# 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 2cw8A 537 1.38e-02 1ev7A 317 9.11e-02 1ev7B c.52.1.9 33315 1t1gA 364 1.87e-01 c.41.1.2 106246 1uliA 460 2.00e-01 b.33.1.2,d.129.3.3 107921,107922 1tdhA 364 3.30e-01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1wkrA 340 4.33e-01 b.50.1.2 109395 1mzyA 333 5.74e-01 b.6.1.3,b.6.1.3 103848,103849 1zvkA 358 6.48e-01 1snrA 341 7.15e-01 b.6.1.3,b.6.1.3 105823,105824 2bwqA 129 7.48e-01 2a72A 146 7.82e-01 2aheA 267 9.97e-01 1el6A 219 1.02e+00 1el6B d.182.1.1 42606 2f9nA 245 1.25e+00 1ga6A 372 1.32e+00 1ga1A c.41.1.2 32556 1o6aA 96 1.64e+00 b.139.1.1 92562 1zkpA 268 1.72e+00 1gj7B 253 1.78e+00 1k3sA 113 1.98e+00 d.198.1.1 68120 1ic6A 279 2.18e+00 1gci c.41.1.1 62257 1jnrA 643 2.19e+00 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2fjbA 643 2.19e+00 4ubpA 101 2.26e+00 1ubpA d.8.1.1 37352 2fdiA 211 2.29e+00 1tueA 212 2.30e+00 c.37.1.20 107323 2bw4A 340 2.43e+00 1juvA 193 2.69e+00 c.71.1.1 90912 1tjoA 182 2.94e+00 1x3lA 440 2.94e+00 1vjlA 164 3.07e+00 d.257.1.1 100822 1d2tA 231 3.33e+00 1d2tA a.111.1.1 19052 1vq0A 302 3.68e+00 1yphE 97 3.92e+00 1gvkB 240 3.95e+00 b.47.1.2 70610 2ff4A 388 4.15e+00 2anyA 241 4.38e+00 1vhsA 175 4.71e+00 d.108.1.1 100698 1se8A 301 4.79e+00 b.40.4.3 105448 2fp7A 54 4.95e+00 1ze3D 125 5.21e+00 1nykA 165 5.68e+00 b.33.1.1 86408 1zy9A 564 5.77e+00 1p1mA 406 5.77e+00 b.92.1.4,c.1.9.9 87696,87697 1z64A 26 6.44e+00 1iv3A 152 6.58e+00 d.79.5.1 76828 1tygB 87 6.69e+00 d.15.3.2 107455 1wrvA 308 6.78e+00 1ve4A 206 6.91e+00 1vbkA 307 6.95e+00 1t0aA 159 7.34e+00 1vjvA 415 7.45e+00 d.3.1.9 108632 1qhxA 178 7.50e+00 1qhsA c.37.1.3 31936 2fpeA 62 8.01e+00 1eu3A 210 8.25e+00 1an8 b.40.2.2,d.15.6.1 25206,37795 1pv5A 264 8.41e+00 d.251.1.1 95150 3kvt 115 8.60e+00 1t1dA d.42.1.2 38642 1iyeA 309 8.74e+00 e.17.1.1 83786 1jsdA 319 9.07e+00 b.19.1.2 63258 1jtdB 273 9.08e+00 b.69.5.2 67265 2biiA 424 9.15e+00 2dg5B 190 9.35e+00 1j96A 323 1.00e+01 c.1.7.1 71616 1dyqA 234 1.01e+01 3seb b.40.2.2,d.15.6.1 59140,59141 1rqpA 299 1.03e+01 b.141.1.1,c.132.1.1 97754,97755 1hnr 47 1.04e+01 1hnr a.155.1.1 17896 2bzvA 181 1.07e+01 2brfA 110 1.07e+01 1hpi 71 1.07e+01 1ckuA g.35.1.1 44995 2bh8A 101 1.13e+01 1fnlA 175 1.16e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1m7vA 363 1.17e+01 d.174.1.1 78748 1tcvA 287 1.21e+01 1yozA 116 1.24e+01 1txoA 237 1.24e+01 1zsyA 357 1.30e+01 1ecfA 504 1.31e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 3c2c 112 1.33e+01 1ycc a.3.1.1 15885 1zbxB 141 1.33e+01 2ptd 298 1.37e+01 2plc c.1.18.2 29605 1lshA 1056 1.40e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1p42A 270 1.42e+01 d.14.1.7,d.14.1.7 87754,87755 3ullA 132 1.42e+01 3ullA b.40.4.3 25282 1u69A 163 1.43e+01 d.32.1.7 107699 2ai4A 119 1.44e+01 1zk7A 467 1.47e+01 1wdtA 665 1.51e+01 1ejxA 100 1.51e+01 d.8.1.1 83182 1iqqA 200 1.52e+01 d.124.1.1 66274 2b1xA 470 1.52e+01 1s3eA 520 1.53e+01 c.3.1.2,d.16.1.5 98426,98427 1yr1A 119 1.54e+01 1hh8A 213 1.55e+01 1e96B a.118.8.1 61042 1y4wA 518 1.56e+01 2gi3A 476 1.66e+01 1us0A 316 1.66e+01 c.1.7.1 99850 3tss 194 1.69e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1ahsA 126 1.73e+01 1ahsA b.19.1.1 23794 1yt3A 375 1.77e+01 1gy7A 125 1.79e+01 d.17.4.2 70738 2f5yA 91 1.79e+01 1jsmA 325 1.81e+01 b.19.1.2 63264 2d1yA 256 2.02e+01 1y88A 199 2.02e+01 1vgjA 184 2.03e+01 1pzxA 289 2.09e+01 c.119.1.1 95484 1o54A 277 2.30e+01 c.66.1.13 92482 1me4A 215 2.31e+01 d.3.1.1 79023 1rl6A 177 2.32e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 2bhgA 209 2.33e+01 1elt 236 2.34e+01 5ptp b.47.1.2 26281 1xn5A 146 2.37e+01 1wzvA 155 2.38e+01 1y7xA 113 2.38e+01 1jb7B 260 2.40e+01 1otcB b.40.4.3 62839 1senA 164 2.40e+01 c.47.1.1 105465 1ixkA 315 2.42e+01 c.66.1.38 90716 1e9gA 286 2.47e+01 1wgjA b.40.5.1 59393 1dtdB 61 2.49e+01 1dtvA g.30.1.1 44962 1geeA 261 2.50e+01 c.2.1.2 90509 1i1wA 303 2.51e+01 c.1.8.3 76732 1ozjA 144 2.60e+01 d.164.1.1 93846 1ugmA 125 2.61e+01 d.15.1.3 107827 1dleA 298 2.63e+01 1dleA b.47.1.2 26312 1ej6B 1275 2.66e+01 i.7.1.1 45968 1fmhA 33 2.69e+01 1fmhB k.6.1.1 46409 1pguA 615 2.73e+01 b.69.4.1,b.69.4.1 88069,88070 1aiw 62 2.73e+01 1aiw b.72.2.1 27808 2a1kA 233 2.76e+01 2cxaA 256 2.77e+01 1wmmA 145 2.77e+01 1whi 122 2.79e+01 1whi b.39.1.1 24810 1yr2A 741 2.80e+01 1v8bA 479 2.87e+01 1w6gA 646 2.90e+01 1xttA 216 2.92e+01 1mo1A 87 2.99e+01 d.94.1.1 91363 2ahrA 259 3.01e+01 2gd9A 189 3.02e+01 2bkyX 89 3.03e+01 1hbnC 248 3.10e+01 1mroC d.58.31.1 60902 1rjoA 646 3.11e+01 1x82A 190 3.14e+01 1ikpA 613 3.15e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1pvmA 184 3.16e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1krhA 338 3.22e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1wruA 379 3.38e+01 1y4lA 121 3.40e+01 1mbyA 88 3.43e+01 d.223.1.1 78931 2bngA 149 3.45e+01 1ckeA 227 3.45e+01 1ckeA c.37.1.1 31846 1mpp 361 3.45e+01 2rmpA b.50.1.2 26856 1jyhA 157 3.45e+01 d.60.1.3 71956 1hcnA 92 3.50e+01 1hcnA g.17.1.4 44809 1yt5A 258 3.51e+01 1a8q 274 3.52e+01 1brt c.69.1.12 34702 1v5vA 401 3.53e+01 1to2E 281 3.53e+01 1frb 315 3.55e+01 1frb c.1.7.1 28665 1mtyB 384 3.57e+01 1mtyB a.25.1.2 16740 1a8y 367 3.63e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 2sicI 107 3.65e+01 3ssi d.84.1.1 40031 1nbaA 264 3.65e+01 1nbaA c.33.1.3 31753 1df7A 159 3.67e+01 3dfr c.71.1.1 34885 1yb2A 275 3.75e+01 1im3D 95 3.75e+01 1im3D b.1.18.5 62568 1nr4A 71 3.80e+01 d.9.1.1 92077 1o7nA 449 3.86e+01 b.33.1.2,d.129.3.3 81162,81163 1qd9A 124 3.90e+01 1qu9A d.79.1.1 39758 2fsrA 195 3.93e+01 1tlyA 278 3.96e+01 f.4.6.1 107143 1qhoA 686 4.01e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1i1qA 520 4.03e+01 1qdlA d.161.1.1 61543 2fneA 117 4.03e+01 1r8oB 71 4.05e+01 1kqrA 179 4.14e+01 b.29.1.14 72886 1wraA 308 4.23e+01 2mcm 112 4.26e+01 2mcm b.1.7.1 22207 1ylxA 103 4.28e+01 1ts9A 102 4.29e+01 1oruA 195 4.37e+01 b.58.1.2 93464 1xf1A 926 4.47e+01 1php 394 4.54e+01 16pk c.86.1.1 35452 2c43A 323 4.59e+01 1wlmA 151 4.66e+01 1aisA 182 4.67e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1hq0A 295 4.70e+01 1hzgA d.194.1.1 61122 1ms9A 648 4.72e+01 b.29.1.15,b.68.1.1 85088,85089 1ad2 228 4.75e+01 1ad2 e.24.1.1 43353 1q74A 303 4.84e+01 c.134.1.1 96019 1twfH 146 4.85e+01 1v37A 177 4.87e+01 1tl2A 236 4.96e+01 1tl2A b.67.1.1 27541 1ijvA 36 4.96e+01 g.9.1.1 66169 2btzA 394 5.01e+01 1m1zA 513 5.06e+01 c.26.2.1,d.153.1.1 78457,78458 1h54A 754 5.12e+01 a.102.1.4,b.30.5.3 60634,60635 1yfsA 465 5.18e+01 2g58A 121 5.21e+01 16pk 415 5.22e+01 16pk c.86.1.1 35454 1tkeA 224 5.34e+01 1vcaA 202 5.36e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 2fp7B 172 5.37e+01 1q4gA 553 5.38e+01 a.93.1.2,g.3.11.1 95789,95790 1rm6A 769 5.47e+01 1hdlA 55 5.50e+01 g.68.1.2 65808 1qexA 288 5.52e+01 1qexA b.32.1.1 24425 1sdjA 310 5.52e+01 d.21.1.2,d.21.1.2 98807,98808 1snnA 227 5.53e+01 d.115.1.2 105821 1sur 215 5.56e+01 1sur c.26.2.2 31620 2a4vA 159 5.59e+01 1nh8A 304 5.60e+01 c.94.1.1,d.58.5.3 80507,80508 1oe1A 336 5.70e+01 b.6.1.3,b.6.1.3 86891,86892 2b4wA 315 5.70e+01 1mfgA 95 5.70e+01 b.36.1.1 79043 1xd5A 112 5.76e+01 1gk9B 557 5.78e+01 1jfuA 186 5.79e+01 c.47.1.10 62940 1w96A 554 5.80e+01 1l0wA 580 5.82e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1p0zA 131 5.82e+01 d.110.6.1 93882 2ffmA 91 5.85e+01 1jigA 146 5.95e+01 a.25.1.1 71685 1whzA 70 6.06e+01 1t5oA 351 6.07e+01 c.124.1.5 106459 1rc6A 261 6.10e+01 b.82.1.11 97287 1sv6A 269 6.11e+01 d.177.1.1 106043 1v33A 366 6.13e+01 d.264.1.1 100278 1vqoX 92 6.13e+01 1dgwA 178 6.14e+01 1dgwA b.82.1.2 28090 1u02A 239 6.17e+01 c.108.1.15 107538 1ee6A 197 6.22e+01 1ee6A b.80.1.1 28024 1enwA 114 6.22e+01 1enwA a.5.4.1 16291 1yb3A 175 6.25e+01 1zkoA 136 6.26e+01 2c27A 315 6.30e+01 1bx7 55 6.32e+01 1bx7 g.3.15.1 44355 2fm8A 135 6.45e+01 1qg3A 195 6.49e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 2fbwA 621 6.49e+01 2fp8A 322 6.59e+01 1mvfD 82 6.61e+01 b.129.1.1 85143 1rvkA 382 6.63e+01 c.1.11.2,d.54.1.1 97928,97929 2a6qA 86 6.63e+01 1qhtA 775 6.69e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1hn4A 131 6.71e+01 a.133.1.2 65893 2btiA 63 6.73e+01 1jb0D 138 6.73e+01 1jb0D d.187.1.1 62823 3seb 238 6.75e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1earA 147 6.75e+01 b.107.1.1,d.58.38.1 64875,64876 1k8kE 178 6.78e+01 a.148.1.1 68311 2c1dB 137 6.78e+01 1t3yA 141 6.83e+01 2c5qA 240 6.87e+01 1sb8A 352 6.89e+01 c.2.1.2 105410 1op4A 159 6.90e+01 b.1.6.1 93397 1rie 129 6.92e+01 1rie b.33.1.1 24427 1lm8V 160 6.93e+01 b.3.3.1 74035 1kzlA 208 6.94e+01 b.43.4.3,b.43.4.3 77635,77636 2bvlA 543 6.96e+01 1htrB 329 6.98e+01 1smrA 1bia 321 7.00e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2bz6H 254 7.00e+01 1s8iA 121 7.04e+01 a.133.1.2 98735 1rifA 282 7.05e+01 c.37.1.23 97507 2bw0A 329 7.08e+01 1n0wB 35 7.09e+01 j.97.1.1 79773 1vi4A 174 7.11e+01 c.8.7.1 100731 1hx6A 394 7.13e+01 1cjdA b.121.2.1,b.121.2.1 58995,58996 2apr 325 7.15e+01 2er7E b.50.1.2 26819 1un7A 400 7.17e+01 b.92.1.5,c.1.9.10 99657,99658 2ahuA 531 7.25e+01 1ogoX 574 7.29e+01 b.133.1.1,b.80.1.10 92925,92926 2f69A 261 7.31e+01 1p2fA 220 7.34e+01 a.4.6.1,c.23.1.1 87720,87721 1z6oM 191 7.48e+01 1s1pA 331 7.52e+01 c.1.7.1 98350 1l3pA 102 7.53e+01 a.24.17.1 84520 2f01A 127 7.64e+01 1vqoU 66 7.77e+01 1n1tA 641 7.81e+01 b.29.1.15,b.68.1.1 79821,79822 1gy6A 127 8.02e+01 d.17.4.2 70736 1zgoA 223 8.03e+01 1xakA 83 8.07e+01 1j48A 110 8.13e+01 b.1.7.1 84112 1wd6A 123 8.16e+01 1bywA 110 8.22e+01 1bywA d.110.3.6 40912 1cr5A 189 8.23e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1xqbA 247 8.29e+01 1vjqA 79 8.37e+01 k.43.1.1 100830 2ciaA 102 8.38e+01 1mkyA 439 8.39e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1f2tB 148 8.40e+01 1f2tB 1vixA 420 8.42e+01 c.56.5.4,d.58.19.1 100777,100778 1s98A 107 8.42e+01 b.124.1.1 105377 1qv1A 195 8.43e+01 a.39.1.5 96347 1g4iA 123 8.56e+01 1poa a.133.1.2 60241 1zbqA 327 8.58e+01 1n8jA 186 8.59e+01 c.47.1.10 85401 1gycA 499 8.61e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 2ci9A 102 8.76e+01 1xm7A 195 8.80e+01 2bsjA 133 8.80e+01 2cu3A 64 8.84e+01 2bmoA 447 8.87e+01 1wnyA 186 8.92e+01 1qzgA 187 8.92e+01 b.40.4.3 96643