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 1av7 1pek 6.77 1.28 273 279 296 217 212 0 39.62 100.00 0.00e+00 Pair 2 1av7 1scj 9.52 0.50 273 275 275 271 270 0 69.63 100.00 0.00e+00 Pair 3 1av7 probl1amb3 8.11 0.38 273 319 288 263 261 0 47.51 100.00 0.00e+00 Pair 4 1av7 probl1amb3_2 8.09 0.49 273 319 288 264 261 0 47.51 100.00 0.00e+00 Pair 5 1pek 1scj 6.87 1.16 279 275 297 218 210 0 44.29 100.00 0.00e+00 Pair 6 1pek probl1amb3 6.17 1.22 279 319 315 222 212 0 36.79 100.00 0.00e+00 Pair 7 1pek probl1amb3_2 6.10 1.22 279 319 316 221 215 0 36.74 100.00 0.00e+00 Pair 8 1scj probl1amb3 8.25 0.36 275 319 288 269 268 0 46.64 100.00 0.00e+00 Pair 9 1scj probl1amb3_2 8.22 0.40 275 319 288 268 266 0 46.99 100.00 0.00e+00 Pair 10 probl1amb3 probl1amb3_2 8.08 0.36 319 319 310 283 282 0 100.00 100.00 0.00e+00 Reading in matrix file probl1amb3.mat... Doing cluster analysis... Cluster: 1 ( 1av7 & 1scj ) Sc 9.51 RMS 0.51 Len 275 nfit 270 See file probl1amb3.1 for the alignment and transformations Cluster: 2 (probl1amb3 & 1av7 1scj ) Sc 8.86 RMS 0.40 Len 288 nfit 266 See file probl1amb3.2 for the alignment and transformations Cluster: 3 (probl1amb3_2 & probl1amb3 1av7 1scj ) Sc 8.37 RMS 0.37 Len 309 nfit 268 See file probl1amb3.3 for the alignment and transformations Cluster: 4 ( 1pek & probl1amb3_2 probl1amb3 1av7 1scj ) Sc 7.65 RMS 1.29 Len 317 nfit 220 See file probl1amb3.4 for the alignment and transformations