# List of top-scoring protein chains for t06-80-60-80-str2+near-backbone-11-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 1o0iA 138 6.18e-15 d.38.1.5 86532 1vh5A 148 1.32e-14 d.38.1.5 100642 1zkiA 133 3.23e-14 1j1yA 136 2.84e-13 d.38.1.5 90776 1wluA 136 2.89e-13 2fs2A 151 3.15e-13 1q4uA 151 1.43e-12 d.38.1.5 95828 1z6bA 154 1.75e-12 1yocA 147 5.42e-12 1ixlA 131 1.55e-11 d.38.1.5 90717 1yliA 153 3.93e-11 1vpmA 169 1.35e-10 1t82A 155 1.46e-10 d.38.1.5 106639 1s5uA 138 1.47e-10 d.38.1.1 98573 1sh8A 154 1.66e-10 d.38.1.5 105549 2cyeA 133 6.18e-10 2gvhA 288 4.72e-09 2essA 248 1.20e-08 2gf6A 135 1.34e-08 1z54A 132 1.69e-08 1c8uA 285 6.42e-08 1c8uA d.38.1.3,d.38.1.3 38547,38548 2cwzA 141 1.07e-07 1mkaA 171 1.10e-07 1mkaA d.38.1.2 38543 2b3nA 159 4.01e-07 2aliA 158 6.43e-07 1lo7A 141 1.54e-06 d.38.1.1 74144 1tbuA 118 3.82e-05 2bi0A 337 6.24e-05 1iq6A 134 1.24e-04 d.38.1.4 76755 1vrmA 325 1.52e-01 1jnyA 435 3.68e-01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1yqzA 438 3.70e-01 1wmdA 434 4.44e-01 b.18.1.20,c.41.1.1 109408,109409 1f0lA 535 5.93e-01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1pkhA 204 6.57e-01 b.85.4.1 94832 1nrgA 261 6.89e-01 b.45.1.1 80694 1ydwA 362 6.92e-01 2ffsA 157 6.95e-01 1sr8A 298 9.18e-01 e.54.1.1 105959 1te5A 257 9.38e-01 d.153.1.1 106795 1h2kA 349 9.75e-01 b.82.2.6 76572 2g8yA 385 9.99e-01 1sz7A 200 1.09e+00 1fmtA 314 1.19e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 1gqeA 365 1.20e+00 e.38.1.1 70351 1vqvA 306 1.20e+00 1vprA 374 1.23e+00 1sdjA 310 1.40e+00 d.21.1.2,d.21.1.2 98807,98808 1uyjA 296 1.44e+00 f.8.1.2 108143 1oruA 195 1.62e+00 b.58.1.2 93464 1gl4A 285 1.74e+00 d.22.1.2,g.3.11.5 65286,65287 1n9pA 207 1.74e+00 b.1.18.16 80343 1jhfA 202 1.76e+00 a.4.5.2,b.87.1.1 63057,63058 1lshA 1056 1.78e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2gzqA 200 1.80e+00 1pn0A 665 1.82e+00 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1xkrA 206 1.91e+00 1ex2A 189 2.01e+00 1ex2A c.51.4.2 33225 1cbs 137 2.13e+00 1hmt b.60.1.2 27201 1ykdA 398 2.14e+00 2covD 104 2.15e+00 1r45A 204 2.17e+00 2f5tX 233 2.18e+00 1g24A 211 2.28e+00 1g24A d.166.1.1 42270 1ab8A 220 2.38e+00 1azsA d.58.29.1 39414 1vgjA 184 2.39e+00 1pn2A 280 2.43e+00 d.38.1.4,d.38.1.4 94930,94931 1y08A 323 2.47e+00 1r3eA 309 2.52e+00 b.122.1.1,d.265.1.2 96907,96908 1npyA 271 2.74e+00 c.2.1.7,c.58.1.5 85995,85996 2d0oA 610 2.77e+00 1qqp3 220 2.80e+00 1qqp3 1giqA 413 2.83e+00 d.166.1.1,d.166.1.1 76224,76225 1xezA 721 2.94e+00 1gesA 450 3.19e+00 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 2biqA 219 3.20e+00 1w66A 232 3.23e+00 1hq0A 295 3.23e+00 1hzgA d.194.1.1 61122 2c78A 405 3.38e+00 1swxA 209 3.52e+00 a.224.1.1 106075 1wbeA 209 3.79e+00 1f60A 458 3.81e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1t3qC 288 3.81e+00 d.87.2.1,d.145.1.3 106371,106372 1jihA 531 3.82e+00 d.240.1.1,e.8.1.7 90374,90375 2b5hA 200 3.83e+00 2cu6A 103 3.89e+00 2ch9A 131 3.95e+00 1g7nA 131 3.97e+00 b.60.1.2 83274 1u55A 188 3.99e+00 d.278.1.1 107677 2f2hA 773 4.00e+00 1g38A 393 4.02e+00 2admA c.66.1.27 60235 1mdc 133 4.04e+00 1hmt b.60.1.2 27198 1zx5A 300 4.08e+00 1stmA 157 4.23e+00 1stmA b.121.7.1 23281 1fxlA 167 4.23e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1f15A 218 4.26e+00 1f15B b.121.4.5 23320 1u0kA 288 4.29e+00 d.21.1.2,d.21.1.2 107547,107548 1bu8A 452 4.36e+00 1gpl b.12.1.2,c.69.1.19 23647,34795 1vr8A 142 4.41e+00 1vemA 516 4.55e+00 1ejeA 192 4.62e+00 1ejeA b.45.1.2 25757 2axoA 270 4.70e+00 1dun 134 4.71e+00 1dun b.85.4.1 28371 1n62C 288 4.72e+00 d.87.2.1,d.145.1.3 80094,80095 1vgyA 393 4.79e+00 c.56.5.4,d.58.19.1 100620,100621 1ig3A 263 4.88e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1gp6A 356 5.01e+00 b.82.2.1 65441 1xuvA 178 5.07e+00 1t3iA 420 5.16e+00 c.67.1.3 106354 1rj8A 164 5.18e+00 b.22.1.1 97547 1nbwA 607 5.18e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1idpA 172 5.26e+00 d.17.4.1 83685 1to2I 64 5.30e+00 2fyxA 143 5.32e+00 1nkqA 259 5.38e+00 d.177.1.1 103862 2hgsA 474 5.43e+00 2hgsA c.30.1.4,d.142.1.6 31722,75997 1vixA 420 5.66e+00 c.56.5.4,d.58.19.1 100777,100778 1uscA 178 5.80e+00 b.45.1.2 99860 1jhjA 171 5.80e+00 b.18.1.9 66714 1cr5A 189 5.81e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 1b35B 255 5.85e+00 1b35B b.121.4.1 23334 1bdfA 235 5.85e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 1aisA 182 5.86e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1a34A 159 5.86e+00 1a34A b.121.7.1 23286 2bm3A 166 5.97e+00 1vjhA 122 5.97e+00 d.129.3.1 100811 1xgkA 352 5.99e+00 1iq4A 179 6.13e+00 1iq4A d.77.1.1 62641 1gt1A 159 6.25e+00 b.60.1.1 90515 1cvrA 435 6.26e+00 1cvrA b.1.18.12,c.17.1.2 21949,31006 1agjA 242 6.33e+00 1agjA b.47.1.1 25827 2fdiA 211 6.40e+00 1l6pA 125 6.47e+00 b.1.17.1 73626 1kqwA 134 6.55e+00 b.60.1.2 72887 1k6iA 352 6.78e+00 c.2.1.2 68223 1hw7A 255 6.80e+00 1i7fA d.193.1.1 61297 1i1nA 226 6.82e+00 c.66.1.7 71102 1r8eA 278 6.92e+00 a.6.1.3,d.60.1.1 104843,104844 1bkjA 240 7.03e+00 1bkjA d.90.1.1 40243 1je0A 236 7.05e+00 c.56.2.1 66581 1ghpA 258 7.11e+00 1btl e.3.1.1 60520 1n67A 359 7.11e+00 b.2.3.4,b.2.3.4 85354,85355 1ca1 370 7.18e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1dnlA 199 7.20e+00 1ci0A b.45.1.1 25753 1o12A 376 7.23e+00 b.92.1.5,c.1.9.10 80758,80759 7taa 478 7.26e+00 7taa b.71.1.1,c.1.8.1 27778,28765 1f5mA 180 7.40e+00 1f5mB d.110.2.1 40895 1nofA 383 7.48e+00 b.71.1.2,c.1.8.3 92020,92021 1w8kA 447 7.53e+00 1o97C 264 7.66e+00 c.26.2.3 81232 1iznA 286 7.75e+00 e.43.1.1 83847 1xypA 190 7.80e+00 1axkA b.29.1.11 24327 1vb3A 428 7.82e+00 1jtgB 165 7.94e+00 d.98.1.1 67267 1f7uA 607 8.25e+00 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1i0rA 169 8.49e+00 1i0rA b.45.1.2 61489 2ghpA 292 8.57e+00 1wz8A 264 8.67e+00 1vr5A 547 8.68e+00 2et1A 201 8.75e+00 1e8cA 498 8.92e+00 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2d37A 176 8.95e+00 1y9qA 192 8.98e+00 1r64A 481 9.03e+00 b.18.1.20,c.41.1.1 97140,97141 1v74A 107 9.22e+00 d.243.1.1 100442 1efpB 252 9.30e+00 1efvB c.26.2.3 31636 1b77A 228 9.36e+00 1b77A d.131.1.2,d.131.1.2 41362,41363 1svb 395 9.46e+00 1svb b.1.18.4,f.10.1.1 21814,43827 1pvgA 418 9.52e+00 d.14.1.3,d.122.1.2 95161,95162 1hmt 132 9.55e+00 1hmt b.60.1.2 27169 1ysjA 404 9.62e+00 1nnhA 294 9.89e+00 d.104.1.1 92005 1g87A 614 1.01e+01 a.102.1.2,b.2.2.2 83275,83276 1l3kA 196 1.01e+01 d.58.7.1,d.58.7.1 73539,73540 1umwA 237 1.01e+01 d.223.1.2,d.223.1.2 99631,99632 1yoaA 159 1.01e+01 2f5gA 133 1.01e+01 1lla 628 1.02e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1ve4A 206 1.02e+01 1vbiA 344 1.03e+01 2btzA 394 1.04e+01 1gx1A 160 1.06e+01 d.79.5.1 70675 1wteA 272 1.06e+01 1v9nA 360 1.07e+01 1uxy 340 1.08e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1wvhA 134 1.11e+01 2fgeA 995 1.11e+01 1kb9B 352 1.12e+01 d.185.1.1,d.185.1.1 77313,77314 1cseI 71 1.12e+01 1egpA d.40.1.1 38559 1i2sA 282 1.12e+01 e.3.1.1 71104 1n0lA 224 1.13e+01 b.1.11.1,b.7.2.1 79744,79745 1cliA 345 1.14e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1i40A 175 1.14e+01 b.40.5.1 66024 1wosA 364 1.14e+01 b.44.2.1,d.250.1.1 109468,109469 1auk 489 1.15e+01 1auk c.76.1.2 35030 1wcdJ 441 1.15e+01 1se8A 301 1.17e+01 b.40.4.3 105448 1xubA 298 1.19e+01 1yvoA 172 1.20e+01 1augA 215 1.20e+01 1a2zA c.56.4.1 33798 1xmbA 418 1.20e+01 1vhsA 175 1.21e+01 d.108.1.1 100698 1opjA 293 1.21e+01 d.144.1.7 87230 1z9lA 128 1.22e+01 1kshB 152 1.22e+01 b.1.18.8 72915 1l8bA 190 1.25e+01 d.86.1.1 73683 2bpa2 175 1.25e+01 2bpa2 1m40A 263 1.26e+01 e.3.1.1 74437 1j83A 180 1.26e+01 b.18.1.12 66430 1upsA 420 1.27e+01 2aq4A 434 1.29e+01 1fi2A 201 1.30e+01 1fi2A b.82.1.2 59845 1r61A 207 1.32e+01 c.8.8.1 97138 1rv9A 259 1.33e+01 d.194.1.2 105105 1f3lA 321 1.33e+01 1g6q2 c.66.1.6 59630 1qqp2 218 1.35e+01 1qqp2 1qwrA 319 1.35e+01 b.82.1.3 96491 1d5rA 324 1.35e+01 1d5rA b.7.1.1,c.45.1.1 23181,32697 1xkiA 162 1.36e+01 1h3nA 878 1.37e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1vi2A 300 1.37e+01 c.2.1.7,c.58.1.5 100726,100727 1rz2A 254 1.38e+01 b.100.1.1 105130 1gwmA 153 1.38e+01 b.18.1.19 83348 2b20A 403 1.38e+01 1ju3A 583 1.40e+01 b.18.1.13,c.69.1.21 67300,67301 1snzA 344 1.41e+01 b.30.5.4 98930 1ok8A 394 1.42e+01 b.1.18.4,f.10.1.1 93236,93237 1uv4A 293 1.43e+01 1nnxA 109 1.44e+01 b.40.10.1 92013 1vlyA 338 1.45e+01 b.44.2.1,d.250.1.1 108871,108872 1m3kA 392 1.47e+01 c.95.1.1,c.95.1.1 78565,78566 1m4uA 206 1.47e+01 g.17.1.7 78625 2ajtA 500 1.48e+01 2f4mA 295 1.48e+01 2blnA 305 1.48e+01 1wtjA 343 1.49e+01 1rf6A 427 1.50e+01 d.68.2.2 97366 1zkkA 167 1.50e+01 1nxuA 333 1.51e+01 c.122.1.1 86389 2cuaA 135 1.51e+01 2cuaA b.6.1.2 23039 1mml 265 1.51e+01 1mml e.8.1.2 43015 1id0A 152 1.52e+01 d.122.1.3 66111 2amhA 207 1.53e+01 1kv7A 488 1.53e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 2aa4A 289 1.54e+01 1xcrA 316 1.54e+01 2d42A 249 1.60e+01 1xhcA 367 1.60e+01 1t8hA 277 1.64e+01 d.194.1.2 106664 2csoA 127 1.64e+01 2c1lA 358 1.67e+01 1j5uA 136 1.68e+01 d.208.1.1 71584 1o8vA 134 1.70e+01 b.60.1.2 86680 1xs1A 193 1.72e+01 1vd3A 217 1.73e+01 1fm4A 159 1.73e+01 1bv1 d.129.3.1 76186 1wgvA 124 1.73e+01 1cs8A 316 1.76e+01 1cs8A d.3.1.1 37065 1g79A 218 1.78e+01 1ci0A b.45.1.1 25752 1fiqB 350 1.79e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 2bc4A 211 1.79e+01 1qyaA 307 1.79e+01 d.21.1.2,d.21.1.2 104653,104654 1vioA 243 1.80e+01 d.265.1.3,d.66.1.5 100762,100763 2c0hA 353 1.81e+01 1cfb 205 1.84e+01 1cfb b.1.2.1,b.1.2.1 21991,21992 1z94A 147 1.90e+01 1bueA 265 1.93e+01 1btl e.3.1.1 42727 1rc9A 221 1.93e+01 1pm1X 180 1.93e+01 b.60.1.1 104189 1wvqA 167 1.93e+01 1ospO 257 1.96e+01 1ospO b.76.1.1 27971 1t17A 148 1.98e+01 1g2oA 268 1.98e+01 1b8oA c.56.2.1 60228 1cd9B 215 1.99e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1q8rA 120 1.99e+01 d.79.6.1 96225 1nhs 447 2.00e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1rz1A 161 2.01e+01 b.45.1.2 98124 1aym2 261 2.02e+01 1aym2 1wh0A 134 2.03e+01 1nv8A 284 2.04e+01 c.66.1.30 86224 1ir21 140 2.06e+01 1za7A 165 2.07e+01 1f7dA 136 2.07e+01 1dun b.85.4.1 28353 1ct9A 553 2.09e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1m4tA 392 2.11e+01 c.95.1.1,c.95.1.1 78617,78618 1g1tA 157 2.12e+01 d.169.1.1,g.3.11.1 65104,65105 1gvhA 396 2.14e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1v5vA 401 2.14e+01 1squA 155 2.14e+01 d.252.1.1 98971 1od3A 168 2.16e+01 b.18.1.10 86825 1qg3A 195 2.16e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1x4rA 99 2.17e+01 1jd5A 124 2.18e+01 g.52.1.1 66544 1pmmA 466 2.19e+01 c.67.1.6 94901 1e0tA 470 2.24e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1uacH 114 2.24e+01 b.1.1.1 99132 2fokA 579 2.25e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1tcvA 287 2.26e+01 1g7sA 594 2.27e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1gadO 330 2.27e+01 1dssG c.2.1.3,d.81.1.1 29950,39865 2fytA 340 2.28e+01 1m98A 317 2.30e+01 a.175.1.1,d.17.4.6 78866,78867 1j57A 143 2.31e+01 d.221.1.1 77079 1z47A 355 2.31e+01 1l1qA 186 2.35e+01 c.61.1.1 77653 2furA 209 2.39e+01 2aotA 292 2.41e+01 1p5vA 235 2.42e+01 b.1.11.1,b.7.2.1 87812,87813 1hufA 140 2.45e+01 1hufA d.195.1.1 61272 1fm0E 150 2.47e+01 1fmaE d.41.5.1 38629 1mo9A 523 2.49e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1wgzA 510 2.49e+01 1olmA 403 2.49e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1suuA 312 2.50e+01 b.68.10.1 99006 2aexA 346 2.51e+01 2cxcA 144 2.52e+01 1n82A 331 2.52e+01 c.1.8.3 91703 2b4hA 254 2.53e+01 1vf8A 377 2.53e+01 1yspA 181 2.53e+01 2c1iA 431 2.53e+01 1z2lA 423 2.54e+01 2czcA 334 2.54e+01 2cw9A 194 2.56e+01 1vk3A 615 2.57e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1wthD 391 2.57e+01 1y4hA 188 2.58e+01 1ww7A 160 2.59e+01 1uynX 308 2.62e+01 f.4.5.1 100174 1sqgA 429 2.62e+01 a.79.1.3,c.66.1.38 105912,105913 1rurL 217 2.66e+01 b.1.1.1,b.1.1.2 97881,97882 1uy4A 145 2.69e+01 b.18.1.10 108131 1lvoA 302 2.69e+01 b.47.1.4 74284 1j8rA 196 2.69e+01 1j8rA b.2.3.3 62745 1bco 327 2.70e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1pxvA 183 2.70e+01 d.3.1.1 95301 1rkiA 102 2.71e+01 1erjA 393 2.72e+01 1erjA b.69.4.1 27660 2asfA 137 2.75e+01 1tp6A 128 2.76e+01 d.17.4.12 107184 2giyA 191 2.77e+01 1gyhA 318 2.78e+01 b.67.2.1 70757 1rq2A 382 2.78e+01 c.32.1.1,d.79.2.1 105048,105049 2gnxA 365 2.78e+01 1brwA 433 2.78e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 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