# List of top-scoring protein chains for t06-100-30-n_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 1s4iA 175 4.37e-01 1oaqL 120 5.07e-01 b.1.1.1 92708 1kgcD 206 6.99e-01 b.1.1.1,b.1.1.2 77384,77385 3bamA 213 9.37e-01 1bam c.52.1.3 33288 1c1lA 136 9.49e-01 1c1lA b.29.1.3 24219 1xtmA 175 1.26e+00 2fimA 276 1.37e+00 1kmoA 774 1.42e+00 f.4.3.3 72753 2fazA 78 1.45e+00 1txkA 498 1.45e+00 b.1.18.2,b.30.5.9 107425,107426 2bg9A 370 1.56e+00 1zn8A 180 1.66e+00 1rsgA 516 2.11e+00 2blnA 305 2.21e+00 1id0A 152 2.40e+00 d.122.1.3 66111 1ok0A 74 2.44e+00 b.5.1.1 93191 2giyA 191 2.50e+00 1yhfA 115 2.65e+00 1kapP 479 2.85e+00 1sat b.80.7.1,d.92.1.6 28012,40298 1wp5A 323 3.49e+00 1v0eA 666 3.75e+00 1o9wA 177 4.24e+00 b.2.3.5 86713 1ton 235 4.27e+00 5ptp b.47.1.2 26307 2c78A 405 4.28e+00 1kqfB 294 4.70e+00 d.58.1.5,f.23.22.1 75900,75901 1ojqA 212 5.01e+00 d.166.1.1 93146 1d2oA 187 6.13e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1d3cA 686 6.26e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1w9pA 433 6.69e+00 1ji1A 637 6.96e+00 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1j7xA 302 7.04e+00 c.14.1.2 66425 2fhxA 246 7.30e+00 1w9zA 283 7.68e+00 2sns 149 8.48e+00 1snc b.40.1.1 24860 1dqgA 135 8.57e+00 1dqgA b.42.2.2 25579 1i8aA 189 8.67e+00 1i82A b.1.9.2 61951 2bibA 547 8.91e+00 2fs2A 151 9.16e+00 1lvmA 229 9.17e+00 b.47.1.3 78243 1z6bA 154 9.31e+00 1l1qA 186 9.40e+00 c.61.1.1 77653 1euwA 152 9.47e+00 1dupA b.85.4.1 28349 1y08A 323 9.78e+00 1lml 478 9.90e+00 1lml d.92.1.3 40295 1o9yA 84 1.02e+01 b.139.1.1 92692 1ecfA 504 1.05e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1uh4A 637 1.05e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1yf3A 259 1.06e+01 1y7rA 133 1.07e+01 1uteA 313 1.18e+01 1uteA d.159.1.1 42078 1agjA 242 1.19e+01 1agjA b.47.1.1 25827 1ijqA 316 1.21e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1q2bA 434 1.22e+01 b.29.1.10 95624 1umwA 237 1.24e+01 d.223.1.2,d.223.1.2 99631,99632 1qhdA 398 1.26e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1c3mA 147 1.27e+01 1jotA b.77.3.1 27983 1wb0A 445 1.27e+01 2gpzA 111 1.30e+01 1xhdA 173 1.32e+01 1b12A 248 1.32e+01 1b12A b.87.1.2 28388 1earA 147 1.37e+01 b.107.1.1,d.58.38.1 64875,64876 2bdrA 175 1.42e+01 1g8kA 825 1.43e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1wkrA 340 1.46e+01 b.50.1.2 109395 1fs0E 138 1.53e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1g94A 448 1.53e+01 b.71.1.1,c.1.8.1 65169,65170 1ifrA 121 1.54e+01 b.1.16.1 71203 2fomB 185 1.54e+01 1o66A 275 1.56e+01 c.1.12.8 92547 1ftrA 296 1.58e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1wh0A 134 1.61e+01 1yz1A 174 1.66e+01 1lo6A 223 1.66e+01 b.47.1.2 74143 1o88A 353 1.70e+01 b.80.1.1 81178 1flcA 432 1.70e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1x8hA 228 1.72e+01 1uaiA 224 1.75e+01 b.29.1.18 107761 2b5eA 504 1.81e+01 1wbiA 129 1.82e+01 1xezA 721 1.85e+01 1fecA 490 1.86e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1n9pA 207 1.87e+01 b.1.18.16 80343 2a5zA 262 1.88e+01 1b65A 375 1.92e+01 1b65A d.154.1.1 42020 1nbaA 264 2.13e+01 1nbaA c.33.1.3 31753 1jndA 420 2.16e+01 c.1.8.5,d.26.3.1 71757,71758 1rhs 296 2.16e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1yg9A 330 2.17e+01 1cb0A 283 2.17e+01 1cb0A c.56.2.1 33790 1z70X 311 2.17e+01 2gq1A 332 2.18e+01 1ze3C 205 2.25e+01 2bf6A 449 2.25e+01 1i60A 278 2.32e+01 c.1.15.4 71118 1vckA 115 2.33e+01 2asuB 234 2.36e+01 1osyA 115 2.42e+01 b.1.21.1 93502 1hzdA 272 2.43e+01 c.14.1.3 65969 1yhpA 212 2.52e+01 1f39A 101 2.56e+01 1umuA b.87.1.1 28386 1t0bA 252 2.58e+01 c.23.16.6 106199 1q0eA 152 2.61e+01 b.1.8.1 95504 2cb2A 318 2.65e+01 1te5A 257 2.66e+01 d.153.1.1 106795 1bb9 115 2.69e+01 1bb9 b.34.2.1 24554 1plc 99 2.74e+01 1plc b.6.1.1 22846 1lba 146 2.78e+01 1lba d.118.1.1 41062 2aeeA 211 2.80e+01 1en2A 89 2.81e+01 1hev g.3.1.1,g.3.1.1 44048,44049 1k32A 1045 2.86e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1vkpA 383 2.87e+01 d.126.1.6 108686 1m8aA 70 2.87e+01 d.9.1.1 74579 1g3kA 174 2.89e+01 1nedA d.153.1.4 41989 1aohA 147 2.94e+01 1aohA b.2.2.2 22401 1nszA 347 2.94e+01 b.30.5.4 80724 1yzyA 413 2.95e+01 2bryA 497 2.95e+01 1tg0A 68 3.00e+01 1vkkA 154 3.07e+01 d.109.1.2 108669 1e9pA 151 3.09e+01 1mfmA b.1.8.1 22215 1k0wA 231 3.15e+01 c.74.1.1 77220 2cn3A 737 3.16e+01 1oewA 329 3.21e+01 b.50.1.2 86924 1qreA 247 3.22e+01 1qreA b.81.1.5 28066 1tqyA 424 3.24e+01 c.95.1.1,c.95.1.1 107245,107246 1zowA 313 3.24e+01 1v8yA 170 3.27e+01 1pixA 587 3.28e+01 c.14.1.4 94708 1u4gA 301 3.29e+01 d.92.1.2 107670 2d7nA 93 3.29e+01 1suwA 249 3.32e+01 e.52.1.1 106027 1h8eD 482 3.33e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1vf8A 377 3.35e+01 1dq3A 454 3.38e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1j05A 111 3.40e+01 b.1.1.1 90735 1oalA 151 3.41e+01 b.1.8.1 86739 1ku0A 388 3.44e+01 c.69.1.18 72994 2apxA 112 3.45e+01 1i1jA 108 3.51e+01 1i1jA b.34.2.1 61531 1ti6A 875 3.53e+01 b.52.2.2,c.81.1.1 106974,106975 1nr0A 611 3.54e+01 b.69.4.1,b.69.4.1 86078,86079 1oa2A 218 3.58e+01 b.29.1.11 86721 1yifA 533 3.58e+01 1ynfA 458 3.64e+01 2brcA 214 3.69e+01 1ncwH 222 3.71e+01 b.1.1.1,b.1.1.2 85555,85556 1uufA 369 3.71e+01 b.35.1.2,c.2.1.1 100006,100007 2avtA 378 3.73e+01 1hs6A 611 3.76e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1914 232 3.82e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1w1oA 534 3.84e+01 d.58.32.4,d.145.1.1 109071,109072 1y0zA 330 3.84e+01 1qf5A 431 3.86e+01 1adeA c.37.1.10 32212 1udc 338 3.90e+01 1xel c.2.1.2 29785 1rds 105 3.90e+01 9rnt d.1.1.4 36236 1itvA 195 3.92e+01 b.66.1.1 76791 2gjgA 248 3.94e+01 1dqpA 230 3.95e+01 1dqnA c.61.1.1 34069 2evbA 74 3.95e+01 1v9tA 166 4.02e+01 b.62.1.1 108451 1nbwA 607 4.02e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1kbvA 327 4.07e+01 b.6.1.3,b.6.1.3 68395,68396 1uebA 184 4.09e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1o0xA 262 4.09e+01 d.127.1.1 80755 1h8eA 510 4.13e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1m2oA 768 4.13e+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 1mjuH 227 4.15e+01 b.1.1.1,b.1.1.2 91302,91303 1g1kA 143 4.24e+01 1aohA b.2.2.2 22404 1iyeA 309 4.28e+01 e.17.1.1 83786 1poiB 260 4.36e+01 1poiB c.124.1.3 34155 1n0xH 230 4.36e+01 b.1.1.1,b.1.1.2 91528,91529 1q0qA 406 4.39e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1y1nA 291 4.39e+01 1ybiA 288 4.40e+01 1dekA 241 4.45e+01 1dekA c.37.1.1 31842 1u5uA 374 4.47e+01 4cpv 109 4.54e+01 1a75A a.39.1.4 17198 1wrjA 156 4.55e+01 1x7oA 287 4.59e+01 1jmcA 246 4.64e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1o7nB 194 4.68e+01 d.17.4.4 81164 1at0 145 4.70e+01 1at0 b.86.1.1 28374 1kutA 230 4.71e+01 d.143.1.1 73017 1ooyA 481 4.72e+01 c.124.1.3,c.124.1.2 93388,93389 2culA 232 4.74e+01 1kblA 873 4.76e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1who 96 4.77e+01 1who b.7.3.1 23215 1qmyA 167 4.89e+01 1qmyA d.3.1.2 37094 1sc6A 404 4.92e+01 2d1eA 248 4.99e+01 1pne 140 5.01e+01 1pne d.110.1.1 40866 1gxjA 186 5.04e+01 d.215.1.1 70707 1idk 359 5.11e+01 1qcxA b.80.1.2 28025 1xwvA 129 5.12e+01 1ek6A 348 5.16e+01 1xel c.2.1.2 29800 1z8gA 372 5.19e+01 1f1gA 154 5.21e+01 b.1.8.1 76153 2fbwA 621 5.23e+01 1i8kA 107 5.27e+01 b.1.1.1 71130 1tf1A 198 5.28e+01 d.110.2.2 106826 2g50A 530 5.41e+01 1cd9B 215 5.42e+01 1cto b.1.2.1,b.1.2.1 22041,22042 1n67A 359 5.43e+01 b.2.3.4,b.2.3.4 85354,85355 1umhA 184 5.46e+01 b.18.1.21 99605 2cxhA 217 5.46e+01 1zh5A 195 5.49e+01 1xffA 240 5.49e+01 d.153.1.1 109580 1ockA 412 5.51e+01 c.117.1.1 86802 1dykA 394 5.54e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1r6vA 671 5.60e+01 1jyoA 130 5.66e+01 d.198.1.1 67483 1vqoE 178 5.68e+01 1vkcA 158 5.68e+01 1usyA 275 5.75e+01 1e0tA 470 5.75e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2fsjA 346 5.79e+01 1ddlA 188 5.80e+01 1auyA b.121.4.6 23317 1v70A 105 5.81e+01 1l9kA 305 5.89e+01 c.66.1.25 84569 2c0rA 362 5.91e+01 2as0A 396 5.98e+01 1zuoA 186 6.02e+01 1rhfA 182 6.05e+01 b.1.1.1,b.1.1.4 97469,97470 1v9fA 325 6.07e+01 d.265.1.3 108448 1ww9A 392 6.07e+01 1yfnA 118 6.08e+01 1nqzA 194 6.11e+01 d.113.1.1 86077 1j3mA 129 6.17e+01 d.129.7.1 103836 1yp1A 202 6.19e+01 1jf9A 408 6.20e+01 1c0nA c.67.1.3 62931 1xocA 520 6.23e+01 1vlyA 338 6.32e+01 b.44.2.1,d.250.1.1 108871,108872 1pkoA 139 6.34e+01 b.1.1.1 88147 1xe1A 116 6.35e+01 b.43.3.1 109571 1yb3A 175 6.38e+01 1sddA 306 6.38e+01 b.6.1.3,b.6.1.3 105431,105432 1xn5A 146 6.39e+01 2foyA 260 6.41e+01 1uylA 236 6.52e+01 d.122.1.1 108147 1h5rA 293 6.52e+01 c.68.1.6 65623 1vk3A 615 6.60e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1zmaA 118 6.62e+01 2cwzA 141 6.65e+01 1q2yA 140 6.74e+01 d.108.1.1 95655 1v25A 541 6.78e+01 e.23.1.1 108275 1rlmA 271 6.87e+01 2fn0A 437 6.90e+01 1wqwA 235 6.91e+01 1qd6C 240 6.91e+01 1qd5A 1jmtA 104 6.94e+01 d.58.7.3 63180 1t3tA 1303 7.00e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1uldA 150 7.02e+01 b.29.1.3 99545 1fm0E 150 7.02e+01 1fmaE d.41.5.1 38629 2aukA 190 7.05e+01 1wruA 379 7.08e+01 1ig8A 486 7.09e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1mfmA 153 7.14e+01 1mfmA b.1.8.1 22246 1wmzA 140 7.15e+01 d.169.1.1 109422 1zlqA 502 7.15e+01 1orrA 347 7.18e+01 c.2.1.2 93460 1a7j 290 7.21e+01 1a7j c.37.1.6 31952 2airB 153 7.25e+01 2cfuA 658 7.26e+01 1mkaA 171 7.29e+01 1mkaA d.38.1.2 38543 1bw0A 416 7.31e+01 1bw0A c.67.1.1 34385 1pv1A 299 7.31e+01 1uacH 114 7.41e+01 b.1.1.1 99132 1jq5A 370 7.42e+01 e.22.1.2 67084 1ckaA 57 7.43e+01 1ckaA b.34.2.1 24459 1wdtA 665 7.45e+01 2ptd 298 7.46e+01 2plc c.1.18.2 29605 2gfaA 119 7.46e+01 1mbmA 198 7.57e+01 b.47.1.3 78916 1ww8A 439 7.57e+01 1up8A 598 7.59e+01 a.111.1.2 99710 1ci9A 392 7.61e+01 e.3.1.1 64767 1itxA 419 7.63e+01 c.1.8.5,d.26.3.1 71425,71426 1r1hA 696 7.63e+01 d.92.1.4 104756 1e7uA 961 7.64e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1w5qA 337 7.67e+01 2ghsA 326 7.67e+01 2alaA 391 7.70e+01 1dgwA 178 7.79e+01 1dgwA b.82.1.2 28090 1qznA 173 7.83e+01 b.2.2.2 104669 2gl5A 410 7.86e+01 2btvA 901 7.87e+01 2btvA e.28.1.1 43376 1ayaA 101 7.88e+01 1qadA d.93.1.1 40460 1qcxA 359 7.89e+01 1qcxA b.80.1.2 28028 1ljoA 77 7.91e+01 b.38.1.1 73941 1qx4A 274 7.91e+01 b.43.4.2,c.25.1.1 104624,104625 1xzwA 426 7.91e+01 2bjfA 329 7.94e+01 1rie 129 7.96e+01 1rie b.33.1.1 24427 1eg5A 384 8.03e+01 1ecxA c.67.1.3 34429 1wr8A 231 8.05e+01 1xniA 118 8.12e+01 1y7mA 164 8.12e+01 1a6cA 513 8.17e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 1c8uA 285 8.20e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1lurA 339 8.25e+01 b.30.5.4 84717 1ro5A 201 8.30e+01 d.108.1.3 105023 2bdvA 231 8.48e+01 1s6lA 212 8.49e+01 1hpcA 131 8.53e+01 1htp b.84.1.1 28221 1lvwA 295 8.53e+01 c.68.1.6 84723 2bsyA 278 8.60e+01 1ok8A 394 8.70e+01 b.1.18.4,f.10.1.1 93236,93237 2a74A 643 8.71e+01 1vfsA 386 8.72e+01 b.49.2.2,c.1.6.1 108584,108585 1uyjA 296 8.74e+01 f.8.1.2 108143 2f69A 261 8.77e+01 2d4qA 257 8.77e+01 1fdr 248 8.79e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1r85A 379 8.80e+01 c.1.8.3 104839 2av4A 162 8.80e+01 1e8pA 46 8.86e+01 g.55.1.1 59385