# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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.soe.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 2plsA 86 6.53e-19 2oaiA 94 1.38e-18 2p4pA 86 4.24e-18 2o1rA 81 5.09e-18 2p13A 90 1.86e-17 2pliA 91 4.80e-17 2nqwA 93 7.12e-17 2r2zA 93 2.19e-16 2rk5A 87 1.43e-13 2p3hA 101 8.82e-12 2anrA 178 6.90e-02 2pp6A 102 8.73e-02 1jb7B 260 4.05e-01 1otcB b.40.4.3 62839 1c0pA 363 4.06e-01 1an9A c.4.1.2,d.16.1.3 30647,37934 1i8dA 213 5.39e-01 b.43.4.3,b.43.4.3 61953,61954 1kzlA 208 6.09e-01 b.43.4.3,b.43.4.3 77635,77636 1ifc 132 8.87e-01 1ifcA 132 8.87e-01 b.60.1.2 27173 1icmA 131 1.04e+00 b.60.1.2 27174 2uuuA 584 1.12e+00 2b49A 287 1.31e+00 2gcuA 245 1.31e+00 1pyaB 228 1.42e+00 1pyaB 1aisA 182 1.43e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 2ehsA 77 1.54e+00 2amwA 83 1.77e+00 1smlA 269 1.97e+00 1smlA d.157.1.1 42053 2aioA 269 2.35e+00 d.157.1.1 126829 1o3yA 166 2.45e+00 c.37.1.8 86618 2rb7A 364 2.52e+00 2r6gG 296 2.53e+00 2p18A 311 2.55e+00 2nrlA 147 2.61e+00 1uptA 171 2.63e+00 c.37.1.8 99767 1yb2A 275 2.73e+00 c.66.1.13 122868 1tmxA 293 2.84e+00 1hskA 326 2.88e+00 2mbr d.145.1.2,d.146.1.1 61241,61242 2a5dA 175 2.97e+00 c.37.1.8 126172 1vr9A 213 3.01e+00 d.37.1.1,d.37.1.1 120446,120447 1l1nA 183 3.06e+00 b.47.1.4 73476 2z14A 133 3.23e+00 2mspA 126 3.37e+00 1mspA b.1.11.2 22335 1c30B 382 3.39e+00 c.8.3.1,c.23.16.1 30736,31413 1b8aA 438 3.86e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1vmeA 410 4.06e+00 c.23.5.1,d.157.1.3 108893,108894 2i6gA 199 4.24e+00 c.66.1.44 137096 1wh2A 78 4.29e+00 d.76.1.1 114630 2h3bA 494 4.46e+00 3cu0A 281 4.60e+00 2ctdA 96 4.70e+00 g.37.1.1,g.37.1.1 130792,130793 2yxbA 161 5.40e+00 2vg9A 217 5.69e+00 1mspA 126 5.74e+00 1mspA b.1.11.2 22333 1zfjA 491 5.83e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 3cfuA 159 5.85e+00 2c1fA 234 6.02e+00 2g2kA 170 6.45e+00 1yycA 174 6.59e+00 1a9xB 379 6.72e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1udxA 416 6.72e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2b1xA 470 6.95e+00 b.33.1.2,d.129.3.3 127675,127676 2gj8A 172 7.18e+00 c.37.1.8 135270 1nh8A 304 7.22e+00 c.94.1.1,d.58.5.3 80507,80508 1yvcA 70 7.46e+00 b.40.4.12 124094 1jztA 246 7.79e+00 c.104.1.1 63319 2g95A 491 7.83e+00 1tp6A 128 7.86e+00 d.17.4.12 107184 1uliA 460 8.63e+00 b.33.1.2,d.129.3.3 107921,107922 2fl7A 232 8.75e+00 1ywsA 82 8.77e+00 g.41.17.1 124163 1f37A 110 8.77e+00 1f37A c.47.1.11 33088 2bv5A 282 8.86e+00 1ybyA 215 9.13e+00 1r8sA 164 9.42e+00 c.37.1.8 97247 1xm8A 254 9.43e+00 d.157.1.2 115475 1bjwA 382 9.48e+00 1bjwA c.67.1.1 34349 1kpeA 126 9.60e+00 1kpf d.13.1.1 37508 2btiA 63 9.62e+00 1iz0A 302 9.77e+00 b.35.1.2,c.2.1.1 83821,83822 2aorA 223 9.95e+00 2qo4A 126 1.01e+01 2r0cA 549 1.04e+01 2hy1A 280 1.05e+01 2i2qA 137 1.05e+01 1z06A 189 1.09e+01 c.37.1.8 124301 1kshA 186 1.13e+01 c.37.1.8 72914 2ehjA 208 1.15e+01 1zcbA 362 1.15e+01 a.66.1.1,c.37.1.8 124901,124902 1azo 232 1.15e+01 1azo 1azoA 232 1.15e+01 c.52.1.14 33329 1gycA 499 1.15e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1vpzA 73 1.20e+01 b.151.1.1 113998 1kpf 126 1.21e+01 1kpf 2r6fA 972 1.22e+01 1nofA 383 1.24e+01 b.71.1.2,c.1.8.3 92020,92021 1iybA 208 1.24e+01 d.124.1.1 90720 2f7lA 455 1.25e+01 1kpfA 125 1.26e+01 d.13.1.1 37507 2fgtA 417 1.26e+01 2f9hA 129 1.27e+01 b.161.1.1 133162 1hk8A 605 1.31e+01 c.7.1.3 83540 1rfmA 344 1.32e+01 c.122.1.1 97385 2fmlA 273 1.35e+01 a.4.5.68,d.113.1.6 133778,133779 1f6bA 198 1.37e+01 c.37.1.8 64986 2hsiA 282 1.39e+01 1eyqA 222 1.39e+01 1eypA d.36.1.1 38534 2hc1A 291 1.46e+01 2f7vA 369 1.47e+01 1svsA 353 1.52e+01 c.37.1.8 106051 2vfrA 422 1.53e+01 1sjiA 350 1.53e+01 1p2hA 571 1.54e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1y0pA 571 1.56e+01 a.138.1.3,c.3.1.4,d.168.1.1 122507,122508,122509 1q9iA 571 1.57e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 2zbwA 335 1.58e+01 2ohdA 151 1.58e+01 1kssA 571 1.60e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1b5pA 385 1.61e+01 c.67.1.1 90403 1fzqA 181 1.61e+01 1hurA c.37.1.8 32060 1r6vA 671 1.61e+01 c.41.1.1 111710 1e39A 571 1.62e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1zghA 260 1.62e+01 b.46.1.1,c.65.1.1 125028,125029 2bijA 305 1.63e+01 2pia 321 1.63e+01 2pia 2piaA 321 1.63e+01 b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1xruA 282 1.64e+01 b.82.1.13 122262 1offA 97 1.65e+01 d.15.4.1 86947 2eifA 136 1.66e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1w4tA 299 1.67e+01 d.3.1.5 120639 1zg2A 107 1.69e+01 1frrA 95 1.69e+01 1awd d.15.4.1 37674 1hurA 180 1.73e+01 1hurA c.37.1.8 32052 2a61A 145 1.75e+01 a.4.5.28 126187 2essA 248 1.76e+01 d.38.1.8,d.38.1.8 132346,132347 1sseB 86 1.76e+01 1o20A 427 1.83e+01 c.82.1.1 86556 2i6cA 160 1.85e+01 d.108.1.1 137095 1vqzA 341 1.87e+01 d.224.1.3,d.104.1.3 120426,120427 2i3oA 516 1.91e+01 d.153.1.6 137027 1pbwA 216 1.92e+01 1pbwA a.116.1.1 19103 2j0fA 482 1.93e+01 1fonA 240 1.94e+01 5ptp b.47.1.2 26231 2b6hA 192 1.97e+01 c.37.1.8 127994 2jv2A 83 1.99e+01 1xk5A 204 1.99e+01 1wv2A 265 2.00e+01 c.1.31.1 114910 1xrkA 124 2.01e+01 d.32.1.2 115881 2yvsA 219 2.01e+01 2phjA 251 2.09e+01 1vlwA 217 2.16e+01 c.1.10.1 108868 1r4aA 165 2.17e+01 c.37.1.8 96986 2fztA 79 2.23e+01 a.46.3.1 134476 1dkqA 410 2.23e+01 1dklA c.60.1.2 33998 1m2dA 110 2.23e+01 c.47.1.11 78476 1tk1A 260 2.34e+01 d.248.1.1 107066 1x6oA 174 2.35e+01 b.34.5.2,b.40.4.5 109493,109494 1tvgA 153 2.38e+01 b.18.1.9 112683 2ge3A 170 2.42e+01 d.108.1.1 135044 1v8dA 235 2.43e+01 c.140.1.1 108425 2ivnA 330 2.43e+01 1zzoA 136 2.43e+01 c.47.1.10 125913 1g3qA 237 2.45e+01 1hyqA c.37.1.10 60237 1vi6A 208 2.47e+01 c.23.15.1 100736 1qw2A 102 2.52e+01 d.249.1.1 96456 1mp9A 198 2.56e+01 d.129.1.1,d.129.1.1 91385,91386 1bkb 136 2.56e+01 1bkb 1bkbA 136 2.56e+01 b.34.5.2,b.40.4.5 24609,25341 2pjmA 226 2.57e+01 2yvyA 278 2.59e+01 2ct9A 208 2.59e+01 2g23A 612 2.59e+01 1jyoA 130 2.60e+01 d.198.1.1 67483 2hdiB 113 2.61e+01 1hlgA 371 2.70e+01 1hlgA c.69.1.6 34656 2dxqA 150 2.72e+01 1xcbA 211 2.72e+01 a.4.5.38,c.2.1.12 109552,109553 1mkyA 439 2.74e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1k6zA 141 2.83e+01 d.198.1.1 68247 1jyaA 130 2.88e+01 d.198.1.1 67453 2r0yA 311 2.89e+01 2yxyA 115 2.90e+01 1es7B 89 2.93e+01 1es7B g.7.1.3 44465 1ionA 243 2.93e+01 c.37.1.10 62633 2dg5B 190 2.94e+01 1j7lA 264 3.04e+01 d.144.1.6 62697 2gyqA 175 3.07e+01 a.25.1.4 135863 1uouA 474 3.09e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 2uv4A 152 3.15e+01 1yueA 427 3.16e+01 1gu7A 364 3.16e+01 b.35.1.2,c.2.1.1 83321,83322 1l5wA 796 3.19e+01 c.87.1.4 73605 2pbeA 294 3.19e+01 2dxeA 160 3.21e+01 d.58.6.1 131870 2cwkA 160 3.22e+01 d.58.6.1 130925 1ve0A 134 3.26e+01 1rm6B 324 3.28e+01 d.87.2.1,d.145.1.3 111874,111875 3c5xC 130 3.29e+01 1i19A 561 3.29e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2i75A 320 3.29e+01 2cx6A 90 3.29e+01 c.9.1.1 130981 1xfxO 149 3.33e+01 a.39.1.5 121955 1wa3A 205 3.36e+01 c.1.10.1 120802 1lfoA 127 3.38e+01 b.60.1.2 27223 2h62C 129 3.45e+01 g.7.1.3 136179 2hrgA 496 3.47e+01 2r1iA 172 3.49e+01 1uyrA 737 3.50e+01 c.14.1.4,c.14.1.4 100188,100189 2ownA 262 3.51e+01 1zr6A 503 3.55e+01 1rfkA 98 3.58e+01 1t8kA 77 3.58e+01 a.28.1.1 106666 1m2oA 768 3.61e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1nsf 273 3.62e+01 1d2nA 1ollA 188 3.65e+01 b.1.1.4,b.1.1.4 93313,93314 2qcoA 210 3.68e+01 2oa8A 233 3.68e+01 2pa8L 92 3.68e+01 2i0kA 561 3.70e+01 3bo7A 201 3.71e+01 1dkmA 410 3.78e+01 1dklA c.60.1.2 34000 3choA 610 3.79e+01 1vh4A 435 3.80e+01 b.80.6.1 100640 1d2nA 272 3.80e+01 1d2nA c.37.1.20 32428 2bkkA 264 3.81e+01 1zc0A 309 3.84e+01 1urjA 1136 3.92e+01 e.58.1.1 113410 1r4wA 226 3.97e+01 c.47.1.13 97050 1a2xA 159 3.97e+01 1ncx a.39.1.5 17251 2qt6A 498 4.04e+01 1s6cA 183 4.04e+01 a.39.1.5 98594 1xg8A 111 4.10e+01 c.47.1.17 115283 1xewX 182 4.14e+01 c.37.1.12 115235 1n57A 291 4.14e+01 c.23.16.2 85328 1rfyA 102 4.15e+01 a.2.13.1 111798 2g6bA 180 4.20e+01 c.37.1.8 134701 2gwdA 449 4.21e+01 1p6pA 125 4.28e+01 b.60.1.2 87839 1yzbA 182 4.28e+01 1regX 122 4.29e+01 1regX d.58.27.1 39406 1v10A 521 4.31e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1cqqA 180 4.31e+01 1cqqA b.47.1.4 26422 2eqaA 352 4.33e+01 2g7bA 137 4.34e+01 1f2dA 341 4.35e+01 1f2dA c.79.1.1 35298 1jqgA 433 4.36e+01 c.56.5.1,d.58.3.1 71791,71792 1tw4A 125 4.37e+01 b.60.1.2 112690 2b3gA 123 4.40e+01 b.40.4.3 127786 2ew0A 192 4.42e+01 d.310.1.1 132445 1tzjA 338 4.45e+01 c.79.1.1 112868 1f5jA 199 4.47e+01 1axkA b.29.1.11 24342 1j0dA 341 4.51e+01 c.79.1.1 83902 1rewC 135 4.55e+01 g.7.1.3 97336 1awdA 94 4.57e+01 d.15.4.1 37673 2gagC 210 4.57e+01 1xneA 113 4.58e+01 b.122.1.6 115579 1w5rA 278 4.58e+01 d.3.1.5 120643 2c1cA 312 4.58e+01 c.56.5.1 129630 1v8cA 168 4.59e+01 d.15.3.1,d.129.5.1 100495,100496 1o7nA 449 4.67e+01 b.33.1.2,d.129.3.3 81162,81163 1k8qA 377 4.67e+01 c.69.1.6 72177 1eg9A 449 4.67e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1topA 162 4.68e+01 a.39.1.5 17223 1p4kA 295 4.70e+01 d.153.1.5 87772 2vafA 378 4.73e+01 1rypD 241 4.75e+01 1rypD d.153.1.4 41935 2qklB 95 4.75e+01 1a65A 504 4.76e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1ff9A 450 4.78e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 3bzcA 785 4.81e+01 1hfuA 503 4.83e+01 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 2z3xA 63 4.85e+01 1mr3F 181 4.86e+01 c.37.1.8 79422 3c0dA 119 4.88e+01 1nt4A 391 4.88e+01 c.60.1.2 92102 2e6mA 208 4.89e+01 1vqqA 646 4.91e+01 d.17.4.5,d.175.1.1,e.3.1.1 114009,114010,114011 1uozA 315 4.93e+01 c.6.1.1 113354 1w2xA 758 4.93e+01 c.14.1.4,c.14.1.4 109134,109135 2p7oA 133 4.94e+01 1twiA 434 4.95e+01 b.49.2.3,c.1.6.1 107399,107400 1khiA 176 4.97e+01 b.34.5.2,b.40.4.5 77408,77409 1y0vH 146 4.97e+01 9gafA 295 4.98e+01 1apyA d.153.1.5 42008 1jb0L 154 4.99e+01 1jb0L f.31.1.1 62829 3bs2A 148 5.03e+01 2c6qA 351 5.05e+01 1gypA 358 5.07e+01 1dssG c.2.1.3,d.81.1.1 30004,39919 2inpL 89 5.07e+01 2aj0A 71 5.17e+01 1hjxA 362 5.19e+01 c.1.8.5,d.26.3.1 83512,83513 1e0tA 470 5.20e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2f9sA 151 5.24e+01 c.47.1.10 133168 2dunA 133 5.26e+01 1zj6A 187 5.26e+01 c.37.1.8 125145 1u5vA 273 5.27e+01 c.1.12.5 113054 1rf8B 100 5.31e+01 a.210.1.1 97371 1lktA 104 5.39e+01 1lktA b.90.1.1 28398 1u5hA 273 5.39e+01 c.1.12.5 113037 1h12A 405 5.44e+01 a.102.1.2 83447 1e9rA 437 5.47e+01 c.37.1.11 64827 1s1eA 224 5.47e+01 a.39.1.5 112007 1gl6A 436 5.49e+01 c.37.1.11 70259 1vqoW 154 5.49e+01 d.59.1.1 120384 1y1pA 342 5.51e+01 c.2.1.2 122550 2irpA 208 5.52e+01 1r8eA 278 5.56e+01 a.6.1.3,d.60.1.1 104843,104844 1p3dA 475 5.57e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1xwtA 405 5.61e+01 a.102.1.2 122410 1tjyA 316 5.62e+01 c.93.1.1 107062 2az4A 429 5.63e+01 d.157.1.10 127597 2cw3A 280 5.65e+01 1j9lA 247 5.65e+01 c.106.1.1 62762 1avsA 90 5.73e+01 1cll a.39.1.5 17226 1nwwA 149 5.73e+01 d.17.4.8 86306 1yliA 153 5.73e+01 d.38.1.1 123651 2bekA 257 5.75e+01 1l0iA 78 5.75e+01 a.28.1.1 77643 2f02A 323 5.77e+01 c.72.1.1 132649 2z0hA 197 5.79e+01 1wcv1 257 5.80e+01 2ovkC 159 5.83e+01 2ra8A 362 5.86e+01 1xaoA 121 5.86e+01 2h57A 190 5.87e+01 1wwrA 171 5.87e+01 c.97.1.2 121366 2om6A 235 5.89e+01 2q9oA 559 5.92e+01 1xkpC 143 5.96e+01 d.198.1.1 122088 1twfK 120 5.96e+01 d.74.3.2 112736 1st9A 143 5.97e+01 c.47.1.10 98987 2ejaA 338 5.99e+01 1xw2A 405 6.00e+01 a.102.1.2 122389 2rg4A 216 6.03e+01 2rhsB 800 6.07e+01 2h1nA 567 6.08e+01 2h17A 181 6.09e+01 2evbA 74 6.11e+01 1dsxA 87 6.11e+01 1t1dA d.42.1.2 38644 1i3jA 116 6.13e+01 1i3jA d.285.1.1 61594 1ucdA 190 6.21e+01 d.124.1.1 107767 1z6kA 293 6.30e+01 1ltlA 279 6.39e+01 b.40.4.11 84701 2c1wA 292 6.40e+01 d.294.1.1 129644 3d33A 108 6.41e+01 2ix0A 663 6.42e+01 2cohA 202 6.55e+01 a.4.5.4,b.82.3.2 130677,130678 2zcwA 202 6.55e+01 1jb0A 755 6.56e+01 1jb0A f.29.1.1 62820 2ih8A 559 6.59e+01 b.6.1.3,b.6.1.3,b.6.1.3 137407,137408,137409 1w1oA 534 6.59e+01 d.58.32.4,d.145.1.1 109071,109072 3ce7A 107 6.71e+01 2polA 366 6.83e+01 2polA d.131.1.1,d.131.1.1,d.131.1.1 41356,41357,41358 2r79A 283 6.90e+01 1vi3A 170 6.94e+01 b.17.1.2 100730 1frdA 98 6.97e+01 d.15.4.1 37648 1tufA 434 7.00e+01 b.49.2.3,c.1.6.1 107335,107336 2d4nA 152 7.06e+01 3cxjA 165 7.08e+01 1k3sA 113 7.10e+01 d.198.1.1 68120 1nxuA 333 7.15e+01 c.122.1.1 86389 1aerA 205 7.16e+01 1aerA d.166.1.1 42249 1wbhA 214 7.18e+01 c.1.10.1 120845 1vl2A 421 7.24e+01 c.26.2.1,d.210.1.1 108708,108709 1umpA 631 7.25e+01 a.102.4.2,a.102.4.2 99619,99620 2oauA 306 7.29e+01 b.38.1.3,d.58.43.1,f.34.1.1 138978,138979,138980 1v2yA 105 7.32e+01 d.15.1.1 100275 1b06A 210 7.36e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 2gfaA 119 7.43e+01 b.34.9.1,b.34.9.1 135089,135090 3bjkA 153 7.44e+01 1p9kA 79 7.50e+01 d.66.1.6 94392 1cipA 353 7.62e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 2yxdA 183 7.63e+01 2biiA 424 7.65e+01 2b8mA 117 7.66e+01 b.82.1.18 128092 1xopA 20 7.71e+01 j.79.1.1 122205 1v5iB 76 7.73e+01 2i1aA 148 7.73e+01 1q48A 134 7.76e+01 d.224.1.2 95783 1u04A 771 7.76e+01 b.34.14.1,c.55.3.10 107539,107540 2qedA 258 7.77e+01 1div 149 7.80e+01 1div 2nxwA 565 7.81e+01 2sqcA 631 7.86e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1j6qA 136 7.86e+01 b.40.9.1 77091 2qjxA 127 7.90e+01 2o8nA 265 7.96e+01 3bptA 363 7.97e+01 1f80D 81 7.99e+01 1acp a.28.1.1 59686