# List of top-scoring protein chains for t04-100-30-o_notor2-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 2f4qA 346 1.92e-01 1ffyA 917 5.65e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2c3vA 102 7.27e-01 1u0tA 307 7.97e-01 e.52.1.1 107567 1qhoA 686 1.40e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1m7xA 617 1.67e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1tp6A 128 2.56e+00 d.17.4.12 107184 2fh5A 185 3.02e+00 1iscA 192 3.08e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1e19A 314 3.63e+00 1b7bA c.73.1.1 34967 1qx4A 274 3.64e+00 b.43.4.2,c.25.1.1 104624,104625 1lktA 104 4.08e+00 1lktA b.90.1.1 28398 1gpeA 587 4.49e+00 1gpeA c.3.1.2,d.16.1.1 30387,37951 1qjpA 171 4.54e+00 1bxwA f.4.1.1 43742 1z0wA 207 4.67e+00 1zkdA 387 4.81e+00 1kllA 130 4.94e+00 d.32.1.2 72720 1k2fA 190 5.18e+00 b.8.1.2 68054 3ezmA 101 5.48e+00 3ezmA b.89.1.1 28395 1th8A 145 5.54e+00 d.122.1.3 106908 1xfsA 178 5.91e+00 d.129.3.5 109589 1u58A 253 5.98e+00 1m65A 245 6.19e+00 c.6.3.1 84847 1gv3A 248 6.64e+00 a.2.11.1,d.44.1.1 70585,70586 2cu3A 64 7.25e+00 1y14B 171 7.42e+00 16pk 415 9.16e+00 16pk c.86.1.1 35454 1b9wA 89 9.55e+00 1b9wA g.3.11.4,g.3.11.4 44334,44335 1cqyA 99 1.01e+01 1b9zA b.3.1.1 22527 1nrlA 316 1.03e+01 a.123.1.1 92091 2a25A 193 1.04e+01 1bywA 110 1.09e+01 1bywA d.110.3.6 40912 1itcA 516 1.15e+01 b.3.1.1,c.1.8.1 83705,83706 1iow 306 1.16e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1b72B 87 1.16e+01 1akhA a.4.1.1 16001 1yx1A 264 1.17e+01 1m9sA 605 1.18e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1pufB 73 1.22e+01 a.4.1.1 95132 1pz7A 204 1.24e+01 b.29.1.4 95405 1l6sA 323 1.27e+01 c.1.10.3 73627 1qauA 112 1.31e+01 1qauA b.36.1.1 24779 1cr5A 189 1.35e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 2bfgA 503 1.39e+01 1i8jA 323 1.39e+01 1b4kA c.1.10.3 61968 1i7pA 274 1.39e+01 b.43.4.2,c.25.1.1 66048,66049 1ro5A 201 1.42e+01 d.108.1.3 105023 1m93C 41 1.43e+01 1pqzA 238 1.47e+01 b.1.1.2,d.19.1.1 104297,104298 1ui0A 205 1.51e+01 c.18.1.2 99411 1th7A 81 1.52e+01 1vjfA 180 1.55e+01 d.116.1.1 100809 1lkkA 105 1.57e+01 1lckA d.93.1.1 40412 2gaiA 633 1.58e+01 1yuzA 202 1.58e+01 1huxA 270 1.59e+01 1huxA c.55.1.5 61278 1vr9A 213 1.67e+01 1bi5A 389 1.71e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1v74A 107 1.74e+01 d.243.1.1 100442 1umkA 275 1.74e+01 2go8A 122 1.77e+01 1kzfA 230 1.79e+01 d.108.1.3 73354 1yaxA 153 1.80e+01 2bjbA 462 1.81e+01 2ge3A 170 1.88e+01 1mgqA 83 1.90e+01 b.38.1.1 79099 1qnnA 191 1.94e+01 1avmA a.2.11.1,d.44.1.1 15792,38755 1jb7B 260 1.97e+01 1otcB b.40.4.3 62839 1ttzA 87 1.97e+01 c.47.1.1 107309 1n9lA 109 2.02e+01 d.110.3.6 85468 1ne6A 283 2.10e+01 b.82.3.2,b.82.3.2 91831,91832 1m1zA 513 2.14e+01 c.26.2.1,d.153.1.1 78457,78458 1vemA 516 2.19e+01 1d8hA 311 2.21e+01 1d8iA d.63.1.1 39544 1dcjA 81 2.21e+01 1dcjA d.68.3.3 59115 1s6xA 34 2.22e+01 2bt9A 90 2.23e+01 1te7A 103 2.29e+01 2bs6A 90 2.35e+01 1pylA 97 2.35e+01 d.1.1.2 104391 1ijqA 316 2.36e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 2a2pA 129 2.42e+01 1txkA 498 2.44e+01 b.1.18.2,b.30.5.9 107425,107426 1am2 199 2.48e+01 1am2 b.86.1.2 28381 1e39A 571 2.50e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1ny1A 240 2.54e+01 c.6.2.3 86395 1p2hA 571 2.58e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1uesA 191 2.64e+01 a.2.11.1,d.44.1.1 107798,107799 1ndh 272 2.69e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1vkcA 158 2.70e+01 1r53A 382 2.72e+01 d.258.1.1 97063 1a8h 500 2.88e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 2gwnA 452 2.89e+01 2fafA 608 2.90e+01 1uhvA 500 2.99e+01 b.71.1.2,c.1.8.3 99402,99403 1w4tA 299 3.01e+01 2bjfA 329 3.02e+01 1vq2A 193 3.03e+01 1cv8 174 3.10e+01 1cv8 d.3.1.1 37089 2bgiA 272 3.14e+01 1omiA 248 3.23e+01 b.82.3.3,a.4.5.4 87079,87080 1xqaA 113 3.25e+01 1bhtA 176 3.26e+01 1bhtA g.10.1.1,g.14.1.1 44603,44663 2ciaA 102 3.31e+01 1u4cA 349 3.35e+01 b.69.4.2 107666 1i88A 389 3.38e+01 c.95.1.2,c.95.1.2 66070,66071 2arcA 164 3.43e+01 2arcA b.82.4.1 28148 2fa8A 105 3.44e+01 1jtkA 136 3.47e+01 c.97.1.1 71862 1xkgA 312 3.52e+01 1q7fA 286 3.57e+01 b.68.9.1 96036 1mdwA 328 3.61e+01 d.3.1.3 84934 1uwzA 136 3.67e+01 c.97.1.1 108081 1xvsA 126 3.68e+01 1ktbA 405 3.68e+01 b.71.1.1,c.1.8.1 72960,72961 1u14A 172 3.70e+01 c.51.4.3 107579 1wtyA 119 3.73e+01 2pil 159 3.80e+01 2pil d.24.1.1 38376 1um5H 217 3.81e+01 2bs9A 503 3.85e+01 1sf9A 128 3.87e+01 b.34.15.1 98831 1lwdA 413 3.88e+01 c.77.1.1 78265 1vjvA 415 3.88e+01 d.3.1.9 108632 1k38A 254 3.90e+01 e.3.1.1 84303 1vggA 161 3.91e+01 1pamA 686 3.91e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1xkiA 162 3.97e+01 1vcdA 126 3.98e+01 1s4iA 175 4.00e+01 1usuA 260 4.00e+01 d.14.1.8 99885 1kjvA 284 4.05e+01 b.1.1.2,d.19.1.1 77421,77422 1zo2A 129 4.11e+01 1rkqA 282 4.11e+01 c.108.1.10 97621 1z2mA 155 4.13e+01 1hxrA 115 4.13e+01 1fwqA b.88.1.1 28392 1wvqA 167 4.25e+01 1woyA 500 4.28e+01 2ci9A 102 4.28e+01 1e1aA 314 4.28e+01 1e1aA b.68.6.1 59155 1i3dA 146 4.32e+01 a.1.1.2 61587 1bquA 215 4.39e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1ri9A 102 4.41e+01 b.34.2.1 97506 1o7iA 119 4.42e+01 b.40.4.3 86642 1fjgP 88 4.44e+01 1emwA d.27.1.1 38444 2aysA 348 4.44e+01 1uasA 362 4.47e+01 b.71.1.1,c.1.8.1 88388,88389 1pjxA 314 4.48e+01 b.68.6.1 104167 1tlfA 301 4.48e+01 1tlfA c.93.1.1 35687 1ihrA 76 4.51e+01 1ihrA d.212.1.2 62392 1lniA 96 4.56e+01 d.1.1.2 74046 1s4nA 348 4.58e+01 c.68.1.16 98501 1npsA 88 4.76e+01 1prs b.11.1.1 23622 1jmxA 494 4.80e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2dchX 216 4.83e+01 1azsA 220 4.91e+01 1azsA d.58.29.1 39416 1jyeA 349 4.93e+01 c.93.1.1 67455 1m4iA 181 4.97e+01 d.108.1.1 74457 1y9wA 140 5.01e+01 1csn 298 5.03e+01 1csn d.144.1.7 41664 1i0cA 60 5.07e+01 1aojA b.34.2.1 61485 1fsu 492 5.12e+01 1auk c.76.1.2 35032 1iwdA 215 5.20e+01 d.3.1.1 83756 1uliA 460 5.21e+01 b.33.1.2,d.129.3.3 107921,107922 1y88A 199 5.22e+01 1ryaA 160 5.22e+01 d.113.1.5 105122 1b63A 333 5.24e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1pvmA 184 5.27e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1ospO 257 5.27e+01 1ospO b.76.1.1 27971 1pda 315 5.27e+01 1pda c.94.1.1,d.50.2.1 35751,38794 1xksA 450 5.30e+01 1hd2A 161 5.31e+01 c.47.1.10 60962 2cwzA 141 5.34e+01 2c2aA 258 5.36e+01 1hn2A 159 5.38e+01 b.60.1.1 65890 1v0jA 399 5.44e+01 1h4rA 314 5.67e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1fnd 314 5.67e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1umuA 116 5.68e+01 1umuA b.87.1.1 28382 1b77A 228 5.84e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1nkxA 348 5.85e+01 c.94.1.2 91943 1z47A 355 5.85e+01 1fp1D 372 5.87e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1u07A 90 5.98e+01 1pcfA 66 5.98e+01 1pcfA d.18.1.1 38142 1bx1A 314 6.05e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1ef1A 294 6.28e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16368,27003,37611 2cr5A 109 6.30e+01 1w9hA 427 6.38e+01 1ofzA 312 6.38e+01 b.68.8.1 86978 1vbvA 105 6.39e+01 1v7bA 185 6.40e+01 1xgyH 219 6.40e+01 1s72S 85 6.41e+01 d.12.1.1 105338 1pszA 303 6.45e+01 1toaA c.92.2.2 35600 2cw9A 194 6.51e+01 1yfqA 342 6.64e+01 1x6oA 174 6.68e+01 b.34.5.2,b.40.4.5 109493,109494 1obpA 159 6.75e+01 1obpA b.60.1.1 27092 1i8fA 81 6.78e+01 1i8fA b.38.1.1 61959 1y0pA 571 6.81e+01 1z02A 446 6.81e+01 1kaeA 434 6.84e+01 c.82.1.2 72247 4tsvA 150 6.84e+01 2tnfA b.22.1.1 23860 1xtlA 175 6.85e+01 1nofA 383 6.87e+01 b.71.1.2,c.1.8.3 92020,92021 2bzuA 181 6.89e+01 1g5aA 628 7.02e+01 b.71.1.1,c.1.8.1 65152,65153 2b5nA 323 7.02e+01 1iuaA 83 7.04e+01 g.35.1.1 71438 1jj2R 84 7.05e+01 1ffkP d.12.1.1 63103 1b78A 193 7.19e+01 1b78A c.51.4.1 33221 2cl1A 279 7.21e+01 1qwlA 505 7.24e+01 e.5.1.1 96483 1f39A 101 7.25e+01 1umuA b.87.1.1 28386 1qqp1 213 7.27e+01 1qqp1 1qexA 288 7.36e+01 1qexA b.32.1.1 24425 2h1qA 270 7.37e+01 2g9iA 249 7.44e+01 1qmvA 197 7.44e+01 1qq2A c.47.1.10 33066 2cn3A 737 7.47e+01 1tqxA 227 7.50e+01 1ugjA 141 7.50e+01 b.41.1.3 107826 2g6yA 217 7.67e+01 1kssA 571 7.68e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1s9aA 257 7.70e+01 b.3.6.1 105379 1lgpA 116 7.76e+01 b.26.1.2 73890 1mngA 203 7.78e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1vp4A 425 7.78e+01 1i07A 60 7.79e+01 1aojA b.34.2.1 61477 2gdjA 264 7.85e+01 1epfA 191 7.87e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1h1yA 228 7.89e+01 c.1.2.2 76506 1tuhA 156 7.90e+01 d.17.4.11 107345 1q9iA 571 7.93e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1vjlA 164 8.01e+01 d.257.1.1 100822 1f2tB 148 8.05e+01 1f2tB 1o2dA 371 8.11e+01 e.22.1.2 86591 1tjgH 237 8.11e+01 2sli 679 8.13e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1h6hA 143 8.14e+01 d.189.1.1 65681 2b6dA 345 8.15e+01 1r1qA 100 8.17e+01 d.93.1.1 104763 1gtkA 313 8.25e+01 c.94.1.1,d.50.2.1 76346,76347 1c75A 71 8.31e+01 451c a.3.1.1 15796 1jqeA 292 8.31e+01 c.66.1.19 71789 1tkeA 224 8.31e+01 1fnc 314 8.34e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1gw5S 142 8.34e+01 d.110.4.2 70633 1k8kE 178 8.40e+01 a.148.1.1 68311 2fv7A 331 8.51e+01 1ru3A 732 8.51e+01 e.26.1.3 97835 1v04A 355 8.52e+01 b.68.6.2 100240 1szoA 257 8.59e+01 c.14.1.3 106164 1bbt1 213 8.67e+01 1qqp1 1aj2 282 8.74e+01 1aj2 c.1.21.1 29665 1hlyA 39 8.78e+01 g.3.7.2 90654 1oxdA 227 8.79e+01 d.22.1.1 93687 2gclA 261 8.80e+01 1pxvA 183 8.81e+01 d.3.1.1 95301 1vqoS 85 8.83e+01 1m5q1 130 8.83e+01 1hkfA 122 8.84e+01 b.1.1.1 83553 2dbnA 461 8.86e+01 1gmyA 261 8.87e+01 d.3.1.1 76236 2gwfB 134 8.89e+01 1p80A 753 8.90e+01 c.23.16.3,e.5.1.1 94337,94338 1b8aA 438 8.97e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765