# List of top-scoring protein chains for t06-100-30-bys-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1ihgA 370 2.37e-40 2cpl a.118.8.1,b.62.1.1 62380,62381 1dywA 173 3.94e-40 2cpl b.62.1.1 27505 1yndA 165 4.48e-40 2bitX 165 5.35e-40 1zcxA 178 1.25e-39 1xo7A 166 1.67e-39 2cfeA 162 5.29e-39 2rmcA 182 6.55e-39 2cpl b.62.1.1 27491 1h0pA 182 6.83e-39 b.62.1.1 76450 1vdnA 162 1.70e-38 2a2nA 176 2.02e-36 1zkcA 197 1.12e-35 2fu0A 160 1.83e-34 1v9tA 166 1.30e-30 b.62.1.1 108451 1lopA 164 5.40e-30 2cpl b.62.1.1 27510 1zx8A 136 4.80e-03 2cy7A 396 5.84e-01 2b8mA 117 6.38e-01 1dqiA 124 8.79e-01 1do6A b.1.13.1 22357 1vr0A 247 1.63e+00 1mxiA 160 1.64e+00 c.116.1.1 79646 1dz3A 130 1.73e+00 1dz3A c.23.1.1 31105 1vyrA 364 1.80e+00 c.1.4.1 108906 2ex4A 241 1.97e+00 1yymG 313 2.15e+00 2as9A 210 2.22e+00 2bf6A 449 2.27e+00 2azpA 318 2.43e+00 3sil 379 2.85e+00 3sil b.68.1.1 27542 1h7sA 365 3.46e+00 d.14.1.3,d.122.1.2 65705,65706 1q1oA 98 3.74e+00 d.15.2.2 95596 2a46A 238 3.80e+00 1icpA 376 4.41e+00 1oyc c.1.4.1 62270 1o26A 232 4.98e+00 d.207.1.1 86566 1t64A 377 6.52e+00 c.42.1.2 106543 1uok 558 6.67e+00 1uok b.71.1.1,c.1.8.1 27801,28788 1dl5A 317 6.83e+00 1dl5A c.66.1.7,d.197.1.1 64720,64721 1i6aA 219 7.51e+00 c.94.1.1 61827 1qwyA 291 7.65e+00 b.84.3.2 96509 1pa1A 310 7.65e+00 c.45.1.2 94404 2f71A 298 7.89e+00 1dzlA 505 7.93e+00 1dzlA b.121.6.1 23586 1cliA 345 7.96e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1xhnA 184 8.19e+00 1lam 484 8.44e+00 1lam c.50.1.1,c.56.5.3 33166,33829 1xxqA 161 8.75e+00 1oflA 481 8.75e+00 b.80.1.4 103934 1xewX 182 9.72e+00 2fauA 341 9.97e+00 1s8nA 205 1.05e+01 c.23.1.1 105374 2bibA 547 1.05e+01 1z41A 338 1.06e+01 1c96A 753 1.09e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1qlmA 316 1.14e+01 1qlmA d.147.1.1 41765 1rypK 198 1.14e+01 d.153.1.4 41879 1bed 181 1.14e+01 1fvkA c.47.1.13 90330 1wi1A 126 1.17e+01 1x9uA 116 1.20e+01 1fsgA 233 1.25e+01 1qk3A c.61.1.1 34029 1wriA 93 1.38e+01 1u5uA 374 1.49e+01 1svpA 161 1.49e+01 1svpA b.47.1.3 26384 1u0sY 118 1.56e+01 c.23.1.1 107566 1zpvA 91 1.57e+01 2f9nA 245 1.59e+01 1fjgE 162 1.61e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1tmy 120 1.63e+01 1dbwA c.23.1.1 31083 1v9sA 208 1.67e+01 1yoaA 159 1.70e+01 1t2bA 397 1.77e+01 1gj7B 253 1.82e+01 1ocyA 198 1.88e+01 d.231.1.1 86817 1us5A 314 1.88e+01 c.94.1.1 99856 1dg9A 157 1.88e+01 1dg9A c.44.1.1 32637 2bm5A 186 1.90e+01 1ve2A 235 1.92e+01 1thfD 253 1.93e+01 1thfD c.1.2.1 28535 2bdrA 175 2.02e+01 1vfjA 116 2.04e+01 1ekgA 127 2.05e+01 1dlxA d.82.2.1 40021 2cbzA 237 2.08e+01 1ufbA 127 2.12e+01 a.24.16.3 99331 2fomB 185 2.13e+01 1pjcA 361 2.13e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1vkdA 338 2.14e+01 b.67.2.4 108644 1ux6A 350 2.19e+01 b.29.1.16,g.75.1.1 100145,100146 1wisA 124 2.25e+01 1wvqA 167 2.27e+01 1pfo 500 2.27e+01 1pfo f.9.1.1 43826 1fj2A 232 2.27e+01 1auoA c.69.1.14 34720 1jtdB 273 2.29e+01 b.69.5.2 67265 1lq9A 112 2.29e+01 d.58.4.3 78129 1cp2A 269 2.32e+01 1cp2A c.37.1.10 32269 1vlaA 150 2.34e+01 d.227.1.2 108735 2cqsA 842 2.37e+01 1q45A 391 2.37e+01 c.1.4.1 95780 1vqoD 177 2.38e+01 1u11A 182 2.39e+01 c.23.8.1 107576 2bm3A 166 2.43e+01 1oa4A 222 2.45e+01 b.29.1.11 86731 2fbwA 621 2.66e+01 1xwwA 157 2.72e+01 1op4A 159 2.72e+01 b.1.6.1 93397 1o7iA 119 2.83e+01 b.40.4.3 86642 4ubpC 570 2.84e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1oxxK 353 2.85e+01 b.40.6.3,c.37.1.12 93715,93716 1xwmA 217 2.86e+01 1gteA 1025 2.88e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2aexA 346 2.90e+01 1vi2A 300 2.97e+01 c.2.1.7,c.58.1.5 100726,100727 1g8sA 230 2.99e+01 c.66.1.3 90507 2bdeA 470 3.04e+01 1rx0A 393 3.06e+01 a.29.3.1,e.6.1.1 98007,98008 1a0tP 413 3.16e+01 1a0tP f.4.3.2 43794 1a8s 273 3.20e+01 1brt c.69.1.12 34710 1xmpA 170 3.34e+01 1lqtA 456 3.40e+01 c.3.1.1,c.4.1.1 74198,74199 1ezwA 349 3.42e+01 1ezwA c.1.16.3 29558 2c6cA 707 3.47e+01 2fdiA 211 3.48e+01 1i3jA 116 3.48e+01 1i3jA d.285.1.1 61594 1n0lA 224 3.53e+01 b.1.11.1,b.7.2.1 79744,79745 1o4vA 183 3.56e+01 c.23.8.1 86628 1rfs 139 3.69e+01 1rfs b.33.1.1 24434 1thqA 170 3.69e+01 f.4.1.2 106920 2b0aA 186 3.76e+01 1xvxA 312 3.77e+01 1zm8A 259 3.78e+01 1sr4B 261 3.80e+01 d.151.1.1 105949 830cA 168 3.86e+01 1ck7A d.92.1.11 40400 1z4vA 532 3.93e+01 1lf7A 182 3.94e+01 b.60.1.1 73878 1yleA 342 3.95e+01 1e1oA 504 4.07e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 2c12A 439 4.07e+01 2b4wA 315 4.08e+01 1w2wB 191 4.12e+01 1o04A 500 4.14e+01 c.82.1.1 86508 1t5rA 284 4.17e+01 f.6.1.1 106465 1h30A 422 4.22e+01 b.29.1.4,b.29.1.4 76604,76605 1wkbA 810 4.22e+01 1w5fA 353 4.23e+01 1d3gA 367 4.27e+01 1d3gA c.1.4.1 28600 1gotG 73 4.30e+01 1tbgE a.137.3.1 19629 1xubA 298 4.33e+01 1sgwA 214 4.37e+01 c.37.1.12 105541 2bukA 196 4.40e+01 1vzqH 250 4.45e+01 1lehA 364 4.48e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1zd7A 159 4.58e+01 2bvfA 459 4.63e+01 2scpA 174 4.65e+01 2scpA a.39.1.5 17256 1ksiA 642 4.69e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1q0eA 152 4.72e+01 b.1.8.1 95504 1xknA 355 4.72e+01 1n82A 331 4.76e+01 c.1.8.3 91703 1yzxA 226 4.82e+01 1wf3A 301 4.95e+01 1hy7A 173 5.01e+01 d.92.1.11 65957 1vloA 381 5.07e+01 b.44.2.1,d.250.1.1 108838,108839 1n40A 396 5.08e+01 a.104.1.1 79977 1u2zA 433 5.16e+01 c.66.1.31 107626 1uwsA 489 5.17e+01 c.1.8.4 108073 1dgnA 89 5.33e+01 1dgnA a.77.1.3 18436 1vqvA 306 5.34e+01 1byrA 155 5.34e+01 1byrA d.136.1.1 41450 1elvA 333 5.35e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 2ae5B 528 5.39e+01 2fneA 117 5.44e+01 1yi9A 309 5.47e+01 2b49A 287 5.54e+01 1zroA 602 5.55e+01 1khbA 625 5.57e+01 c.91.1.1,c.109.1.1 68606,68607 1yviA 149 5.59e+01 1z5bA 469 5.62e+01 1zs9A 261 5.66e+01 1b77A 228 5.69e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1pswA 348 5.70e+01 c.87.1.7 88287 1vjvA 415 5.73e+01 d.3.1.9 108632 1z4rA 168 5.83e+01 1jl3A 139 5.83e+01 c.44.1.1 66826 1jbeA 128 5.87e+01 3chy c.23.1.1 62845 1a70 97 5.89e+01 1awd d.15.4.1 37678 1xocA 520 5.98e+01 1wchA 315 5.99e+01 1s2oA 244 5.99e+01 1p9yA 121 6.04e+01 d.241.2.1 94402 1gmuA 143 6.08e+01 b.107.1.1,d.58.38.1 65335,65336 2cokA 113 6.13e+01 1qwgA 251 6.15e+01 c.1.27.1 96473 1mvoA 136 6.15e+01 c.23.1.1 79513 1dekA 241 6.21e+01 1dekA c.37.1.1 31842 1ys7A 233 6.21e+01 2gwgA 350 6.31e+01 1ejxC 567 6.32e+01 b.92.1.1,c.1.9.2 83184,83185 1mveA 243 6.35e+01 b.29.1.2 85140 1j71A 334 6.37e+01 1eagA b.50.1.2 62669 1v6sA 390 6.37e+01 c.86.1.1 100424 1i3cA 149 6.40e+01 c.23.1.1 71112 1r3sA 367 6.46e+01 c.1.22.1 96963 1rzhH 260 6.51e+01 b.41.1.1,f.23.10.1 98162,98163 1y7mA 164 6.60e+01 1thx 115 6.63e+01 1thx c.47.1.1 32732 1llnA 262 6.67e+01 d.165.1.1 84625 1krs 120 6.74e+01 1krs b.40.4.1 25256 1k87A 669 6.75e+01 a.176.1.1,c.1.23.2 77286,77287 1sqkB 25 6.76e+01 j.86.1.1 105924 1q5fA 156 6.79e+01 d.24.1.1 104536 1vkpA 383 6.79e+01 d.126.1.6 108686 1zd9A 188 6.80e+01 1dysA 348 6.84e+01 1bvwA c.6.1.1 30669 2bycA 137 6.86e+01 1v0wA 506 6.88e+01 d.136.1.2,d.136.1.2 108220,108221 2fpqA 444 6.90e+01 1yw3A 208 6.94e+01 1rlmA 271 6.97e+01 2aenA 164 6.97e+01 1fxkB 109 7.01e+01 1fxkA a.2.5.1 15704 1uzeA 589 7.01e+01 d.92.1.5 108174 2g0cA 76 7.01e+01 2g3aA 152 7.02e+01 1m40A 263 7.07e+01 e.3.1.1 74437 1ydxA 406 7.09e+01 1xzwA 426 7.11e+01 1vkbA 161 7.22e+01 d.269.1.1 108643 1lvwA 295 7.25e+01 c.68.1.6 84723 1pcfA 66 7.35e+01 1pcfA d.18.1.1 38142 1h8dH 260 7.35e+01 5ptp 1yd9A 193 7.35e+01 1lv7A 257 7.39e+01 c.37.1.20 78232 1v7wA 807 7.46e+01 a.102.1.4,b.30.5.3 108411,108412 1ve4A 206 7.49e+01 1epxA 370 7.50e+01 1fbaA c.1.10.1 29150 1k66A 149 7.61e+01 c.23.1.1 90941 2a9gA 418 7.62e+01 1ji6A 589 7.64e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1jb9A 316 7.66e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1zoiA 276 7.73e+01 1xxaA 78 7.78e+01 1xxaA d.74.2.1 39700 1amm 174 7.79e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1mqoA 227 7.80e+01 d.157.1.1 103846 1mdbA 539 7.80e+01 e.23.1.1 79008 1wuiL 534 7.86e+01 1guiA 155 7.89e+01 b.18.1.14 76351 1xe1A 116 7.92e+01 b.43.3.1 109571 1t3qB 788 8.00e+01 d.41.1.1,d.133.1.1 106369,106370 2cmuA 342 8.01e+01 1pguA 615 8.09e+01 b.69.4.1,b.69.4.1 88069,88070 4dpvZ 584 8.24e+01 2cas b.121.5.2 23377 1ogwA 76 8.29e+01 d.15.1.1 87001 2fq9A 225 8.32e+01 2d42A 249 8.40e+01 1ewnA 219 8.44e+01 1bnkA b.46.1.2 25762 1zirA 173 8.50e+01 1qcsA 211 8.53e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 2gshA 414 8.55e+01 1puoA 170 8.61e+01 a.101.1.1,a.101.1.1 95134,95135 1w96A 554 8.62e+01 1z5hA 780 8.65e+01 1qe3A 489 8.67e+01 2bce c.69.1.1 34630 2atpB 115 8.69e+01 1f20A 435 8.70e+01 b.43.4.1,c.25.1.4 64932,64933 1gd0A 122 8.76e+01 1dptA d.80.1.3 39834 1j7gA 144 8.79e+01 c.110.1.1 84130 1isiA 265 8.80e+01 e.4.1.1 71394 1m8uA 173 8.95e+01 b.11.1.1,b.11.1.1 91233,91234