------------------------------------------------------------------------------------------------------------------------- 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. ------------------------------------------------------------------------------------------------------------------------- [3211, 15]: Comparing 1k8k_C and 1a12_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 35 (5 H + 30 S) secondary structure elements in 1a12_A, of which 31 satisfy the size requirements. 3.87500 [ 3.87500] ((10 . 3) (11 . 4) (14 . 8) (15 . 9) (16 . 10) (17 . 13) (19 . 15) (20 . 16)) 2.215 {0/9:28} B:0 3.87500 [ 3.87500] ((14 . 14) (15 . 15) (16 . 16) (18 . 20) (19 . 21) (20 . 22) (29 . 31) (30 . 32)) 2.911 {0/12:28} B:0 4.42857 [ 4.42857] ((10 . 8) (11 . 9) (14 . 14) (15 . 15) (16 . 16) (29 . 31) (30 . 32)) 2.581 {0/9:21} B:0 4.42858 [ 4.42858] ((14 . 3) (15 . 4) (18 . 8) (19 . 9) (28 . 20) (29 . 21) (30 . 22)) 3.236 {0/6:21} B:0 4.42858 [ 4.42858] ((2 . 3) (3 . 4) (4 . 5) (6 . 8) (7 . 9) (8 . 10) (30 . 34)) 3.729 {0/9:21} B:0 SIMILARITY (1/min{score1}): 0.8376 [and 1/min{score2}: 0.8376] [3211, 1250]: Comparing 1k8k_C and 1erj_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 32 (2 H + 30 S) secondary structure elements in 1erj_A, of which 30 satisfy the size requirements. 1.14869 [ 1.11171] ((2 . 5) (3 . 6) (4 . 7) (5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (14 . 17) (15 . 18) (16 . 19) (17 . 20) (18 . 21) (19 . 22) (20 . 23) (22 . 24) (23 . 25) (24 . 27) (25 . 28) (26 . 29) (28 . 30) (29 . 31) (30 . 32)) 3.831 {0/250:351} B:0 3.10003 [ 3.00003] ((10 . 5) (11 . 6) (12 . 7) (13 . 8) (14 . 9) (15 . 10) (16 . 11) (28 . 25) (29 . 27) (30 . 28)) 3.898 {0/27:45} B:0 3.44445 [ 3.33334] ((17 . 12) (18 . 13) (19 . 14) (20 . 15) (22 . 16) (23 . 17) (24 . 18) (25 . 19) (30 . 25)) 3.237 {0/22:36} B:0 3.44446 [ 3.33335] ((17 . 8) (18 . 9) (19 . 10) (20 . 11) (22 . 12) (23 . 13) (24 . 14) (25 . 15) (30 . 21)) 3.405 {0/23:36} B:0 3.44446 [ 3.33335] ((16 . 9) (17 . 12) (18 . 13) (19 . 14) (20 . 15) (22 . 16) (23 . 17) (24 . 18) (25 . 19)) 3.448 {0/21:36} B:0 SIMILARITY (1/min{score1}): 0.9028 [and 1/min{score2}: 0.9328] [3211, 1643]: Comparing 1k8k_C and 1fwx_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 52 (10 H + 42 S) secondary structure elements in 1fwx_A, of which 37 satisfy the size requirements. 2.81821 [ 3.36366] ((9 . 25) (10 . 26) (11 . 27) (12 . 28) (13 . 31) (14 . 32) (15 . 33) (16 . 34) (17 . 36) (18 . 37) (19 . 38)) 3.729 {0/36:55} B:0 2.81826 [ 3.36368] ((10 . 6) (11 . 8) (12 . 9) (13 . 10) (14 . 11) (15 . 12) (16 . 15) (17 . 16) (18 . 17) (19 . 18) (26 . 25)) 4.612 {0/34:55} B:0 3.10010 [ 3.70006] ((7 . 1) (14 . 6) (15 . 8) (16 . 9) (20 . 15) (22 . 16) (23 . 17) (24 . 18) (25 . 20) (31 . 29)) 5.319 {0/31:45} B:0 3.10024 [ 3.70014] ((18 . 6) (19 . 8) (20 . 9) (22 . 10) (23 . 11) (24 . 12) (28 . 17) (29 . 18) (30 . 20) (31 . 21)) 3.738 {1/25:45} B:0 3.44445 [ 4.11112] ((3 . 8) (4 . 9) (5 . 10) (6 . 11) (7 . 12) (23 . 32) (24 . 33) (25 . 34) (26 . 36)) 3.174 {0/21:36} B:0 SIMILARITY (1/min{score1}): 0.9339 [and 1/min{score2}: 0.7831] [3211, 2000]: Comparing 1k8k_C and 1gxr_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 31 (0 H + 31 S) secondary structure elements in 1gxr_A, of which 31 satisfy the size requirements. 1.14866 [ 1.14866] ((2 . 5) (3 . 6) (4 . 7) (5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (14 . 17) (15 . 18) (16 . 19) (17 . 20) (18 . 21) (19 . 22) (20 . 23) (22 . 24) (23 . 25) (24 . 26) (25 . 27) (26 . 28) (28 . 29) (29 . 30) (30 . 31)) 3.782 {0/248:351} B:0 3.10003 [ 3.10003] ((9 . 4) (10 . 5) (11 . 6) (12 . 7) (14 . 9) (15 . 10) (16 . 11) (20 . 15) (28 . 25) (29 . 26)) 3.873 {0/26:45} B:0 3.10003 [ 3.10003] ((10 . 5) (11 . 6) (12 . 7) (13 . 8) (14 . 9) (15 . 10) (16 . 11) (28 . 25) (29 . 26) (30 . 27)) 3.895 {0/25:45} B:0 3.44446 [ 3.44446] ((5 . 4) (6 . 5) (7 . 6) (8 . 7) (13 . 12) (14 . 13) (15 . 14) (16 . 15) (28 . 29)) 3.658 {0/25:36} B:0 3.44447 [ 3.44447] ((9 . 4) (10 . 5) (11 . 6) (12 . 7) (13 . 8) (14 . 9) (15 . 10) (16 . 11) (28 . 25)) 4.095 {0/20:36} B:0 SIMILARITY (1/min{score1}): 0.9031 [and 1/min{score2}: 0.9031] [3211, 2988]: Comparing 1k8k_C and 1jmx_B, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 30 (1 H + 29 S) secondary structure elements in 1jmx_B, of which 30 satisfy the size requirements. 2.81820 [ 2.72729] ((11 . 1) (12 . 2) (13 . 3) (14 . 4) (15 . 5) (16 . 6) (20 . 12) (22 . 14) (23 . 15) (24 . 16) (25 . 17)) 3.254 {0/40:55} B:0 3.44446 [ 3.33335] ((8 . 20) (9 . 21) (10 . 22) (11 . 23) (12 . 24) (13 . 25) (14 . 26) (15 . 27) (16 . 28)) 3.622 {0/26:36} B:0 3.87504 [ 3.75005] ((3 . 1) (4 . 2) (5 . 3) (6 . 4) (7 . 5) (8 . 6) (9 . 7) (15 . 14)) 5.110 {0/20:28} B:0 3.87505 [ 3.75005] ((1 . 14) (2 . 15) (3 . 16) (4 . 17) (5 . 18) (12 . 22) (13 . 23) (18 . 30)) 5.126 {0/20:28} B:0 4.42859 [ 4.28573] ((13 . 3) (14 . 4) (15 . 5) (16 . 6) (18 . 9) (21 . 13) (25 . 17)) 4.255 {0/17:21} B:0 SIMILARITY (1/min{score1}): 0.9000 [and 1/min{score2}: 0.9295] [3211, 3002]: Comparing 1k8k_C and 1jof_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 30 (1 H + 29 S) secondary structure elements in 1jof_A, of which 29 satisfy the size requirements. 2.58335 [ 2.41669] ((10 . 9) (11 . 10) (12 . 11) (13 . 12) (17 . 16) (18 . 17) (19 . 18) (20 . 19) (22 . 21) (28 . 26) (29 . 27) (30 . 28)) 3.074 {0/47:66} B:0 2.81819 [ 2.63638] ((10 . 9) (11 . 10) (12 . 11) (13 . 12) (14 . 13) (15 . 14) (16 . 15) (22 . 21) (28 . 26) (29 . 27) (30 . 28)) 2.918 {0/38:55} B:0 2.81822 [ 2.63641] ((6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (17 . 21) (23 . 24) (28 . 30)) 3.910 {0/37:55} B:0 3.10003 [ 2.90004] ((1 . 12) (2 . 13) (3 . 14) (4 . 15) (5 . 16) (6 . 17) (7 . 18) (8 . 19) (9 . 20) (14 . 24)) 4.041 {0/29:45} B:0 3.10006 [ 2.90007] ((1 . 12) (2 . 13) (3 . 14) (4 . 15) (5 . 16) (6 . 17) (7 . 18) (8 . 19) (9 . 20) (15 . 25)) 4.580 {0/30:45} B:0 SIMILARITY (1/min{score1}): 0.9028 [and 1/min{score2}: 0.9650] [3211, 3055]: Comparing 1k8k_C and 1jtd_B, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 28 (7 H + 21 S) secondary structure elements in 1jtd_B, of which 21 satisfy the size requirements. 3.87502 [ 2.62505] ((6 . 7) (7 . 8) (8 . 9) (10 . 11) (11 . 12) (12 . 13) (23 . 27) (24 . 28)) 4.016 {0/11:28} B:0 3.87930 [ 2.63876] ((6 . 11) (7 . 12) (8 . 13) (10 . 15) (11 . 16) (12 . 17) (16 . 23) (19 . 28)) 3.922 {1/10:28} B:0 4.42857 [ 3.00001] ((2 . 15) (3 . 16) (4 . 17) (6 . 19) (7 . 20) (8 . 21) (10 . 23)) 2.919 {0/4:21} B:0 4.42858 [ 3.00004] ((3 . 4) (4 . 5) (6 . 7) (7 . 8) (8 . 9) (18 . 23) (20 . 25)) 4.044 {0/8:21} B:0 4.42858 [ 3.00004] ((6 . 15) (7 . 16) (8 . 17) (10 . 19) (11 . 20) (12 . 21) (17 . 28)) 4.129 {0/8:21} B:0 SIMILARITY (1/min{score1}): 0.6773 [and 1/min{score2}: 0.9993] [3211, 3148]: Comparing 1k8k_C and 1k32_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 94 (19 H + 75 S) secondary structure elements in 1k32_A, of which 30 satisfy the size requirements. 2.21439 [ 2.14297] ((2 . 30) (3 . 32) (4 . 33) (5 . 34) (6 . 35) (7 . 36) (8 . 37) (9 . 38) (10 . 39) (11 . 40) (12 . 41) (13 . 42) (16 . 45) (20 . 51)) 4.166 {0/61:91} B:0 2.58340 [ 2.50008] ((4 . 33) (5 . 34) (6 . 35) (7 . 36) (8 . 37) (9 . 38) (10 . 39) (11 . 40) (12 . 41) (13 . 42) (14 . 43) (20 . 51)) 4.231 {0/45:66} B:0 2.58340 [ 2.50008] ((5 . 34) (6 . 35) (7 . 36) (8 . 37) (9 . 38) (10 . 39) (11 . 40) (12 . 41) (13 . 42) (14 . 43) (16 . 45) (20 . 51)) 4.234 {0/46:66} B:0 3.10022 [ 3.00024] ((2 . 39) (3 . 40) (4 . 41) (5 . 42) (6 . 43) (7 . 44) (20 . 59) (22 . 60) (23 . 61) (24 . 62)) 4.691 {1/27:45} B:0 3.44447 [ 3.33336] ((17 . 34) (18 . 35) (19 . 36) (20 . 37) (22 . 38) (23 . 39) (24 . 40) (25 . 41) (30 . 47)) 3.998 {0/21:36} B:0 SIMILARITY (1/min{score1}): 0.8382 [and 1/min{score2}: 0.8661] [3211, 3158]: Comparing 1k8k_C and 1k3i_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 61 (9 H + 52 S) secondary structure elements in 1k3i_A, of which 29 satisfy the size requirements. 1.10831 [ 1.03714] ((1 . 16) (2 . 17) (3 . 18) (4 . 19) (5 . 20) (6 . 21) (7 . 22) (8 . 23) (9 . 25) (10 . 26) (11 . 27) (12 . 28) (13 . 29) (14 . 32) (15 . 34) (16 . 35) (17 . 36) (18 . 39) (19 . 40) (20 . 41) (22 . 42) (23 . 43) (24 . 44) (25 . 45) (26 . 47) (28 . 48) (29 . 49) (30 . 50)) 4.517 {0/278:378} B:0 2.06678 [ 1.93347] ((8 . 19) (10 . 21) (11 . 22) (12 . 23) (13 . 25) (14 . 26) (15 . 27) (16 . 28) (17 . 29) (18 . 32) (19 . 34) (20 . 35) (28 . 43) (29 . 44) (30 . 45)) 4.037 {0/73:105} B:0 2.81822 [ 2.63642] ((5 . 16) (8 . 19) (13 . 25) (14 . 26) (15 . 27) (16 . 28) (17 . 29) (20 . 35) (28 . 43) (29 . 44) (30 . 45)) 3.978 {0/46:55} B:0 3.10006 [ 2.90007] ((9 . 20) (10 . 21) (11 . 22) (12 . 23) (13 . 25) (16 . 28) (18 . 32) (23 . 39) (24 . 40) (30 . 45)) 4.640 {0/32:45} B:0 3.44451 [ 3.22230] ((1 . 18) (14 . 32) (15 . 34) (16 . 35) (17 . 36) (19 . 40) (20 . 41) (22 . 42) (28 . 48)) 5.163 {0/23:36} B:0 SIMILARITY (1/min{score1}): 0.9025 [and 1/min{score2}: 0.9645] [3211, 3211]: Comparing 1k8k_C and 1k8k_C, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 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) (12 . 12) (13 . 13) (14 . 14) (15 . 15) (16 . 16) (17 . 17) (18 . 18) (19 . 19) (20 . 20) (21 . 21) (22 . 22) (23 . 23) (24 . 24) (25 . 25) (26 . 26) (27 . 27) (28 . 28) (29 . 29) (30 . 30) (31 . 31)) 0.000 {0/357:465} B:0 3.44447 [ 3.44447] ((17 . 1) (18 . 2) (19 . 3) (20 . 4) (22 . 5) (23 . 6) (24 . 7) (25 . 8) (30 . 14)) 4.034 {0/23:36} B:0 3.44447 [ 3.44447] ((1 . 17) (2 . 18) (3 . 19) (4 . 20) (5 . 22) (6 . 23) (7 . 24) (8 . 25) (14 . 30)) 4.034 {0/23:36} B:0 3.87503 [ 3.87503] ((1 . 9) (2 . 10) (3 . 11) (4 . 12) (5 . 13) (6 . 14) (14 . 20) (17 . 26)) 4.514 {0/20:28} B:0 3.87503 [ 3.87503] ((9 . 1) (10 . 2) (11 . 3) (12 . 4) (13 . 5) (14 . 6) (20 . 14) (26 . 17)) 4.514 {0/20:28} B:0 SIMILARITY (1/min{score1}): 1.0000 [and 1/min{score2}: 1.0000] [3211, 3506]: Comparing 1k8k_C and 1l0q_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 38 (1 H + 37 S) secondary structure elements in 1l0q_A, of which 28 satisfy the size requirements. 2.06672 [ 1.86674] ((3 . 1) (4 . 2) (5 . 3) (6 . 4) (7 . 5) (8 . 7) (9 . 8) (10 . 9) (11 . 10) (12 . 11) (13 . 12) (14 . 13) (15 . 14) (16 . 15) (28 . 30)) 3.355 {0/68:105} B:0 2.81820 [ 2.54547] ((7 . 1) (8 . 2) (9 . 3) (10 . 4) (11 . 5) (12 . 7) (13 . 8) (14 . 9) (15 . 10) (16 . 11) (28 . 25)) 3.046 {0/35:55} B:0 3.10002 [ 2.80003] ((10 . 4) (11 . 5) (12 . 7) (13 . 8) (14 . 9) (15 . 10) (16 . 11) (28 . 25) (29 . 26) (30 . 27)) 3.558 {0/27:45} B:0 3.10006 [ 2.80008] ((1 . 20) (2 . 21) (3 . 22) (4 . 23) (5 . 24) (6 . 25) (7 . 26) (8 . 27) (9 . 28) (10 . 30)) 4.676 {0/32:45} B:0 3.44446 [ 3.11114] ((17 . 12) (18 . 13) (19 . 14) (20 . 15) (22 . 16) (23 . 17) (24 . 18) (25 . 19) (30 . 25)) 3.774 {0/22:36} B:0 SIMILARITY (1/min{score1}): 0.9027 [and 1/min{score2}: 0.9991] [3211, 3790]: Comparing 1k8k_C and 1m1x_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 74 (6 H + 68 S) secondary structure elements in 1m1x_A, of which 32 satisfy the size requirements. 1.24018 [ 1.28017] ((1 . 1) (2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 9) (7 . 10) (8 . 13) (9 . 14) (10 . 15) (11 . 16) (12 . 18) (14 . 21) (15 . 22) (16 . 24) (17 . 25) (18 . 26) (19 . 27) (20 . 30) (22 . 31) (24 . 33) (25 . 35) (28 . 38) (29 . 39) (30 . 40)) 3.097 {0/198:300} B:0 3.87501 [ 4.00001] ((10 . 4) (14 . 9) (15 . 10) (16 . 13) (17 . 14) (18 . 15) (19 . 16) (20 . 18)) 3.196 {0/12:28} B:0 3.87501 [ 4.00001] ((3 . 10) (10 . 18) (14 . 21) (15 . 22) (16 . 24) (17 . 25) (18 . 26) (19 . 27)) 3.628 {0/11:28} B:0 3.87502 [ 4.00001] ((2 . 9) (3 . 10) (10 . 18) (15 . 22) (16 . 24) (20 . 30) (22 . 31) (28 . 38)) 3.928 {0/15:28} B:0 3.87502 [ 4.00002] ((2 . 9) (3 . 10) (10 . 18) (14 . 21) (15 . 22) (16 . 24) (22 . 31) (28 . 38)) 4.130 {0/12:28} B:0 SIMILARITY (1/min{score1}): 0.8384 [and 1/min{score2}: 0.8122] [3211, 3908]: Comparing 1k8k_C and 1mda_H, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 32 (2 H + 30 S) secondary structure elements in 1mda_H, of which 31 satisfy the size requirements. 2.21436 [ 2.21436] ((1 . 8) (2 . 9) (3 . 10) (4 . 11) (5 . 12) (8 . 15) (10 . 17) (11 . 18) (12 . 19) (13 . 20) (18 . 28) (19 . 29) (20 . 30) (23 . 32)) 3.865 {0/65:91} B:0 2.21436 [ 2.21436] ((1 . 8) (2 . 9) (3 . 10) (4 . 11) (5 . 12) (10 . 17) (11 . 18) (12 . 19) (13 . 20) (16 . 25) (18 . 28) (19 . 29) (20 . 30) (23 . 32)) 3.871 {0/66:91} B:0 2.21439 [ 2.21439] ((5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (12 . 15) (14 . 17) (15 . 18) (18 . 23) (19 . 24) (20 . 25) (23 . 28) (24 . 29) (25 . 30)) 4.127 {0/62:91} B:0 3.10003 [ 3.10003] ((1 . 12) (2 . 13) (3 . 14) (4 . 15) (6 . 17) (7 . 18) (8 . 19) (9 . 20) (17 . 31) (18 . 32)) 4.011 {0/29:45} B:0 3.10018 [ 3.10018] ((6 . 9) (7 . 10) (8 . 11) (9 . 12) (14 . 17) (22 . 27) (23 . 28) (24 . 29) (25 . 30) (26 . 31)) 4.999 {1/30:45} B:0 SIMILARITY (1/min{score1}): 0.8697 [and 1/min{score2}: 0.8697] [3211, 4223]: Comparing 1k8k_C and 1nex_B, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 39 (7 H + 32 S) secondary structure elements in 1nex_B, of which 32 satisfy the size requirements. 2.58335 [ 2.66668] ((5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (28 . 34) (29 . 35) (30 . 36)) 2.758 {0/46:66} B:0 2.58336 [ 2.66669] ((5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (14 . 17) (29 . 35) (30 . 36)) 3.290 {0/47:66} B:0 2.58336 [ 2.66669] ((2 . 9) (3 . 10) (4 . 11) (5 . 12) (6 . 13) (7 . 14) (10 . 17) (13 . 21) (14 . 22) (15 . 23) (16 . 24) (28 . 37)) 3.400 {0/36:66} B:0 2.58336 [ 2.66669] ((1 . 12) (2 . 13) (3 . 14) (4 . 15) (5 . 16) (6 . 17) (7 . 18) (8 . 19) (14 . 26) (15 . 27) (16 . 28) (24 . 35)) 3.424 {0/43:66} B:0 2.58337 [ 2.66670] ((6 . 9) (7 . 10) (8 . 11) (9 . 12) (10 . 13) (11 . 14) (12 . 15) (13 . 16) (14 . 17) (15 . 18) (16 . 19) (30 . 36)) 3.460 {0/45:66} B:0 SIMILARITY (1/min{score1}): 0.5718 [and 1/min{score2}: 0.5688] [3211, 4359]: Comparing 1k8k_C and 1nr0_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 57 (2 H + 55 S) secondary structure elements in 1nr0_A, of which 26 satisfy the size requirements. 1.24052 [ 1.04088] ((3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (12 . 12) (14 . 13) (15 . 14) (16 . 15) (17 . 16) (18 . 17) (19 . 18) (20 . 19) (22 . 20) (23 . 21) (24 . 22) (25 . 23) (26 . 24) (28 . 26) (29 . 27) (30 . 28)) 4.010 {0/200:300} B:0 2.41178 [ 2.39021] ((2 . 3) (3 . 4) (4 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 9) (10 . 10) (11 . 11) (12 . 12) (14 . 13) (15 . 14) (16 . 15) (17 . 16) (18 . 17) (19 . 18) (20 . 19) (22 . 20) (23 . 21) (24 . 22) (25 . 23) (26 . 24) (28 . 26) (29 . 27) (30 . 28)) 4.005 {45/190:300} B:0 2.81820 [ 2.36367] ((7 . 3) (8 . 4) (9 . 5) (10 . 6) (11 . 7) (12 . 8) (13 . 9) (14 . 10) (15 . 11) (16 . 12) (20 . 15)) 3.307 {0/37:55} B:0 2.81821 [ 2.36369] ((7 . 3) (8 . 4) (9 . 5) (10 . 6) (11 . 7) (12 . 8) (13 . 9) (14 . 10) (15 . 11) (16 . 12) (28 . 26)) 3.640 {0/33:55} B:0 3.44445 [ 2.88890] ((17 . 5) (18 . 6) (19 . 7) (20 . 8) (22 . 9) (23 . 10) (24 . 11) (25 . 12) (30 . 17)) 2.884 {0/21:36} B:0 SIMILARITY (1/min{score1}): 0.8064 [and 1/min{score2}: 0.9613] [3211, 4360]: Comparing 1k8k_C and 1nr0_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 57 (2 H + 55 S) secondary structure elements in 1nr0_A, of which 28 satisfy the size requirements. 1.19269 [ 1.07744] ((2 . 30) (3 . 31) (4 . 32) (5 . 33) (6 . 34) (7 . 35) (8 . 36) (9 . 37) (10 . 38) (11 . 39) (12 . 40) (13 . 41) (14 . 42) (15 . 43) (16 . 44) (17 . 45) (18 . 46) (19 . 47) (20 . 48) (21 . 49) (23 . 51) (24 . 52) (25 . 53) (28 . 55) (29 . 56) (30 . 57)) 3.614 {1/213:325} B:0 2.81820 [ 2.54548] ((6 . 30) (7 . 31) (8 . 32) (9 . 33) (10 . 34) (11 . 35) (12 . 36) (14 . 38) (15 . 39) (16 . 40) (28 . 55)) 3.091 {0/25:55} B:0 2.81821 [ 2.54549] ((1 . 45) (2 . 46) (3 . 47) (4 . 48) (6 . 51) (7 . 52) (8 . 53) (9 . 54) (10 . 55) (11 . 56) (12 . 57)) 3.456 {0/36:55} B:0 2.81822 [ 2.54551] ((6 . 30) (10 . 34) (11 . 35) (12 . 36) (13 . 37) (14 . 38) (15 . 39) (16 . 40) (28 . 55) (29 . 56) (30 . 57)) 3.896 {0/28:55} B:0 3.10002 [ 2.80003] ((10 . 30) (11 . 31) (12 . 32) (13 . 33) (14 . 34) (15 . 35) (16 . 36) (28 . 51) (29 . 52) (30 . 53)) 3.558 {0/27:45} B:0 SIMILARITY (1/min{score1}): 0.8706 [and 1/min{score2}: 0.9638] [3211, 4706]: Comparing 1k8k_C and 1olz_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 54 (12 H + 42 S) secondary structure elements in 1olz_A, of which 34 satisfy the size requirements. 1.19320 [ 1.30837] ((1 . 2) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (6 . 8) (7 . 9) (8 . 10) (10 . 13) (11 . 14) (12 . 15) (14 . 16) (15 . 17) (16 . 18) (17 . 19) (18 . 23) (19 . 24) (20 . 25) (22 . 34) (23 . 35) (24 . 36) (25 . 37) (26 . 38) (28 . 39) (29 . 40) (30 . 41)) 4.459 {0/207:325} B:0 1.91273 [ 1.94421] ((1 . 2) (2 . 3) (3 . 4) (4 . 5) (5 . 6) (6 . 8) (7 . 9) (9 . 10) (10 . 13) (11 . 14) (13 . 15) (14 . 16) (15 . 17) (16 . 18) (17 . 19) (18 . 23) (19 . 24) (20 . 25) (22 . 34) (23 . 35) (24 . 36) (25 . 37) (26 . 38) (28 . 39) (29 . 40) (30 . 41)) 4.645 {38/207:325} B:0 3.10002 [ 3.40001] ((13 . 2) (14 . 3) (15 . 4) (16 . 5) (18 . 8) (19 . 9) (20 . 10) (28 . 16) (29 . 17) (30 . 18)) 3.482 {0/26:45} B:0 3.44447 [ 3.77780] ((17 . 2) (18 . 3) (19 . 4) (20 . 5) (22 . 6) (25 . 8) (28 . 13) (29 . 14) (30 . 15)) 4.116 {0/19:36} B:0 3.87501 [ 4.25001] ((10 . 8) (11 . 9) (12 . 10) (14 . 13) (15 . 14) (16 . 15) (19 . 17) (20 . 18)) 3.180 {0/9:28} B:0 SIMILARITY (1/min{score1}): 0.8700 [and 1/min{score2}: 0.7935] [3211, 4869]: Comparing 1k8k_C and 1p22_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 37 (9 H + 28 S) secondary structure elements in 1p22_A, of which 28 satisfy the size requirements. 1.14863 [ 1.03769] ((2 . 10) (3 . 11) (4 . 12) (5 . 13) (6 . 14) (7 . 15) (8 . 16) (9 . 17) (10 . 18) (11 . 19) (12 . 20) (13 . 21) (14 . 22) (15 . 23) (16 . 24) (17 . 25) (18 . 26) (19 . 27) (20 . 28) (22 . 29) (23 . 30) (24 . 31) (25 . 32) (26 . 34) (28 . 35) (29 . 36) (30 . 37)) 3.713 {0/250:351} B:0 2.58337 [ 2.33338] ((1 . 25) (2 . 26) (3 . 27) (4 . 28) (5 . 29) (6 . 30) (7 . 31) (8 . 32) (9 . 34) (10 . 35) (11 . 36) (12 . 37)) 3.609 {0/44:66} B:0 2.58342 [ 2.33344] ((6 . 18) (7 . 19) (8 . 20) (9 . 21) (10 . 22) (11 . 23) (12 . 24) (13 . 25) (14 . 26) (15 . 27) (16 . 28) (17 . 31)) 4.390 {0/38:66} B:0 2.81824 [ 2.54554] ((5 . 13) (6 . 14) (7 . 15) (8 . 16) (9 . 17) (10 . 18) (11 . 19) (12 . 20) (13 . 21) (14 . 22) (17 . 27)) 4.340 {0/36:55} B:0 2.81824 [ 2.54554] ((5 . 17) (6 . 18) (7 . 19) (8 . 20) (9 . 21) (10 . 22) (11 . 23) (12 . 24) (13 . 25) (14 . 26) (17 . 31)) 4.369 {0/36:55} B:0 SIMILARITY (1/min{score1}): 0.9028 [and 1/min{score2}: 0.9992] [3211, 4969]: Comparing 1k8k_C and 1pby_B, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 31 (2 H + 29 S) secondary structure elements in 1pby_B, of which 29 satisfy the size requirements. 2.06672 [ 1.93339] ((6 . 9) (8 . 12) (9 . 13) (10 . 14) (11 . 15) (12 . 16) (13 . 17) (17 . 21) (18 . 22) (19 . 23) (20 . 24) (22 . 25) (23 . 26) (24 . 27) (25 . 28)) 3.262 {0/81:105} B:0 2.06673 [ 1.93342] ((8 . 12) (9 . 13) (10 . 14) (11 . 15) (12 . 16) (13 . 17) (16 . 20) (17 . 21) (18 . 22) (19 . 23) (20 . 24) (22 . 25) (23 . 26) (24 . 27) (25 . 28)) 3.528 {0/83:105} B:0 2.58339 [ 2.41673] ((7 . 1) (8 . 2) (9 . 3) (10 . 4) (11 . 5) (12 . 6) (13 . 7) (17 . 13) (18 . 14) (19 . 15) (20 . 16) (28 . 22)) 3.933 {0/47:66} B:0 2.81823 [ 2.63642] ((10 . 9) (12 . 12) (13 . 13) (14 . 14) (15 . 15) (16 . 16) (20 . 20) (22 . 21) (23 . 22) (24 . 23) (25 . 24)) 4.075 {0/39:55} B:0 3.10005 [ 2.90007] ((6 . 9) (12 . 16) (13 . 17) (19 . 23) (20 . 24) (22 . 25) (23 . 26) (24 . 27) (25 . 28) (26 . 29)) 4.529 {0/35:45} B:0 SIMILARITY (1/min{score1}): 0.8700 [and 1/min{score2}: 0.9296] [3211, 5009]: Comparing 1k8k_C and 1pgu_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 58 (2 H + 56 S) secondary structure elements in 1pgu_A, of which 28 satisfy the size requirements. 1.14889 [ 1.03804] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (7 . 7) (8 . 8) (9 . 10) (10 . 11) (11 . 12) (12 . 13) (13 . 14) (14 . 15) (15 . 16) (16 . 17) (17 . 18) (18 . 19) (19 . 20) (20 . 21) (22 . 22) (23 . 23) (24 . 24) (25 . 25) (26 . 26) (28 . 28) (29 . 29) (30 . 30)) 4.143 {0/239:351} B:0 2.38467 [ 2.15391] ((2 . 2) (3 . 3) (4 . 4) (5 . 5) (6 . 6) (8 . 8) (17 . 18) (18 . 19) (19 . 20) (20 . 21) (22 . 22) (23 . 23) (24 . 24)) 3.659 {0/56:78} B:0 3.44449 [ 3.11117] ((18 . 2) (19 . 3) (20 . 4) (22 . 5) (23 . 6) (24 . 7) (25 . 8) (26 . 10) (30 . 15)) 4.611 {0/22:36} B:0 3.87500 [ 3.50000] ((1 . 22) (2 . 23) (3 . 24) (4 . 25) (5 . 26) (6 . 28) (7 . 29) (8 . 30)) 2.603 {0/19:28} B:0 3.87501 [ 3.50002] ((13 . 10) (14 . 11) (15 . 12) (16 . 13) (20 . 19) (28 . 28) (29 . 29) (30 . 30)) 3.721 {0/16:28} B:0 SIMILARITY (1/min{score1}): 0.8708 [and 1/min{score2}: 0.9639] [3211, 5010]: Comparing 1k8k_C and 1pgu_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 58 (2 H + 56 S) secondary structure elements in 1pgu_A, of which 28 satisfy the size requirements. 1.19258 [ 1.07729] ((2 . 32) (3 . 33) (4 . 34) (5 . 35) (6 . 36) (7 . 37) (8 . 38) (9 . 39) (10 . 40) (11 . 41) (12 . 42) (13 . 43) (14 . 44) (15 . 45) (16 . 46) (17 . 47) (18 . 48) (19 . 49) (20 . 50) (22 . 51) (23 . 52) (24 . 53) (25 . 54) (28 . 56) (29 . 57) (30 . 58)) 3.311 {0/211:325} B:0 2.81820 [ 2.54549] ((1 . 47) (2 . 48) (3 . 49) (4 . 50) (6 . 52) (7 . 53) (8 . 54) (9 . 55) (10 . 56) (11 . 57) (12 . 58)) 3.401 {0/36:55} B:0 3.44446 [ 3.11113] ((10 . 32) (17 . 43) (18 . 44) (19 . 45) (20 . 46) (22 . 47) (23 . 48) (24 . 49) (25 . 50)) 3.405 {0/23:36} B:0 3.44446 [ 3.11114] ((10 . 32) (12 . 34) (18 . 44) (19 . 45) (20 . 46) (22 . 47) (23 . 48) (24 . 49) (25 . 50)) 3.827 {0/22:36} B:0 3.44446 [ 3.11114] ((18 . 40) (19 . 41) (20 . 42) (22 . 43) (23 . 44) (24 . 45) (25 . 46) (26 . 47) (30 . 52)) 3.831 {0/21:36} B:0 SIMILARITY (1/min{score1}): 0.8708 [and 1/min{score2}: 0.9640] [3211, 5314]: Comparing 1k8k_C and 1qfm_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 59 (20 H + 39 S) secondary structure elements in 1qfm_A, of which 33 satisfy the size requirements. 3.44493 [ 3.66707] ((17 . 10) (18 . 12) (19 . 13) (20 . 14) (22 . 15) (23 . 16) (24 . 17) (29 . 22) (30 . 23)) 3.531 {1/19:36} B:0 3.87502 [ 4.12501] ((1 . 30) (2 . 31) (3 . 32) (4 . 33) (5 . 34) (6 . 35) (7 . 36) (9 . 38)) 4.002 {0/19:28} B:0 4.42858 [ 4.71429] ((12 . 18) (13 . 20) (15 . 22) (16 . 23) (17 . 25) (20 . 28) (23 . 31)) 3.266 {0/15:21} B:0 4.42858 [ 4.71429] ((12 . 18) (13 . 20) (17 . 25) (18 . 26) (19 . 27) (20 . 28) (23 . 31)) 3.638 {0/16:21} B:0 4.42860 [ 4.71431] ((3 . 15) (11 . 22) (12 . 23) (13 . 25) (14 . 26) (15 . 27) (16 . 28)) 4.947 {0/14:21} B:0 SIMILARITY (1/min{score1}): 0.8996 [and 1/min{score2}: 0.8458] [3211, 5640]: Comparing 1k8k_C and 1ri6_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 31 (2 H + 29 S) secondary structure elements in 1ri6_A, of which 28 satisfy the size requirements. 1.47624 [ 1.33340] ((1 . 4) (2 . 5) (3 . 6) (4 . 7) (5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (11 . 14) (12 . 16) (14 . 19) (15 . 20) (16 . 21) (17 . 22) (18 . 23) (19 . 24) (20 . 25) (22 . 26) (23 . 27) (24 . 28)) 2.513 {0/150:210} B:0 1.63162 [ 1.47374] ((1 . 4) (2 . 5) (3 . 6) (4 . 7) (5 . 8) (6 . 9) (7 . 10) (8 . 11) (9 . 12) (11 . 14) (12 . 16) (17 . 22) (18 . 23) (19 . 24) (20 . 25) (22 . 26) (23 . 27) (24 . 28) (28 . 31)) 2.640 {0/125:171} B:0 1.82357 [ 1.64712] ((1 . 8) (2 . 9) (3 . 10) (4 . 11) (5 . 12) (7 . 14) (8 . 16) (10 . 19) (11 . 20) (12 . 21) (13 . 22) (17 . 26) (18 . 27) (19 . 28) (20 . 29) (22 . 30) (23 . 31)) 2.906 {0/102:136} B:0 1.82358 [ 1.64713] ((1 . 8) (2 . 9) (3 . 10) (4 . 11) (5 . 12) (7 . 14) (8 . 16) (9 . 17) (10 . 19) (11 . 20) (12 . 21) (17 . 26) (18 . 27) (19 . 28) (20 . 29) (22 . 30) (23 . 31)) 3.048 {0/102:136} B:0 1.93753 [ 1.75005] ((3 . 1) (4 . 3) (5 . 4) (6 . 5) (7 . 6) (8 . 7) (9 . 8) (10 . 9) (11 . 10) (12 . 11) (13 . 12) (15 . 14) (16 . 16) (22 . 22) (23 . 23) (24 . 24)) 2.827 {0/88:120} B:0 SIMILARITY (1/min{score1}): 0.8706 [and 1/min{score2}: 0.9637] [3211, 5888]: Comparing 1k8k_C and 1tbg_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 30 (2 H + 28 S) secondary structure elements in 1tbg_A, of which 30 satisfy the size requirements. 2.58335 [ 2.50002] ((5 . 3) (6 . 4) (7 . 5) (8 . 6) (9 . 7) (10 . 8) (11 . 9) (12 . 10) (13 . 11) (14 . 12) (15 . 13) (16 . 14)) 2.930 {0/47:66} B:0 2.81821 [ 2.72730] ((5 . 3) (6 . 4) (10 . 8) (11 . 9) (12 . 10) (13 . 11) (14 . 12) (15 . 13) (16 . 14) (20 . 18) (28 . 28)) 3.443 {0/35:55} B:0 3.10000 [ 3.00001] ((1 . 7) (2 . 8) (10 . 16) (11 . 17) (12 . 18) (13 . 19) (14 . 20) (15 . 21) (16 . 22) (24 . 29)) 2.446 {0/28:45} B:0 3.10002 [ 3.00002] ((9 . 3) (10 . 4) (11 . 5) (12 . 6) (13 . 7) (14 . 8) (15 . 9) (16 . 10) (28 . 24) (29 . 25)) 3.406 {0/28:45} B:0 3.10002 [ 3.00002] ((10 . 4) (11 . 5) (12 . 6) (13 . 7) (14 . 8) (15 . 9) (16 . 10) (28 . 24) (29 . 25) (30 . 26)) 3.417 {0/27:45} B:0 SIMILARITY (1/min{score1}): 0.9028 [and 1/min{score2}: 0.9329] [3211, 6107]: Comparing 1k8k_C and 1utc_A, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 33 (5 H + 28 S) secondary structure elements in 1utc_A, of which 29 satisfy the size requirements. 1.15065 [ 1.07712] ((1 . 1) (3 . 5) (4 . 6) (5 . 7) (6 . 8) (7 . 9) (8 . 10) (9 . 11) (10 . 12) (11 . 13) (12 . 14) (13 . 15) (14 . 17) (15 . 18) (16 . 19) (17 . 20) (18 . 21) (19 . 22) (20 . 23) (22 . 24) (23 . 25) (24 . 26) (25 . 27) (26 . 28) (28 . 29) (29 . 30) (30 . 31)) 5.615 {0/243:351} B:0 2.06679 [ 1.93348] ((4 . 10) (6 . 12) (7 . 13) (9 . 15) (10 . 17) (11 . 18) (15 . 22) (17 . 24) (18 . 25) (19 . 26) (20 . 27) (22 . 28) (23 . 29) (24 . 30) (25 . 31)) 4.085 {0/62:105} B:0 3.87501 [ 3.62501] ((1 . 24) (2 . 25) (3 . 26) (4 . 27) (5 . 28) (6 . 29) (7 . 30) (8 . 31)) 2.960 {0/13:28} B:0 3.87501 [ 3.62501] ((17 . 7) (18 . 8) (19 . 9) (20 . 10) (22 . 11) (23 . 12) (24 . 13) (25 . 14)) 3.075 {0/16:28} B:0 3.87502 [ 3.62503] ((18 . 8) (19 . 9) (20 . 10) (22 . 11) (23 . 12) (24 . 13) (25 . 14) (30 . 21)) 4.253 {0/13:28} B:0 SIMILARITY (1/min{score1}): 0.8691 [and 1/min{score2}: 0.9284] [3211, 6399]: Comparing 1k8k_C and 2bbk_H, based on their crossing files. There are 31 (3 H + 28 S) secondary structure elements in 1k8k_C, of which 31 satisfy the size requirements. There are 33 (3 H + 30 S) secondary structure elements in 2bbk_H, of which 29 satisfy the size requirements. 1.93756 [ 1.81258] ((1 . 8) (2 . 10) (3 . 11) (4 . 12) (5 . 13) (6 . 14) (7 . 15) (8 . 16) (9 . 17) (11 . 19) (12 . 20) (18 . 29) (19 . 30) (20 . 31) (22 . 32) (23 . 33)) 3.328 {0/84:120} B:0 2.06676 [ 1.93345] ((5 . 8) (6 . 10) (7 . 11) (8 . 12) (9 . 13) (10 . 14) (11 . 15) (12 . 16) (13 . 17) (14 . 18) (15 . 19) (16 . 20) (20 . 27) (23 . 29) (25 . 31)) 3.816 {0/75:105} B:0 2.21434 [ 2.07150] ((6 . 10) (7 . 11) (8 . 12) (9 . 13) (10 . 14) (12 . 16) (14 . 18) (15 . 19) (16 . 20) (20 . 27) (22 . 28) (23 . 29) (24 . 30) (25 . 31)) 3.589 {0/62:91} B:0 2.21435 [ 2.07151] ((1 . 8) (2 . 10) (3 . 11) (4 . 12) (5 . 13) (10 . 18) (11 . 19) (12 . 20) (17 . 28) (18 . 29) (19 . 30) (20 . 31) (22 . 32) (23 . 33)) 3.689 {0/64:91} B:0 2.58343 [ 2.41679] ((6 . 10) (7 . 11) (8 . 12) (9 . 13) (10 . 14) (14 . 18) (20 . 27) (22 . 28) (23 . 29) (24 . 30) (25 . 31) (26 . 32)) 4.608 {0/44:66} B:0 SIMILARITY (1/min{score1}): 0.8703 [and 1/min{score2}: 0.9301] -------------------------------------------------------------------------------------------------------------------------