STAMP Structural Alignment of Multiple Proteins by Robert B. Russell & Geoffrey J. Barton Please cite PROTEINS, v14, 309-323, 1992 Running roughfit. Sc = STAMP score, RMS = RMS deviation, Align = alignment length Len1, Len2 = length of domain, Nfit = residues fitted Secs = no. equivalent sec. strucs. Eq = no. equivalent residues %I = seq. identity, %S = sec. str. identity P(m) = P value (p=1/10) calculated after Murzin (1993), JMB, 230, 689-694 No. Domain1 Domain2 Sc RMS Len1 Len2 Align NFit Eq. Secs. %I %S P(m) Pair 1 1ecd 2hhba 6.58 2.17 136 141 145 120 114 0 17.54 100.00 0.00911 Pair 2 1ecd 2hhbb 6.92 2.07 136 146 143 124 115 0 20.00 100.00 0.00056 Pair 3 1ecd 1lh1 5.92 2.51 136 153 149 114 102 0 17.65 100.00 0.01238 Pair 4 1ecd 2lhb 6.47 1.89 136 149 145 119 118 0 17.80 100.00 0.00670 Pair 5 1ecd 4mbn 7.46 1.65 136 153 145 131 128 0 20.31 100.00 0.00021 Pair 6 1ecd 1dtwA 0.13 14.22 136 382 352 97 24 0 8.33 100.00 1.00000 LOW SCORE Pair 7 1ecd 2mm1 7.39 1.68 136 153 145 131 130 0 19.23 100.00 0.00060 Pair 8 2hhba 2hhbb 8.20 1.44 141 146 147 135 131 0 44.27 100.00 3.68e-24 Pair 9 2hhba 1lh1 6.00 2.27 141 153 153 117 108 0 13.89 100.00 0.04863 Pair 10 2hhba 2lhb 6.54 1.63 141 149 150 120 117 0 35.04 100.00 2.10e-13 Pair 11 2hhba 4mbn 7.78 1.41 141 153 148 135 132 0 26.52 100.00 4.10e-08 Pair 12 2hhba 1dtwA 0.15 13.77 141 382 397 106 25 0 8.00 100.00 1.00000 LOW SCORE Pair 13 2hhba 2mm1 7.83 1.42 141 153 147 135 134 0 26.12 100.00 6.10e-08 Pair 14 2hhbb 1lh1 5.71 2.52 146 153 157 114 103 0 17.48 100.00 0.00708 Pair 15 2hhbb 2lhb 7.13 1.38 146 149 151 126 125 0 27.20 100.00 3.23e-08 Pair 16 2hhbb 4mbn 8.08 1.35 146 153 151 138 137 0 25.55 100.00 1.09e-07 Pair 17 2hhbb 1dtwA 0.16 13.80 146 382 395 114 37 0 2.70 100.00 1.00000 LOW SCORE Pair 18 2hhbb 2mm1 8.19 1.35 146 153 150 140 139 0 25.18 100.00 4.72e-07 Pair 19 1lh1 2lhb 5.73 2.06 153 149 155 112 100 0 16.00 100.00 0.01929 Pair 20 1lh1 4mbn 6.67 2.33 153 153 156 132 129 0 17.83 100.00 0.00237 Pair 21 1lh1 1dtwA 0.15 13.37 153 382 396 121 26 0 7.69 100.00 1.00000 LOW SCORE Pair 22 1lh1 2mm1 6.67 2.26 153 153 155 130 128 0 16.41 100.00 0.00782 Pair 23 2lhb 4mbn 7.14 1.23 149 153 149 130 128 0 25.78 100.00 1.93e-07 Pair 24 2lhb 1dtwA 0.16 12.63 149 382 288 121 29 0 6.90 100.00 1.00000 LOW SCORE Pair 25 2lhb 2mm1 7.05 1.30 149 153 149 131 129 0 22.48 100.00 4.14e-05 Pair 26 4mbn 1dtwA 0.16 14.54 153 382 365 127 31 0 3.23 100.00 1.00000 LOW SCORE Pair 27 4mbn 2mm1 9.58 0.49 153 153 153 152 152 0 86.18 100.00 0.00e+00 Pair 28 1dtwA 2mm1 0.18 13.26 382 153 387 128 41 0 7.32 100.00 1.00000 LOW SCORE Reading in matrix file globin.mat... Doing cluster analysis... Cluster: 1 ( 4mbn & 2mm1 ) Sc 9.58 RMS 0.49 Len 153 nfit 152 See file globin.1 for the alignment and transformations Cluster: 2 ( 2hhba & 2hhbb ) Sc 8.19 RMS 1.40 Len 147 nfit 133 See file globin.2 for the alignment and transformations Cluster: 3 ( 4mbn 2mm1 & 2hhba 2hhbb ) Sc 9.00 RMS 1.31 Len 150 nfit 136 See file globin.3 for the alignment and transformations Cluster: 4 ( 1ecd & 4mbn 2mm1 2hhba 2hhbb ) Sc 8.42 RMS 1.78 Len 148 nfit 125 See file globin.4 for the alignment and transformations Cluster: 5 ( 2lhb & 1ecd 4mbn 2mm1 2hhba 2hhbb ) Sc 8.34 RMS 1.11 Len 154 nfit 116 See file globin.5 for the alignment and transformations Cluster: 6 ( 1lh1 & 2lhb 1ecd 4mbn 2mm1 2hhba 2hhbb ) Sc 7.78 RMS 2.44 Len 159 nfit 115 See file globin.6 for the alignment and transformations Cluster: 7 ( 1dtwA & 1lh1 2lhb 1ecd 4mbn 2mm1 2hhba 2hhbb ) Sc 1.59 RMS 3.71 Len 318 nfit 42 LOW SCORE See file globin.7 for the alignment and transformations