------------------------------------------------------------------------------------------------------------------------- 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. ------------------------------------------------------------------------------------------------------------------------- [3280, 387]: Comparing 1kex_A and 1bhg_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 43 (13 H + 30 S) secondary structure elements in 1bhg_A, of which 9 satisfy the size requirements. 2.50090 [ 2.25123] ((3 . 8) (6 . 11) (8 . 12) (16 . 15)) 7.792 {0/5:6} B:0 2.50098 [ 2.25134] ((7 . 7) (10 . 9) (15 . 11) (16 . 12)) 7.953 {0/3:6} B:0 2.50120 [ 2.25165] ((8 . 1) (15 . 7) (17 . 8) (18 . 9)) 8.380 {0/4:6} B:0 2.50140 [ 2.25192] ((6 . 7) (8 . 8) (10 . 9) (11 . 10)) 8.704 {0/4:6} B:0 2.50160 [ 2.25220] ((3 . 7) (8 . 11) (10 . 12) (17 . 15)) 9.005 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.4991 [and 1/min{score2}: 0.5541] [3280, 607]: Comparing 1kex_A and 1ciy, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 46 (18 H + 28 S) secondary structure elements in 1ciy, of which 10 satisfy the size requirements. 1.66763 [ 1.66763] ((6 . 39) (8 . 40) (10 . 41) (11 . 42) (15 . 44) (18 . 46)) 5.844 {0/10:15} B:0 1.66808 [ 1.66808] ((8 . 40) (10 . 41) (11 . 42) (15 . 44) (17 . 45) (18 . 46)) 6.436 {0/9:15} B:0 1.67063 [ 1.67063] ((3 . 34) (6 . 39) (10 . 41) (11 . 42) (17 . 45) (18 . 46)) 8.335 {0/11:15} B:0 2.00075 [ 2.00075] ((8 . 39) (10 . 40) (15 . 42) (17 . 44) (18 . 45)) 6.304 {0/6:10} B:0 2.00134 [ 2.00134] ((3 . 34) (11 . 42) (15 . 44) (17 . 45) (18 . 46)) 7.279 {0/9:10} B:0 SIMILARITY (1/min{score1}): 0.5997 [and 1/min{score2}: 0.5997] [3280, 700]: Comparing 1kex_A and 1cx1_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 11 (0 H + 11 S) secondary structure elements in 1cx1_A, of which 10 satisfy the size requirements. 1.42917 [ 1.42917] ((3 . 1) (6 . 4) (8 . 5) (10 . 6) (15 . 8) (17 . 9) (18 . 11)) 4.629 {0/13:21} B:0 1.43138 [ 1.43138] ((3 . 1) (6 . 4) (8 . 5) (11 . 7) (15 . 8) (17 . 9) (18 . 11)) 6.813 {0/16:21} B:0 1.67220 [ 1.67220] ((6 . 1) (10 . 5) (11 . 6) (15 . 7) (17 . 8) (18 . 9)) 9.063 {0/11:15} B:0 2.00221 [ 2.00221] ((6 . 3) (8 . 4) (10 . 5) (11 . 6) (18 . 9)) 8.255 {0/6:10} B:0 2.00331 [ 2.00331] ((6 . 5) (8 . 6) (10 . 7) (15 . 9) (17 . 11)) 9.136 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.6997 [and 1/min{score2}: 0.6997] [3280, 765]: Comparing 1kex_A and 1d7p_M, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 20 (2 H + 18 S) secondary structure elements in 1d7p_M, of which 13 satisfy the size requirements. 1.11125 [ 1.44451] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 12) (15 . 17) (16 . 18) (17 . 19) (18 . 20)) 2.651 {0/28:36} B:0 1.69312 [ 2.17889] ((3 . 3) (8 . 8) (15 . 17) (16 . 18) (17 . 19) (18 . 20)) 5.965 {1/12:15} B:0 1.71863 [ 1.80354] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 11) (11 . 12) (15 . 17) (16 . 18) (17 . 19) (18 . 20)) 4.832 {6/36:45} B:0 2.07281 [ 2.63431] ((3 . 3) (8 . 8) (15 . 18) (17 . 19) (18 . 20)) 5.916 {1/8:10} B:0 2.50021 [ 3.25010] ((8 . 3) (15 . 7) (17 . 9) (18 . 12)) 5.410 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.8999 [and 1/min{score2}: 0.6923] [3280, 1271]: Comparing 1kex_A and 1eut, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 52 (5 H + 47 S) secondary structure elements in 1eut, of which 9 satisfy the size requirements. 1.11703 [ 1.00808] ((3 . 42) (6 . 44) (7 . 45) (8 . 46) (10 . 47) (11 . 48) (15 . 49) (17 . 50) (18 . 52)) 5.495 {1/27:36} B:0 1.25580 [ 1.13293] ((3 . 42) (6 . 44) (7 . 45) (8 . 46) (10 . 47) (15 . 49) (17 . 50) (18 . 52)) 3.722 {1/22:28} B:0 1.43894 [ 1.29985] ((3 . 42) (6 . 44) (7 . 45) (8 . 46) (10 . 47) (15 . 49) (18 . 52)) 3.565 {1/17:21} B:0 2.00025 [ 1.80035] ((3 . 42) (7 . 45) (16 . 49) (17 . 50) (18 . 52)) 4.797 {0/9:10} B:0 2.00110 [ 1.80150] ((6 . 46) (8 . 47) (10 . 48) (15 . 50) (17 . 52)) 6.924 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.8952 [and 1/min{score2}: 0.9920] [3280, 1884]: Comparing 1kex_A and 1gny_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 16 (2 H + 14 S) secondary structure elements in 1gny_A, of which 13 satisfy the size requirements. 1.25095 [ 1.62543] ((3 . 2) (6 . 5) (8 . 7) (10 . 9) (11 . 10) (15 . 12) (17 . 14) (18 . 16)) 4.698 {0/22:28} B:0 1.25141 [ 1.62564] ((3 . 2) (6 . 5) (8 . 7) (10 . 9) (11 . 10) (15 . 12) (17 . 14) (18 . 15)) 5.184 {0/21:28} B:0 1.42963 [ 1.85763] ((3 . 2) (6 . 5) (8 . 7) (10 . 9) (15 . 12) (17 . 14) (18 . 15)) 5.337 {0/14:21} B:0 1.67117 [ 2.16872] ((6 . 4) (8 . 5) (10 . 7) (11 . 9) (17 . 12) (18 . 14)) 8.608 {0/11:15} B:0 2.00079 [ 2.60036] ((6 . 7) (8 . 9) (11 . 12) (15 . 14) (17 . 16)) 6.381 {0/8:10} B:0 SIMILARITY (1/min{score1}): 0.7994 [and 1/min{score2}: 0.6152] [3280, 1918]: Comparing 1kex_A and 1gqp_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 19 (5 H + 14 S) secondary structure elements in 1gqp_A, of which 15 satisfy the size requirements. 1.00776 [ 1.50232] ((3 . 6) (6 . 9) (7 . 10) (8 . 11) (10 . 13) (11 . 14) (15 . 15) (16 . 16) (17 . 17) (18 . 19)) 5.946 {1/30:45} B:0 1.66679 [ 2.50004] ((3 . 6) (6 . 9) (7 . 10) (8 . 11) (10 . 13) (16 . 16)) 3.514 {0/11:15} B:0 2.00070 [ 3.00021] ((6 . 6) (10 . 11) (15 . 14) (17 . 15) (18 . 17)) 6.198 {0/4:10} B:0 2.07234 [ 3.02237] ((3 . 1) (15 . 9) (16 . 10) (17 . 11) (18 . 13)) 3.445 {1/8:10} B:0 2.50009 [ 3.75003] ((6 . 11) (8 . 13) (10 . 14) (15 . 17)) 4.414 {0/1:6} B:0 SIMILARITY (1/min{score1}): 0.9923 [and 1/min{score2}: 0.6656] [3280, 1954]: Comparing 1kex_A and 1gu3_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 11 (0 H + 11 S) secondary structure elements in 1gu3_A, of which 9 satisfy the size requirements. 1.25345 [ 1.12973] ((3 . 1) (6 . 3) (8 . 4) (10 . 6) (11 . 7) (15 . 9) (17 . 10) (18 . 11)) 6.492 {0/15:28} B:0 1.42994 [ 1.28759] ((3 . 1) (6 . 3) (8 . 4) (10 . 6) (15 . 9) (17 . 10) (18 . 11)) 5.686 {0/11:21} B:0 2.00085 [ 1.80117] ((3 . 1) (6 . 3) (7 . 4) (15 . 9) (18 . 11)) 6.499 {0/6:10} B:0 2.00204 [ 1.80280] ((6 . 4) (8 . 6) (10 . 7) (15 . 10) (17 . 11)) 8.094 {0/4:10} B:0 2.00310 [ 1.80425] ((6 . 2) (8 . 3) (10 . 4) (11 . 6) (18 . 10)) 8.984 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.7978 [and 1/min{score2}: 0.8852] [3280, 1959]: Comparing 1kex_A and 1gui_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 12 (2 H + 10 S) secondary structure elements in 1gui_A, of which 11 satisfy the size requirements. 1.25529 [ 1.37898] ((3 . 1) (6 . 6) (8 . 7) (10 . 8) (11 . 9) (15 . 10) (17 . 11) (18 . 12)) 7.226 {0/15:28} B:0 1.66739 [ 1.83387] ((3 . 1) (8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 12)) 5.436 {0/9:15} B:0 1.66804 [ 1.83437] ((3 . 1) (6 . 6) (7 . 7) (10 . 8) (15 . 10) (18 . 12)) 6.396 {0/8:15} B:0 2.00068 [ 2.20051] ((8 . 6) (10 . 7) (15 . 9) (17 . 10) (18 . 11)) 6.151 {0/2:10} B:0 2.00213 [ 2.20160] ((3 . 3) (8 . 8) (10 . 9) (15 . 11) (17 . 12)) 8.178 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.7966 [and 1/min{score2}: 0.7252] [3280, 1989]: Comparing 1kex_A and 1gwm_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 13 (2 H + 11 S) secondary structure elements in 1gwm_A, of which 11 satisfy the size requirements. 2.00226 [ 2.20170] ((3 . 1) (6 . 5) (8 . 6) (10 . 7) (11 . 8)) 8.301 {0/6:10} B:0 2.07342 [ 2.25609] ((6 . 2) (7 . 4) (15 . 8) (17 . 9) (18 . 10)) 7.177 {1/8:10} B:0 2.50017 [ 2.75013] ((3 . 2) (6 . 5) (7 . 6) (16 . 11)) 5.158 {0/3:6} B:0 2.50031 [ 2.75023] ((11 . 2) (16 . 5) (17 . 6) (18 . 7)) 5.973 {0/4:6} B:0 2.50038 [ 2.75028] ((3 . 6) (6 . 9) (8 . 10) (10 . 11)) 6.278 {0/1:6} B:0 SIMILARITY (1/min{score1}): 0.7028 [and 1/min{score2}: 0.6754] [3280, 2116]: Comparing 1kex_A and 1h6y_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 12 (0 H + 12 S) secondary structure elements in 1h6y_A, of which 12 satisfy the size requirements. 1.42893 [ 1.71449] ((3 . 2) (6 . 5) (8 . 6) (10 . 7) (11 . 8) (15 . 10) (18 . 12)) 4.056 {0/14:21} B:0 2.00066 [ 2.40038] ((6 . 4) (8 . 5) (10 . 6) (17 . 10) (18 . 11)) 6.095 {0/5:10} B:0 2.00069 [ 2.40040] ((8 . 5) (10 . 6) (15 . 8) (17 . 10) (18 . 11)) 6.173 {0/4:10} B:0 2.00273 [ 2.40158] ((10 . 6) (11 . 7) (15 . 8) (17 . 10) (18 . 11)) 8.706 {0/6:10} B:0 2.50059 [ 3.00034] ((10 . 1) (16 . 4) (17 . 5) (18 . 6)) 7.010 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6998 [and 1/min{score2}: 0.5833] [3280, 2241]: Comparing 1kex_A and 1hn0_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 80 (28 H + 52 S) secondary structure elements in 1hn0_A, of which 12 satisfy the size requirements. 1.66927 [ 2.00151] ((6 . 5) (8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 12)) 7.502 {0/8:15} B:0 2.00078 [ 2.40045] ((6 . 5) (8 . 7) (10 . 8) (15 . 10) (18 . 13)) 6.366 {0/6:10} B:0 2.00164 [ 2.40095] ((3 . 3) (8 . 8) (10 . 9) (15 . 11) (17 . 12)) 7.660 {0/7:10} B:0 2.00205 [ 2.40119] ((6 . 7) (8 . 8) (10 . 9) (15 . 11) (17 . 13)) 8.103 {0/6:10} B:0 2.00829 [ 2.40481] ((10 . 5) (11 . 7) (15 . 8) (17 . 9) (18 . 10)) 11.501 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.7631 [and 1/min{score2}: 0.7061] [3280, 2408]: Comparing 1kex_A and 1i5p_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 47 (16 H + 31 S) secondary structure elements in 1i5p_A, of which 12 satisfy the size requirements. 1.45169 [ 1.72783] ((3 . 38) (6 . 39) (8 . 40) (10 . 41) (15 . 45) (17 . 46) (18 . 47)) 5.684 {1/14:21} B:0 1.66708 [ 2.00024] ((6 . 39) (8 . 40) (10 . 41) (15 . 45) (17 . 46) (18 . 47)) 4.738 {0/8:15} B:0 1.66806 [ 2.00080] ((3 . 34) (8 . 40) (10 . 41) (15 . 45) (17 . 46) (18 . 47)) 6.410 {0/9:15} B:0 1.66891 [ 2.00130] ((3 . 34) (6 . 39) (8 . 40) (10 . 41) (15 . 45) (18 . 47)) 7.223 {0/9:15} B:0 2.00050 [ 2.40029] ((8 . 39) (10 . 40) (15 . 42) (17 . 45) (18 . 46)) 5.703 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.7077 [and 1/min{score2}: 0.6237] [3280, 2762]: Comparing 1kex_A and 1j83_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 15 (3 H + 12 S) secondary structure elements in 1j83_A, of which 10 satisfy the size requirements. 1.43574 [ 1.43574] ((6 . 5) (8 . 7) (10 . 8) (11 . 9) (15 . 12) (17 . 14) (18 . 15)) 8.621 {0/14:21} B:0 2.00272 [ 2.00272] ((10 . 3) (11 . 5) (15 . 7) (17 . 8) (18 . 9)) 8.692 {0/8:10} B:0 2.00372 [ 2.00372] ((10 . 2) (11 . 3) (15 . 5) (17 . 7) (18 . 8)) 9.402 {0/8:10} B:0 2.21021 [ 2.21021] ((6 . 5) (7 . 7) (10 . 8) (11 . 9) (15 . 12)) 9.918 {1/6:10} B:0 2.50025 [ 2.50025] ((3 . 9) (6 . 12) (8 . 14) (10 . 15)) 5.640 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6994 [and 1/min{score2}: 0.6994] [3280, 2872]: Comparing 1kex_A and 1jhj_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 18 (5 H + 13 S) secondary structure elements in 1jhj_A, of which 14 satisfy the size requirements. 1.17975 [ 1.58229] ((3 . 4) (6 . 7) (7 . 8) (8 . 9) (10 . 11) (15 . 13) (16 . 14) (17 . 15) (18 . 18)) 3.857 {2/25:36} B:0 1.38422 [ 1.80475] ((3 . 4) (6 . 7) (7 . 8) (8 . 9) (10 . 11) (16 . 14) (17 . 15) (18 . 18)) 3.449 {2/19:28} B:0 2.00099 [ 2.80036] ((6 . 4) (8 . 7) (15 . 12) (17 . 13) (18 . 15)) 6.755 {0/5:10} B:0 2.00117 [ 2.80043] ((6 . 9) (8 . 11) (10 . 12) (15 . 15) (17 . 18)) 7.045 {0/4:10} B:0 2.00120 [ 2.80044] ((3 . 4) (6 . 7) (8 . 8) (10 . 11) (18 . 18)) 7.087 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.8476 [and 1/min{score2}: 0.6320] [3280, 2886]: Comparing 1kex_A and 1ji6_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 44 (19 H + 25 S) secondary structure elements in 1ji6_A, of which 10 satisfy the size requirements. 1.66728 [ 1.66728] ((6 . 35) (8 . 37) (10 . 38) (15 . 41) (17 . 43) (18 . 44)) 5.222 {0/8:15} B:0 2.00138 [ 2.00138] ((8 . 38) (10 . 39) (11 . 41) (15 . 43) (17 . 44)) 7.332 {0/7:10} B:0 2.00153 [ 2.00153] ((3 . 30) (11 . 39) (15 . 41) (17 . 43) (18 . 44)) 7.525 {0/9:10} B:0 2.00275 [ 2.00275] ((3 . 30) (10 . 38) (11 . 39) (17 . 43) (18 . 44)) 8.715 {0/7:10} B:0 2.00290 [ 2.00290] ((10 . 37) (11 . 38) (15 . 39) (17 . 41) (18 . 43)) 8.839 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.5998 [and 1/min{score2}: 0.5998] [3280, 3063]: Comparing 1kex_A and 1ju3_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 46 (19 H + 27 S) secondary structure elements in 1ju3_A, of which 13 satisfy the size requirements. 1.67023 [ 2.16829] ((3 . 33) (7 . 36) (8 . 37) (10 . 38) (11 . 39) (17 . 42)) 8.118 {0/11:15} B:0 2.00418 [ 2.60191] ((3 . 35) (6 . 37) (10 . 39) (11 . 41) (15 . 42)) 9.684 {0/7:10} B:0 2.04661 [ 2.62170] ((3 . 33) (6 . 35) (7 . 36) (8 . 37) (10 . 38)) 6.043 {1/9:10} B:0 2.50056 [ 3.25026] ((11 . 35) (15 . 37) (17 . 38) (18 . 39)) 6.925 {0/5:6} B:0 2.50073 [ 3.25033] ((3 . 39) (6 . 41) (8 . 42) (15 . 46)) 7.399 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.5987 [and 1/min{score2}: 0.4612] [3280, 3098]: Comparing 1kex_A and 1jz7_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 82 (21 H + 61 S) secondary structure elements in 1jz7_A, of which 17 satisfy the size requirements. 1.25475 [ 2.12597] ((3 . 5) (6 . 11) (8 . 13) (10 . 15) (11 . 16) (15 . 17) (17 . 18) (18 . 22)) 7.032 {0/20:28} B:0 2.50020 [ 4.25004] ((6 . 11) (8 . 13) (10 . 15) (18 . 22)) 5.331 {0/4:6} B:0 2.50036 [ 4.25007] ((3 . 11) (6 . 16) (7 . 17) (11 . 22)) 6.185 {0/4:6} B:0 2.50055 [ 4.25011] ((11 . 11) (15 . 13) (17 . 15) (18 . 16)) 6.881 {0/5:6} B:0 2.50063 [ 4.25013] ((6 . 11) (10 . 15) (11 . 16) (18 . 22)) 7.129 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.7970 [and 1/min{score2}: 0.4704] [3280, 3124]: Comparing 1kex_A and 1k12_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 15 (4 H + 11 S) secondary structure elements in 1k12_A, of which 13 satisfy the size requirements. 1.11499 [ 1.44622] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 10) (15 . 12) (16 . 13) (17 . 14) (18 . 15)) 4.286 {1/28:36} B:0 1.66758 [ 2.16708] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 10) (15 . 13)) 5.777 {0/10:15} B:0 1.66785 [ 2.16721] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 10) (11 . 11)) 6.158 {0/11:15} B:0 1.66830 [ 2.16741] ((3 . 3) (8 . 8) (15 . 12) (16 . 13) (17 . 14) (18 . 15)) 6.671 {0/12:15} B:0 2.00083 [ 2.60038] ((8 . 7) (10 . 9) (15 . 11) (17 . 12) (18 . 14)) 6.464 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.8969 [and 1/min{score2}: 0.6915] [3280, 3157]: Comparing 1kex_A and 1k3i_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 61 (9 H + 52 S) secondary structure elements in 1k3i_A, of which 9 satisfy the size requirements. 1.26005 [ 1.13870] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 10) (15 . 12) (17 . 13) (18 . 15)) 3.651 {1/19:28} B:0 1.44541 [ 1.30860] ((3 . 3) (6 . 7) (7 . 8) (8 . 9) (10 . 10) (15 . 12) (18 . 15)) 3.506 {1/15:21} B:0 2.00160 [ 1.80219] ((6 . 9) (8 . 10) (10 . 11) (15 . 13) (17 . 15)) 7.610 {0/6:10} B:0 2.00322 [ 1.80441] ((6 . 9) (8 . 10) (10 . 11) (11 . 12) (15 . 13)) 9.071 {0/5:10} B:0 2.50028 [ 2.25038] ((8 . 7) (15 . 11) (17 . 12) (18 . 13)) 5.795 {0/2:6} B:0 SIMILARITY (1/min{score1}): 0.7936 [and 1/min{score2}: 0.8782] [3280, 3170]: Comparing 1kex_A and 1k45_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 13 (2 H + 11 S) secondary structure elements in 1k45_A, of which 11 satisfy the size requirements. 1.43020 [ 1.57265] ((3 . 3) (6 . 6) (8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 13)) 5.942 {0/11:21} B:0 1.66783 [ 1.83421] ((3 . 3) (8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 13)) 6.138 {0/7:15} B:0 1.66825 [ 1.83453] ((3 . 3) (6 . 6) (7 . 7) (10 . 8) (15 . 10) (18 . 13)) 6.626 {0/9:15} B:0 2.00065 [ 2.20049] ((8 . 6) (10 . 7) (15 . 9) (17 . 10) (18 . 11)) 6.068 {0/3:10} B:0 2.00182 [ 2.20136] ((3 . 4) (8 . 8) (10 . 9) (15 . 11) (17 . 13)) 7.858 {0/5:10} B:0 SIMILARITY (1/min{score1}): 0.6992 [and 1/min{score2}: 0.6359] [3280, 3280]: Comparing 1kex_A and 1kex_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. 1.00000 [ 1.00000] ((3 . 3) (6 . 6) (7 . 7) (8 . 8) (10 . 10) (11 . 11) (15 . 15) (16 . 16) (17 . 17) (18 . 18)) 0.000 {0/37:45} B:0 1.11224 [ 1.11224] ((3 . 3) (6 . 6) (7 . 7) (8 . 8) (10 . 10) (11 . 11) (16 . 15) (17 . 17) (18 . 18)) 4.494 {0/28:36} B:0 1.11224 [ 1.11224] ((3 . 3) (6 . 6) (7 . 7) (8 . 8) (10 . 10) (11 . 11) (15 . 16) (17 . 17) (18 . 18)) 4.494 {0/28:36} B:0 2.00290 [ 2.00290] ((8 . 6) (10 . 8) (11 . 10) (17 . 15) (18 . 17)) 8.835 {0/5:10} B:0 2.00290 [ 2.00290] ((6 . 8) (8 . 10) (10 . 11) (15 . 17) (17 . 18)) 8.835 {0/5:10} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [3280, 3297]: Comparing 1kex_A and 1kgy_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 13 (1 H + 12 S) secondary structure elements in 1kgy_A, of which 10 satisfy the size requirements. 2.00242 [ 2.00242] ((3 . 8) (6 . 9) (8 . 11) (10 . 12) (11 . 13)) 8.445 {0/5:10} B:0 2.50010 [ 2.50010] ((11 . 5) (15 . 7) (17 . 8) (18 . 9)) 4.485 {0/5:6} B:0 2.50023 [ 2.50023] ((3 . 9) (6 . 11) (8 . 12) (10 . 13)) 5.530 {0/4:6} B:0 2.50073 [ 2.50073] ((6 . 8) (8 . 9) (10 . 11) (15 . 13)) 7.399 {0/2:6} B:0 2.50075 [ 2.50075] ((3 . 9) (6 . 11) (7 . 12) (10 . 13)) 7.449 {0/4:6} B:0 SIMILARITY (1/min{score1}): 0.6993 [and 1/min{score2}: 0.6993] [3280, 3562]: Comparing 1kex_A and 1l7l_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 9 (1 H + 8 S) secondary structure elements in 1l7l_A, of which 7 satisfy the size requirements. 2.00039 [ 1.40115] ((8 . 3) (10 . 4) (15 . 6) (17 . 7) (18 . 9)) 5.361 {0/1:10} B:0 2.50018 [ 1.75051] ((8 . 3) (15 . 6) (17 . 7) (18 . 9)) 5.182 {0/0:6} B:0 2.50029 [ 1.75086] ((3 . 3) (6 . 6) (8 . 7) (10 . 9)) 5.895 {0/0:6} B:0 2.50161 [ 1.75468] ((7 . 3) (15 . 6) (17 . 7) (18 . 9)) 9.013 {0/0:6} B:0 3.43660 [ 3.35912] ((6 . 1) (8 . 2) (10 . 3) (17 . 6) (18 . 7)) 6.285 {1/3:10} B:0 SIMILARITY (1/min{score1}): 0.4999 [and 1/min{score2}: 0.7137] [3280, 3680]: Comparing 1kex_A and 1lns_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 58 (24 H + 34 S) secondary structure elements in 1lns_A, of which 19 satisfy the size requirements. 1.13094 [ 1.92277] ((3 . 39) (6 . 42) (7 . 43) (8 . 44) (10 . 45) (11 . 50) (15 . 53) (16 . 54) (17 . 55) (18 . 58)) 6.647 {3/34:45} B:0 2.00034 [ 3.80005] ((6 . 42) (7 . 43) (8 . 44) (10 . 45) (17 . 50)) 5.186 {0/7:10} B:0 2.07305 [ 3.81120] ((3 . 39) (6 . 42) (8 . 44) (10 . 45) (18 . 53)) 6.517 {1/8:10} B:0 2.11955 [ 3.81891] ((3 . 39) (6 . 42) (8 . 44) (10 . 45) (17 . 50)) 5.815 {1/7:10} B:0 2.11991 [ 3.81898] ((6 . 44) (8 . 45) (15 . 50) (16 . 51) (17 . 53)) 6.733 {1/7:10} B:0 SIMILARITY (1/min{score1}): 0.8842 [and 1/min{score2}: 0.5201] [3280, 4423]: Comparing 1kex_A and 1nx9_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 53 (25 H + 28 S) secondary structure elements in 1nx9_A, of which 16 satisfy the size requirements. 2.00020 [ 3.20005] ((6 . 38) (7 . 39) (8 . 40) (10 . 41) (16 . 47)) 4.545 {0/8:10} B:0 2.00066 [ 3.20016] ((3 . 34) (6 . 38) (7 . 39) (8 . 40) (10 . 41)) 6.093 {0/9:10} B:0 2.00179 [ 3.20044] ((3 . 41) (6 . 44) (8 . 46) (10 . 48) (17 . 53)) 7.834 {0/5:10} B:0 2.50021 [ 4.00005] ((8 . 34) (15 . 38) (17 . 40) (18 . 41)) 5.390 {0/4:6} B:0 2.50136 [ 4.00033] ((6 . 34) (11 . 38) (15 . 40) (17 . 41)) 8.639 {0/5:6} B:0 SIMILARITY (1/min{score1}): 0.9558 [and 1/min{score2}: 0.6204] [3280, 4496]: Comparing 1kex_A and 1o59_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 30 (6 H + 24 S) secondary structure elements in 1o59_A, of which 11 satisfy the size requirements. 1.25271 [ 1.37704] ((3 . 5) (6 . 8) (8 . 9) (10 . 10) (11 . 11) (15 . 12) (17 . 13) (18 . 15)) 6.110 {0/18:28} B:0 1.26521 [ 1.38649] ((3 . 5) (6 . 8) (7 . 9) (10 . 10) (11 . 11) (15 . 12) (17 . 13) (18 . 15)) 6.408 {1/18:28} B:0 1.42919 [ 1.57189] ((3 . 5) (6 . 8) (8 . 9) (10 . 10) (15 . 12) (17 . 13) (18 . 15)) 4.665 {0/14:21} B:0 1.43019 [ 1.57264] ((3 . 5) (6 . 8) (10 . 10) (11 . 11) (15 . 12) (17 . 13) (18 . 15)) 5.929 {0/15:21} B:0 1.66882 [ 1.83496] ((6 . 9) (8 . 10) (10 . 11) (11 . 12) (15 . 13) (17 . 15)) 7.157 {0/7:15} B:0 SIMILARITY (1/min{score1}): 0.7983 [and 1/min{score2}: 0.7262] [3280, 4497]: Comparing 1kex_A and 1o59_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 30 (6 H + 24 S) secondary structure elements in 1o59_A, of which 9 satisfy the size requirements. 1.25261 [ 1.12858] ((3 . 18) (6 . 23) (8 . 24) (10 . 25) (11 . 26) (15 . 27) (17 . 28) (18 . 30)) 6.053 {0/21:28} B:0 1.43032 [ 1.28812] ((3 . 18) (8 . 24) (10 . 25) (11 . 26) (15 . 27) (17 . 28) (18 . 30)) 6.053 {0/15:21} B:0 1.60476 [ 1.55136] ((3 . 18) (6 . 23) (7 . 24) (10 . 25) (11 . 26) (16 . 27) (17 . 28) (18 . 30)) 6.397 {3/21:28} B:0 2.00338 [ 1.80463] ((6 . 24) (7 . 25) (10 . 26) (11 . 27) (15 . 28)) 9.183 {0/5:10} B:0 2.00528 [ 1.80723] ((10 . 23) (11 . 24) (15 . 25) (17 . 26) (18 . 27)) 10.269 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.7983 [and 1/min{score2}: 0.8861] [3280, 4599]: Comparing 1kex_A and 1od3_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 12 (0 H + 12 S) secondary structure elements in 1od3_A, of which 10 satisfy the size requirements. 1.25411 [ 1.25411] ((3 . 3) (6 . 6) (8 . 7) (10 . 8) (11 . 9) (15 . 10) (17 . 11) (18 . 12)) 6.780 {0/18:28} B:0 1.66702 [ 1.66702] ((6 . 6) (8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 12)) 4.566 {0/9:15} B:0 2.00023 [ 2.00023] ((8 . 7) (10 . 8) (15 . 10) (17 . 11) (18 . 12)) 4.667 {0/5:10} B:0 2.00100 [ 2.00100] ((3 . 3) (6 . 6) (8 . 7) (11 . 9) (16 . 10)) 6.770 {0/7:10} B:0 2.00186 [ 2.00186] ((8 . 6) (10 . 7) (11 . 8) (17 . 10) (18 . 11)) 7.903 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.8397 [and 1/min{score2}: 0.8397] [3280, 4654]: Comparing 1kex_A and 1oh4_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 18 (3 H + 15 S) secondary structure elements in 1oh4_A, of which 15 satisfy the size requirements. 1.25337 [ 1.87600] ((3 . 3) (6 . 8) (8 . 10) (10 . 12) (11 . 13) (15 . 16) (17 . 17) (18 . 18)) 6.451 {0/21:28} B:0 1.67499 [ 2.50248] ((6 . 7) (8 . 8) (10 . 10) (11 . 12) (17 . 16) (18 . 17)) 10.044 {0/10:15} B:0 2.00309 [ 3.00092] ((8 . 3) (11 . 7) (15 . 8) (17 . 10) (18 . 12)) 8.981 {0/6:10} B:0 2.12015 [ 3.03820] ((7 . 3) (11 . 7) (16 . 8) (17 . 10) (18 . 12)) 7.178 {1/7:10} B:0 2.12349 [ 3.03934] ((6 . 7) (7 . 8) (10 . 10) (11 . 12) (18 . 17)) 10.244 {1/7:10} B:0 SIMILARITY (1/min{score1}): 0.8445 [and 1/min{score2}: 0.5917] [3280, 4929]: Comparing 1kex_A and 1p8j_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 35 (14 H + 21 S) secondary structure elements in 1p8j_A, of which 8 satisfy the size requirements. 1.66735 [ 1.33467] ((6 . 28) (8 . 29) (10 . 31) (15 . 33) (17 . 34) (18 . 35)) 5.370 {0/8:15} B:0 1.66825 [ 1.33641] ((6 . 26) (8 . 28) (10 . 29) (15 . 32) (17 . 33) (18 . 34)) 6.620 {0/9:15} B:0 2.00039 [ 1.60076] ((6 . 28) (11 . 32) (15 . 33) (17 . 34) (18 . 35)) 5.353 {0/9:10} B:0 2.00054 [ 1.60105] ((6 . 28) (10 . 31) (11 . 32) (15 . 33) (18 . 35)) 5.795 {0/8:10} B:0 2.00121 [ 1.60237] ((3 . 26) (8 . 29) (10 . 31) (17 . 34) (18 . 35)) 7.103 {0/6:10} B:0 SIMILARITY (1/min{score1}): 0.5998 [and 1/min{score2}: 0.7492] [3280, 5569]: Comparing 1kex_A and 1r64_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 33 (14 H + 19 S) secondary structure elements in 1r64_A, of which 11 satisfy the size requirements. 1.66764 [ 1.83407] ((6 . 24) (10 . 29) (11 . 30) (15 . 31) (17 . 32) (18 . 33)) 5.867 {0/10:15} B:0 1.66777 [ 1.83416] ((6 . 24) (8 . 27) (10 . 29) (11 . 30) (17 . 32) (18 . 33)) 6.050 {0/9:15} B:0 1.67232 [ 1.83759] ((3 . 22) (6 . 24) (8 . 27) (10 . 29) (15 . 31) (18 . 33)) 9.112 {0/10:15} B:0 1.74458 [ 1.89312] ((6 . 23) (8 . 24) (10 . 27) (15 . 30) (17 . 31) (18 . 32)) 6.241 {1/9:15} B:0 2.00143 [ 2.20108] ((6 . 27) (8 . 29) (10 . 30) (11 . 31) (17 . 33)) 7.403 {0/7:10} B:0 SIMILARITY (1/min{score1}): 0.5996 [and 1/min{score2}: 0.5452] [3280, 6050]: Comparing 1kex_A and 1umh_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 13 (2 H + 11 S) secondary structure elements in 1umh_A, of which 12 satisfy the size requirements. 1.25085 [ 1.50049] ((3 . 2) (6 . 5) (8 . 7) (10 . 8) (11 . 9) (15 . 11) (17 . 12) (18 . 13)) 4.565 {0/6:28} B:0 1.98347 [ 2.20785] ((3 . 4) (6 . 5) (7 . 7) (10 . 8) (15 . 11) (18 . 13)) 7.389 {1/6:15} B:0 2.00058 [ 2.40033] ((8 . 5) (10 . 7) (15 . 9) (17 . 11) (18 . 12)) 5.899 {0/1:10} B:0 2.00264 [ 2.40153] ((6 . 7) (8 . 8) (10 . 9) (15 . 12) (17 . 13)) 8.627 {0/2:10} B:0 2.00286 [ 2.40166] ((10 . 7) (11 . 8) (15 . 9) (17 . 11) (18 . 12)) 8.805 {0/0:10} B:0 SIMILARITY (1/min{score1}): 0.7995 [and 1/min{score2}: 0.6664] [3280, 6140]: Comparing 1kex_A and 1uxz_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 14 (1 H + 13 S) secondary structure elements in 1uxz_A, of which 13 satisfy the size requirements. 1.65559 [ 1.86293] ((3 . 3) (6 . 6) (7 . 7) (8 . 8) (10 . 9) (15 . 11) (17 . 13) (18 . 14)) 4.927 {3/20:28} B:0 2.00282 [ 2.60129] ((8 . 6) (10 . 8) (11 . 9) (17 . 11) (18 . 13)) 8.777 {0/6:10} B:0 2.00361 [ 2.60164] ((6 . 8) (7 . 9) (10 . 10) (11 . 11) (15 . 13)) 9.332 {0/4:10} B:0 2.00363 [ 2.60166] ((3 . 1) (6 . 6) (8 . 8) (10 . 9) (11 . 10)) 9.349 {0/7:10} B:0 2.00569 [ 2.60260] ((8 . 5) (10 . 6) (11 . 8) (15 . 9) (18 . 11)) 10.463 {0/5:10} B:0 SIMILARITY (1/min{score1}): 0.7957 [and 1/min{score2}: 0.6142] [3280, 6347]: Comparing 1kex_A and 1xna_A, based on their crossing files. There are 18 (3 H + 15 S) secondary structure elements in 1kex_A, of which 10 satisfy the size requirements. There are 11 (3 H + 8 S) secondary structure elements in 1xna_A, of which 11 satisfy the size requirements. 1.25224 [ 1.37669] ((3 . 1) (6 . 3) (8 . 4) (10 . 5) (11 . 6) (15 . 8) (17 . 10) (18 . 11)) 5.826 {0/14:28} B:0 1.66714 [ 1.83369] ((6 . 3) (8 . 4) (10 . 5) (15 . 8) (17 . 10) (18 . 11)) 4.897 {0/6:15} B:0 2.00056 [ 2.20042] ((8 . 3) (10 . 4) (15 . 6) (17 . 8) (18 . 10)) 5.856 {0/5:10} B:0 2.00259 [ 2.20194] ((3 . 3) (10 . 6) (11 . 8) (15 . 10) (17 . 11)) 8.586 {0/5:10} B:0 2.00418 [ 2.20314] ((8 . 3) (10 . 4) (11 . 5) (15 . 6) (18 . 10)) 9.682 {0/4:10} B:0 SIMILARITY (1/min{score1}): 0.7986 [and 1/min{score2}: 0.7264] -------------------------------------------------------------------------------------------------------------------------