (4 . 11) (5 . 12) (6 . 13)) 5.662 {0/10:10} B:0 SIMILARITY (1/min{score1}): 0.8865 [and 1/min{score2}: 0.8255] [2171, 2692]: Comparing 1hcd and 1j0s_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 14 (1 H + 13 S) secondary structure elements in 1j0s_A, of which 13 satisfy the size requirements. 1.05797 [ 1.12995] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 14)) 5.100 {4/57:66} B:0 1.09225 [ 1.18287] ((2 . 2) (3 . 3) (4 . 4) (5 . 6) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 14)) 4.235 {1/47:55} B:0 1.09793 [ 1.18736] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 7) (7 . 8) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 14)) 4.033 {2/47:55} B:0 1.96437 [ 1.97670] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 14)) 6.028 {11/57:66} B:0 2.41903 [ 2.61501] ((4 . 3) (6 . 4) (7 . 5) (8 . 7) (12 . 9)) 8.069 {1/10:10} B:0 SIMILARITY (1/min{score1}): 0.9499 [and 1/min{score2}: 0.8884] [2171, 2963]: Comparing 1hcd and 1jlx_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 31 (6 H + 25 S) secondary structure elements in 1jlx_A, of which 12 satisfy the size requirements. 1.06001 [ 1.06001] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 11) (12 . 12) (13 . 13)) 3.479 {4/56:66} B:0 1.71925 [ 1.71925] ((5 . 2) (7 . 3) (8 . 4) (9 . 5) (10 . 6) (12 . 7) (13 . 8)) 4.296 {1/18:21} B:0 2.40012 [ 2.40012] ((5 . 6) (8 . 8) (9 . 9) (12 . 12) (13 . 13)) 4.522 {0/7:10} B:0 2.40014 [ 2.40014] ((2 . 4) (8 . 8) (9 . 9) (12 . 12) (13 . 13)) 4.783 {0/8:10} B:0 2.64852 [ 2.64852] ((4 . 7) (6 . 8) (7 . 9) (8 . 11) (12 . 13)) 6.527 {2/10:10} B:0 SIMILARITY (1/min{score1}): 0.9961 [and 1/min{score2}: 0.9961] [2171, 2964]: Comparing 1hcd and 1jlx_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 31 (6 H + 25 S) secondary structure elements in 1jlx_A, of which 12 satisfy the size requirements. 1.11649 [ 1.11649] ((1 . 15) (2 . 16) (3 . 17) (4 . 19) (5 . 20) (6 . 21) (7 . 23) (8 . 26) (9 . 27) (10 . 28) (12 . 29) (13 . 31)) 3.200 {5/58:66} B:0 2.00014 [ 2.00014] ((5 . 21) (8 . 26) (9 . 27) (10 . 28) (12 . 29) (13 . 31)) 4.126 {0/12:15} B:0 2.40086 [ 2.40086] ((4 . 16) (5 . 17) (8 . 20) (9 . 21) (10 . 23)) 7.467 {0/8:10} B:0 2.42726 [ 2.42726] ((5 . 21) (7 . 23) (8 . 26) (9 . 27) (10 . 28)) 4.962 {1/9:10} B:0 2.75498 [ 2.75498] ((4 . 23) (6 . 26) (7 . 27) (8 . 28) (12 . 31)) 7.287 {2/9:10} B:0 SIMILARITY (1/min{score1}): 0.9960 [and 1/min{score2}: 0.9960] [2171, 3363]: Comparing 1hcd and 1knm_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 17 (5 H + 12 S) secondary structure elements in 1knm_A, of which 9 satisfy the size requirements. 1.33383 [ 1.00118] ((2 . 2) (3 . 4) (5 . 7) (6 . 8) (7 . 9) (8 . 11) (9 . 12) (10 . 13) (12 . 15)) 4.194 {0/31:36} B:0 1.89088 [ 1.74738] ((1 . 2) (5 . 7) (6 . 8) (7 . 9) (8 . 11) (9 . 12) (10 . 13) (12 . 15)) 4.261 {4/24:28} B:0 2.44410 [ 1.89898] ((6 . 4) (8 . 7) (9 . 8) (10 . 9) (13 . 12)) 8.085 {1/8:10} B:0 2.64857 [ 2.26951] ((2 . 2) (3 . 4) (6 . 8) (7 . 9) (13 . 15)) 6.748 {2/10:10} B:0 2.75549 [ 2.43178] ((5 . 2) (6 . 4) (8 . 7) (10 . 9) (13 . 12)) 8.657 {2/9:10} B:0 SIMILARITY (1/min{score1}): 0.7497 [and 1/min{score2}: 0.9988] [2171, 3519]: Comparing 1hcd and 1l2h_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 15 (2 H + 13 S) secondary structure elements in 1l2h_A, of which 11 satisfy the size requirements. 1.25290 [ 1.16698] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 10) (9 . 11) (13 . 15)) 3.414 {3/38:45} B:0 2.75496 [ 2.63013] ((4 . 3) (6 . 5) (7 . 6) (8 . 7) (12 . 10)) 7.185 {2/9:10} B:0 2.91546 [ 2.81167] ((1 . 6) (2 . 7) (3 . 8) (6 . 10) (7 . 11)) 4.891 {2/8:10} B:0 2.91600 [ 2.81226] ((4 . 3) (7 . 6) (8 . 7) (9 . 8) (12 . 10)) 7.967 {2/8:10} B:0 3.00140 [ 2.75182] ((6 . 5) (8 . 6) (9 . 7) (10 . 8)) 9.980 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.8249 [and 1/min{score2}: 0.8961] [2171, 3810]: Comparing 1hcd and 1m2t_B, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 36 (11 H + 25 S) secondary structure elements in 1m2t_B, of which 9 satisfy the size requirements. 1.33470 [ 1.00323] ((2 . 4) (3 . 6) (4 . 8) (5 . 9) (6 . 10) (7 . 11) (9 . 14) (10 . 15) (12 . 16)) 4.157 {1/33:36} B:0 1.50189 [ 1.12947] ((2 . 4) (3 . 6) (4 . 8) (6 . 10) (7 . 11) (9 . 14) (10 . 15) (12 . 16)) 3.947 {1/26:28} B:0 2.01107 [ 1.52578] ((5 . 4) (7 . 6) (8 . 8) (9 . 9) (10 . 10) (12 . 11)) 4.628 {1/13:15} B:0 2.43009 [ 1.86865] ((3 . 4) (5 . 8) (6 . 9) (7 . 10) (12 . 15)) 10.295 {1/9:10} B:0 2.47285 [ 1.95851] ((2 . 6) (4 . 9) (8 . 14) (9 . 15) (10 . 16)) 7.582 {1/7:10} B:0 SIMILARITY (1/min{score1}): 0.7492 [and 1/min{score2}: 0.9968] [2171, 3811]: Comparing 1hcd and 1m2t_B, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 36 (11 H + 25 S) secondary structure elements in 1m2t_B, of which 12 satisfy the size requirements. 1.01894 [ 1.01894] ((1 . 19) (2 . 21) (3 . 22) (4 . 24) (5 . 25) (6 . 26) (7 . 27) (8 . 29) (9 . 30) (10 . 31) (12 . 34) (13 . 36)) 4.515 {3/58:66} B:0 2.01732 [ 2.01732] ((4 . 19) (6 . 22) (8 . 25) (9 . 26) (10 . 27) (13 . 30)) 8.486 {1/12:15} B:0 2.02067 [ 2.02067] ((3 . 21) (5 . 24) (7 . 26) (9 . 29) (10 . 30) (12 . 31)) 10.556 {1/12:15} B:0 2.91573 [ 2.91573] ((4 . 19) (6 . 22) (8 . 25) (9 . 26) (13 . 29)) 6.911 {2/8:10} B:0 2.91724 [ 2.91724] ((1 . 24) (5 . 29) (6 . 30) (7 . 31) (9 . 36)) 10.492 {2/8:10} B:0 SIMILARITY (1/min{score1}): 0.9814 [and 1/min{score2}: 0.9814] [2171, 3906]: Comparing 1hcd and 1md6_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 17 (4 H + 13 S) secondary structure elements in 1md6_A, of which 14 satisfy the size requirements. 1.24712 [ 1.34490] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 7) (6 . 8) (7 . 9) (8 . 12) (9 . 13) (10 . 14) (12 . 16) (13 . 17)) 3.650 {6/55:66} B:0 2.00016 [ 2.33344] ((5 . 2) (8 . 5) (9 . 7) (10 . 8) (12 . 9) (13 . 12)) 4.291 {0/12:15} B:0 2.00017 [ 2.33344] ((1 . 3) (7 . 9) (8 . 12) (9 . 13) (10 . 14) (12 . 16)) 4.352 {0/12:15} B:0 2.01099 [ 2.34028] ((5 . 8) (8 . 12) (9 . 13) (10 . 14) (12 . 16) (13 . 17)) 4.136 {1/13:15} B:0 2.75495 [ 3.04431] ((4 . 9) (6 . 12) (7 . 13) (8 . 14) (12 . 17)) 7.174 {2/9:10} B:0 SIMILARITY (1/min{score1}): 0.9773 [and 1/min{score2}: 0.8464] [2171, 4122]: Comparing 1hcd and 1n4k_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 24 (12 H + 12 S) secondary structure elements in 1n4k_A, of which 12 satisfy the size requirements. 1.02207 [ 1.02207] ((1 . 1) (2 . 2) (3 . 3) (4 . 6) (5 . 7) (6 . 8) (7 . 9) (8 . 11) (9 . 12) (10 . 14) (12 . 15) (13 . 16)) 3.658 {3/55:66} B:0 2.00024 [ 2.00024] ((5 . 2) (8 . 6) (9 . 7) (10 . 8) (12 . 9) (13 . 11)) 4.724 {0/12:15} B:0 2.91544 [ 2.91544] ((4 . 6) (5 . 7) (6 . 8) (7 . 9) (12 . 14)) 4.586 {2/8:10} B:0 2.91654 [ 2.91654] ((1 . 3) (4 . 7) (6 . 9) (8 . 12) (9 . 14)) 9.322 {2/8:10} B:0 2.91670 [ 2.91670] ((4 . 2) (5 . 3) (7 . 6) (8 . 7) (9 . 8)) 9.638 {2/8:10} B:0 SIMILARITY (1/min{score1}): 0.9787 [and 1/min{score2}: 0.9787] [2171, 5136]: Comparing 1hcd and 1pwa_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 14 (3 H + 11 S) secondary structure elements in 1pwa_A, of which 10 satisfy the size requirements. 1.25297 [ 1.08602] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 9) (8 . 11) (9 . 12) (13 . 14)) 3.617 {3/38:45} B:0 1.33347 [ 1.11134] ((2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 9) (8 . 11) (9 . 12) (13 . 14)) 3.011 {0/30:36} B:0 2.40219 [ 2.00377] ((4 . 1) (6 . 3) (8 . 6) (10 . 9) (13 . 12)) 9.437 {0/8:10} B:0 2.42855 [ 2.04843] ((1 . 2) (2 . 3) (4 . 6) (6 . 9) (8 . 12)) 8.581 {1/9:10} B:0 2.42930 [ 2.04969] ((3 . 2) (5 . 5) (7 . 7) (9 . 11) (10 . 12)) 9.533 {1/9:10} B:0 SIMILARITY (1/min{score1}): 0.8271 [and 1/min{score2}: 0.9848] [2171, 5184]: Comparing 1hcd and 1q1u_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 15 (4 H + 11 S) secondary structure elements in 1q1u_A, of which 11 satisfy the size requirements. 1.19567 [ 1.12949] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 10) (9 . 11) (10 . 12) (13 . 15)) 3.813 {4/45:55} B:0 2.01513 [ 1.85288] ((3 . 2) (5 . 5) (7 . 7) (9 . 10) (10 . 11) (12 . 12)) 9.777 {1/13:15} B:0 2.01894 [ 1.85778] ((4 . 1) (6 . 3) (8 . 6) (9 . 7) (10 . 8) (13 . 11)) 9.651 {1/12:15} B:0 2.15957 [ 2.03196] ((4 . 1) (5 . 2) (6 . 3) (8 . 6) (10 . 8) (13 . 11)) 9.929 {2/13:15} B:0 2.42889 [ 2.23723] ((1 . 2) (2 . 3) (4 . 6) (6 . 8) (8 . 11)) 9.048 {1/9:10} B:0 SIMILARITY (1/min{score1}): 0.8364 [and 1/min{score2}: 0.8985] [2171, 5421]: Comparing 1hcd and 1qqk_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 13 (1 H + 12 S) secondary structure elements in 1qqk_A, of which 6 satisfy the size requirements. 2.09230 [ 1.42854] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (13 . 13)) 4.049 {2/15:15} B:0 2.40002 [ 1.20019] ((5 . 1) (6 . 2) (7 . 3) (8 . 4) (9 . 5)) 3.038 {0/9:10} B:0 2.64821 [ 2.06200] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5)) 4.161 {2/10:10} B:0 3.07015 [ 1.89547] ((4 . 1) (5 . 2) (6 . 3) (8 . 5)) 9.603 {1/6:6} B:0 3.13914 [ 2.14497] ((8 . 1) (9 . 2) (10 . 3) (13 . 5)) 9.123 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.5000 [and 1/min{score2}: 0.9998] [2171, 5485]: Comparing 1hcd and 1qxm_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 32 (8 H + 24 S) secondary structure elements in 1qxm_A, of which 13 satisfy the size requirements. 1.02022 [ 1.09937] ((1 . 1) (2 . 2) (3 . 3) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 10) (9 . 11) (10 . 12) (12 . 13) (13 . 15)) 2.859 {3/56:66} B:0 1.12170 [ 1.20631] ((1 . 1) (2 . 2) (4 . 5) (5 . 6) (6 . 7) (7 . 8) (8 . 10) (9 . 11) (10 . 12) (12 . 13) (13 . 15)) 2.682 {3/47:55} B:0 1.71918 [ 1.86100] ((5 . 7) (7 . 8) (8 . 10) (9 . 11) (10 . 12) (12 . 13) (13 . 15)) 3.984 {1/18:21} B:0 2.40007 [ 2.60006] ((5 . 2) (9 . 6) (10 . 7) (12 . 8) (13 . 10)) 4.051 {0/8:10} B:0 2.40108 [ 2.60085] ((3 . 5) (5 . 8) (8 . 11) (9 . 12) (10 . 13)) 7.914 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.9957 [and 1/min{score2}: 0.9202] [2171, 5486]: Comparing 1hcd and 1qxm_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 32 (8 H + 24 S) secondary structure elements in 1qxm_A, of which 13 satisfy the size requirements. 1.01895 [ 1.09835] ((1 . 17) (2 . 18) (3 . 19) (4 . 21) (5 . 22) (6 . 23) (7 . 24) (8 . 26) (9 . 27) (10 . 28) (12 . 30) (13 . 32)) 3.017 {3/57:66} B:0 1.71921 [ 1.86102] ((5 . 18) (7 . 19) (8 . 21) (9 . 22) (10 . 23) (12 . 24) (13 . 26)) 4.141 {1/18:21} B:0 2.40009 [ 2.60007] ((5 . 23) (9 . 27) (10 . 28) (12 . 30) (13 . 32)) 4.270 {0/8:10} B:0 2.42723 [ 2.62151] ((5 . 23) (7 . 24) (8 . 26) (9 . 27) (10 . 28)) 4.646 {1/9:10} B:0 2.47378 [ 2.65874] ((2 . 17) (3 . 18) (5 . 21) (8 . 24) (13 . 28)) 9.153 {1/7:10} B:0 SIMILARITY (1/min{score1}): 0.9826 [and 1/min{score2}: 0.9113] [2171, 6326]: Comparing 1hcd and 1wba, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 13 (0 H + 13 S) secondary structure elements in 1wba, of which 12 satisfy the size requirements. 1.23442 [ 1.23442] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 13)) 4.062 {6/56:66} B:0 2.00044 [ 2.00044] ((5 . 6) (8 . 9) (9 . 10) (10 . 11) (12 . 12) (13 . 13)) 5.525 {0/12:15} B:0 2.40019 [ 2.40019] ((5 . 1) (6 . 2) (7 . 3) (8 . 4) (12 . 5)) 5.095 {0/8:10} B:0 2.40097 [ 2.40097] ((4 . 6) (5 . 7) (8 . 10) (9 . 11) (10 . 12)) 7.692 {0/8:10} B:0 2.42849 [ 2.42849] ((5 . 1) (6 . 2) (7 . 3) (12 . 5) (13 . 6)) 8.488 {1/9:10} B:0 SIMILARITY (1/min{score1}): 0.9928 [and 1/min{score2}: 0.9928] [2171, 6558]: Comparing 1hcd and 3bta_A, based on their crossing files. There are 13 (1 H + 12 S) secondary structure elements in 1hcd, of which 12 satisfy the size requirements. There are 85 (36 H + 49 S) secondary structure elements in 3bta_A, of which 13 satisfy the size requirements. 2.75469 [ 2.89357] ((4 . 75) (9 . 77) (10 . 78) (12 . 79) (13 . 80)) 5.921 {2/9:10} B:0 3.00008 [ 3.25006] ((5 . 73) (6 . 74) (7 . 75) (10 . 76)) 4.827 {0/6:6} B:0 3.00023 [ 3.25018] ((5 . 77) (6 . 78) (7 . 79) (13 . 82)) 6.323 {0/5:6} B:0 3.00035 [ 3.25027] ((3 . 80) (5 . 81) (6 . 82) (7 . 83)) 7.048 {0/5:6} B:0 3.13881 [ 3.36116] ((2 . 76) (4 . 77) (5 . 78) (13 . 83)) 8.048 {1/5:6} B:0 SIMILARITY (1/min{score1}): 0.8923 [and 1/min{score2}: 0.8296] -------------------------------------------------------------------------------------------------------------------------