# List of top-scoring protein chains for t06-100-30-str2-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 1qynA 153 1.11e-01 d.33.1.1 96597 2ggcA 263 3.37e-01 1xnzA 264 5.03e-01 1u6zA 513 5.64e-01 1vjpA 394 9.57e-01 c.2.1.3,d.81.1.3 100828,100829 3pmgA 561 1.15e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1fl1A 230 1.26e+00 1at3A b.57.1.1 27023 1k3xA 262 1.27e+00 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 1ttuA 477 1.56e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 1erjA 393 1.59e+00 1erjA b.69.4.1 27660 1o0xA 262 1.78e+00 d.127.1.1 80755 1mugA 168 1.82e+00 1mugA c.18.1.2 31030 1j93A 353 1.97e+00 c.1.22.1 66454 1mkmA 249 2.08e+00 a.4.5.33,d.110.2.2 79242,79243 1yvoA 172 2.14e+00 2bmoB 194 2.29e+00 1ukfA 188 2.49e+00 d.3.1.10 99488 1z54A 132 2.79e+00 1oshA 232 2.85e+00 a.123.1.1 93496 2ltnA 181 3.21e+00 1led b.29.1.1 24024 1ijbA 202 3.52e+00 c.62.1.1 71229 1xyiA 66 3.94e+00 1fit 147 4.12e+00 1fit d.13.1.1 37499 1i0rA 169 4.21e+00 1i0rA b.45.1.2 61489 1ts9A 102 4.71e+00 1qmeA 702 4.76e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1bh9A 45 5.07e+00 1bh9A a.22.1.3 16483 1dqiA 124 5.14e+00 1do6A b.1.13.1 22357 1ze3C 205 5.25e+00 1qxyA 252 5.42e+00 d.127.1.1 96565 1f2tA 149 5.83e+00 1f2tA c.37.1.12 32373 1wywA 230 6.32e+00 2b1xB 172 6.43e+00 1vs0A 310 6.71e+00 1pv5A 264 7.63e+00 d.251.1.1 95150 2aneA 125 8.24e+00 1zndA 174 8.37e+00 2gf6A 135 8.59e+00 1vq0A 302 8.73e+00 2h4uA 145 8.98e+00 1i39A 225 9.20e+00 1ekeA c.55.3.1 61585 1uekA 275 9.20e+00 d.14.1.5,d.58.26.5 88483,88484 1xauA 122 9.35e+00 1zpyA 95 9.35e+00 1qy1A 174 9.35e+00 b.60.1.1 96568 1h6tA 291 9.45e+00 b.1.18.15,c.10.2.1 65686,65687 1h6lA 353 9.50e+00 b.68.3.1 60687 1umgA 362 9.56e+00 d.280.1.1 107956 1ftrA 296 1.02e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1mkyA 439 1.03e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1hyeA 313 1.03e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1wd3A 482 1.06e+01 b.29.1.21,b.42.8.1 109233,109234 1sr9A 644 1.07e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1m98A 317 1.09e+01 a.175.1.1,d.17.4.6 78866,78867 1cqqA 180 1.10e+01 1cqqA b.47.1.4 26422 1j1qA 261 1.13e+01 d.165.1.1 90768 1ud9A 245 1.20e+01 d.131.1.2,d.131.1.2 107768,107769 1snzA 344 1.31e+01 b.30.5.4 98930 1t3qC 288 1.36e+01 d.87.2.1,d.145.1.3 106371,106372 1uhgA 385 1.39e+01 e.1.1.1 88491 1w6uA 302 1.43e+01 2d37A 176 1.43e+01 1uyjA 296 1.45e+01 f.8.1.2 108143 1fcyA 236 1.50e+01 2lbd a.123.1.1 19282 1q8iA 783 1.54e+01 c.55.3.5,e.8.1.1 96208,96209 1bdmA 327 1.59e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 1li4A 432 1.67e+01 c.2.1.4,c.23.12.3 84616,84617 1kjlA 146 1.72e+01 1unqA 125 1.73e+01 b.55.1.1 107968 2bhvA 246 1.74e+01 1e8gA 560 1.74e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1avbA 226 1.78e+01 1led b.29.1.1 24158 1uujA 88 1.78e+01 a.221.1.1 108046 1dykA 394 1.81e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1gpqA 135 1.88e+01 d.233.1.1 83295 1sdjA 310 1.94e+01 d.21.1.2,d.21.1.2 98807,98808 1lshA 1056 1.94e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1z5yE 149 1.97e+01 1vp4A 425 2.01e+01 2b3hA 329 2.05e+01 1c8cA 64 2.09e+01 1azpA b.34.13.1 59084 2agaA 190 2.14e+01 1dowA 205 2.15e+01 1dovA a.24.9.1 16626 1z94A 147 2.16e+01 2fp4B 395 2.20e+01 1msk 331 2.21e+01 1msk d.173.1.1 42495 1sauA 115 2.22e+01 1vl4A 447 2.23e+01 d.283.1.1 108718 2bskB 90 2.32e+01 1xkyA 301 2.36e+01 1stzA 338 2.40e+01 a.4.5.51,d.110.2.3 106009,106010 1x13A 401 2.53e+01 1hp1A 516 2.56e+01 d.114.1.1,d.159.1.2 70976,70977 1cs0A 1073 2.58e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1ygaA 342 2.62e+01 1mw7A 240 2.64e+01 e.39.1.1 79557 1w2xA 758 2.67e+01 c.14.1.4,c.14.1.4 109134,109135 1e5pA 151 2.75e+01 1bj7 b.60.1.1 59272 1mgtA 174 2.80e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 2gx9A 129 2.83e+01 2ag4A 164 2.87e+01 1dwnA 127 2.90e+01 1dwnA d.85.1.1 40141 1no7A 604 2.94e+01 e.48.1.1 92016 1qyaA 307 3.01e+01 d.21.1.2,d.21.1.2 104653,104654 1r6wA 322 3.03e+01 c.1.11.2,d.54.1.1 97165,97166 2bwvA 440 3.06e+01 2b8eA 273 3.09e+01 2bdvA 231 3.21e+01 1k2eA 156 3.29e+01 d.113.1.1 72010 1xfsA 178 3.30e+01 d.129.3.5 109589 1xl7A 612 3.31e+01 2bkfA 87 3.41e+01 1y14B 171 3.41e+01 2cwzA 141 3.42e+01 1gtmA 419 3.46e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2d9rA 104 3.46e+01 2gnqA 336 3.53e+01 1uliB 187 3.57e+01 d.17.4.4 107923 1zq9A 285 3.61e+01 1kopA 223 3.65e+01 2cba b.74.1.1 27966 1v7rA 186 3.67e+01 c.51.4.1 100482 2a15A 139 3.68e+01 1y96A 86 3.72e+01 1at3A 247 3.75e+01 1at3A b.57.1.1 27021 1x6vA 630 3.75e+01 1xgsA 295 3.77e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1vh5A 148 3.78e+01 d.38.1.5 100642 1mnnA 340 3.84e+01 b.2.5.7 79324 1rm6B 324 3.84e+01 1qwrA 319 3.84e+01 b.82.1.3 96491 1guqA 348 3.95e+01 1guqA d.13.1.2,d.13.1.2 37522,37523 1s0yA 76 3.95e+01 d.80.1.1 98314 1j7gA 144 3.96e+01 c.110.1.1 84130 1dkzA 219 4.00e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1vlrA 350 4.02e+01 d.13.1.3,d.246.1.1 108860,108861 2b1xA 470 4.04e+01 1i7nA 309 4.04e+01 c.30.1.5,d.142.1.3 83681,83682 1sviA 195 4.05e+01 c.37.1.8 106048 1oj4A 283 4.05e+01 d.14.1.5,d.58.26.5 93083,93084 1wtaA 275 4.08e+01 1dpjA 329 4.14e+01 1smrA b.50.1.2 26828 1lurA 339 4.15e+01 b.30.5.4 84717 1vjeA 166 4.18e+01 d.185.1.2 100807 2g38B 198 4.19e+01 1r8mE 203 4.21e+01 a.118.3.1 97242 2g30A 258 4.35e+01 1pjhA 280 4.40e+01 c.14.1.3 94761 1o5kA 306 4.40e+01 c.1.10.1 92504 1wucA 250 4.44e+01 1amuA 563 4.47e+01 1amuA e.23.1.1 43351 1t01B 24 4.53e+01 1ym5A 300 4.54e+01 1o6vA 466 4.54e+01 b.1.18.15,c.10.2.1 81099,81100 1o69A 394 4.55e+01 c.67.1.4 92560 2d8aA 348 4.56e+01 1ejeA 192 4.56e+01 1ejeA b.45.1.2 25757 1xuvA 178 4.58e+01 1fiqB 350 4.65e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1go3E 187 4.66e+01 b.40.4.5,d.230.1.1 83054,83055 1u1iA 392 4.67e+01 c.2.1.3,d.81.1.3 107582,107583 1a8d 452 4.73e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1dqpA 230 4.75e+01 1dqnA c.61.1.1 34069 1fm4A 159 4.78e+01 1bv1 d.129.3.1 76186 1yumA 242 4.81e+01 1u6rA 380 4.89e+01 1h09A 338 4.90e+01 b.109.1.1,c.1.8.8 83420,83421 1el5A 389 4.93e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 2h58A 330 4.97e+01 1y10A 407 5.11e+01 1e42A 258 5.13e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1acf 125 5.15e+01 3nul d.110.1.1 40882 2a3qA 170 5.15e+01 2gz4A 207 5.31e+01 1z70X 311 5.36e+01 1l5wA 796 5.40e+01 c.87.1.4 73605 1qf5A 431 5.42e+01 1adeA c.37.1.10 32212 2c3vA 102 5.44e+01 1q5hA 147 5.45e+01 b.85.4.1 95893 1ew6A 137 5.45e+01 1ewaA a.1.1.2 15637 2be3A 226 5.46e+01 1xs0A 136 5.52e+01 1vl2A 421 5.62e+01 c.26.2.1,d.210.1.1 108708,108709 2fhzB 108 5.63e+01 1r31A 428 5.66e+01 d.58.20.1,d.179.1.1 96897,96898 1zkiA 133 5.71e+01 1n62C 288 5.72e+01 d.87.2.1,d.145.1.3 80094,80095 1voqa 90 5.73e+01 1wrvA 308 5.75e+01 1jjtA 228 5.76e+01 1a7tA d.157.1.1 63139 1vqoE 178 5.76e+01 1hw5A 210 5.77e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2gi3A 476 5.80e+01 2cxxA 190 5.90e+01 1yqzA 438 5.98e+01 1g38A 393 6.03e+01 2admA c.66.1.27 60235 1qwiA 143 6.03e+01 d.227.1.1 96474 2d83A 363 6.04e+01 1s69A 124 6.04e+01 a.1.1.1 105305 1gyxA 76 6.09e+01 d.80.1.1 76387 1q6zA 528 6.24e+01 2fug7 129 6.24e+01 1dytA 133 6.25e+01 7rsa d.5.1.1 37288 1jb7B 260 6.31e+01 1otcB b.40.4.3 62839 1bj7 156 6.42e+01 1bj7 b.60.1.1 27113 2ethA 154 6.43e+01 1zy9A 564 6.43e+01 1p9eA 331 6.45e+01 d.157.1.5 104088 1w07A 659 6.47e+01 1gpr 162 6.50e+01 1gpr b.84.3.1 28267 3psg 370 6.70e+01 1smrA b.50.1.2 26841 1v97A 1332 6.74e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 1mvcA 240 6.74e+01 a.123.1.1 79499 1xj4A 119 6.76e+01 1r2zA 274 6.79e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1hjrA 158 6.84e+01 1hjrA c.55.3.6 33727 1s5uA 138 6.85e+01 d.38.1.1 98573 1wudA 89 6.86e+01 1ofzA 312 6.87e+01 b.68.8.1 86978 1oo2A 119 6.94e+01 b.3.4.1 93372 1gtkA 313 7.00e+01 c.94.1.1,d.50.2.1 76346,76347 1mwmA 320 7.00e+01 c.55.1.1,c.55.1.1 79580,79581 1uwwA 191 7.09e+01 b.18.1.23 108079 1wpoA 256 7.10e+01 1lay b.57.1.1 27012 1ne9A 335 7.12e+01 d.108.1.4,d.108.1.4 91839,91840 1x31D 99 7.13e+01 1w6sA 599 7.18e+01 1vqoY 241 7.18e+01 1uyrA 737 7.22e+01 c.14.1.4,c.14.1.4 100188,100189 1mkaA 171 7.24e+01 1mkaA d.38.1.2 38543 1o7nB 194 7.28e+01 d.17.4.4 81164 1qh4A 380 7.33e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 2bh8A 101 7.36e+01 2gviA 204 7.38e+01 1tu6A 215 7.45e+01 d.3.1.1 107318 1tvfA 369 7.50e+01 b.105.1.2,e.3.1.1 107358,107359 1qahA 136 7.50e+01 d.79.1.1 96338 1pc3A 350 7.51e+01 c.94.1.1 104102 1kq1A 77 7.56e+01 b.38.1.2 72848 2gfsA 372 7.63e+01 1w4tA 299 7.64e+01 1ud0A 113 7.78e+01 a.8.4.1 99198 1yllA 200 7.78e+01 1st9A 143 7.79e+01 c.47.1.10 98987 1za7A 165 7.82e+01 1gh9A 71 7.82e+01 1gh9A g.41.6.1 45266 1f5mA 180 7.82e+01 1f5mB d.110.2.1 40895 1sq5A 308 7.97e+01 c.37.1.6 105882 1ohzB 60 7.98e+01 a.139.1.1 93044 1kveA 63 8.02e+01 1kveA d.70.1.2 39590 1g0sA 209 8.03e+01 1g0sA d.113.1.1 60187 1v5mA 136 8.05e+01 b.55.1.1 108379 2b5gA 171 8.06e+01 1ee8A 266 8.10e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2givA 295 8.15e+01 2aibA 98 8.15e+01 2ccyA 128 8.15e+01 2ccyA a.24.3.2 16544 1wwzA 159 8.21e+01 1yqtA 538 8.22e+01 1b56 135 8.34e+01 1hmt b.60.1.2 27183 1vhcA 224 8.38e+01 c.1.10.1 100661 1x7yA 400 8.39e+01 1ri5A 298 8.39e+01 c.66.1.34 97502 2as0A 396 8.39e+01 1m4jA 142 8.40e+01 d.109.1.2 78602 1jp4A 308 8.42e+01 1jp4A e.7.1.1 63223 1qy6A 274 8.43e+01 b.47.1.1 96574 1o65A 246 8.43e+01 b.58.1.2 92544 2bsjA 133 8.45e+01 1xk4C 113 8.50e+01 1qntA 176 8.51e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 1gotB 340 8.55e+01 1tbgA b.69.4.1 27648 1cd9B 215 8.56e+01 1cto b.1.2.1,b.1.2.1 22041,22042 2bf9A 36 8.62e+01 1rp3B 88 8.62e+01 a.137.11.1 97681 1p80A 753 8.66e+01 c.23.16.3,e.5.1.1 94337,94338 1j1yA 136 8.68e+01 d.38.1.5 90776 1ypvA 313 8.69e+01 2f51A 118 8.70e+01 1zuhA 168 8.70e+01 2bjbA 462 8.75e+01 1yv4A 104 8.79e+01 1vheA 373 8.86e+01 b.49.3.1,c.56.5.4 100669,100670 1r8sE 203 8.87e+01 a.118.3.1 97248 1keaA 221 8.89e+01 a.96.1.2 68491 1jb3A 131 8.92e+01 1jc7A b.40.3.2 62833 1ml4A 308 8.94e+01 c.78.1.1,c.78.1.1 79255,79256 1ysqA 193 8.98e+01