# List of top-scoring protein chains for t04-100-30-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 5.42e-01 1oaqL 120 7.02e-01 b.1.1.1 92708 1mfa 247 9.57e-01 1mfa b.1.1.1,b.1.1.1 19888,19889 1kgcD 206 1.02e+00 b.1.1.1,b.1.1.2 77384,77385 3bamA 213 1.02e+00 1bam c.52.1.3 33288 1c1lA 136 1.30e+00 1c1lA b.29.1.3 24219 1xtmA 175 1.60e+00 1abrB 267 1.88e+00 1abrB b.42.2.1,b.42.2.1 25563,25564 1txkA 498 1.96e+00 b.1.18.2,b.30.5.9 107425,107426 1kmoA 774 1.96e+00 f.4.3.3 72753 2fimA 276 2.03e+00 2fazA 78 2.05e+00 1zn8A 180 2.11e+00 2bg9A 370 2.46e+00 2blnA 305 2.66e+00 1rsgA 516 2.90e+00 2giyA 191 3.00e+00 1ok0A 74 3.31e+00 b.5.1.1 93191 1yhfA 115 3.50e+00 1amk 251 3.53e+00 1amk c.1.1.1 28503 1id0A 152 3.53e+00 d.122.1.3 66111 1kapP 479 3.57e+00 1sat b.80.7.1,d.92.1.6 28012,40298 2fbjL 213 4.24e+00 8fabA b.1.1.1,b.1.1.2 19850,20954 1hoe 74 4.30e+00 1hoe b.5.1.1 22833 1ton 235 5.37e+00 5ptp b.47.1.2 26307 1wp5A 323 5.37e+00 1exmA 405 5.40e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1shsA 147 5.48e+00 1shsA b.15.1.1 23675 2c78A 405 5.51e+00 1v0eA 666 6.06e+00 1v6fA 151 6.08e+00 d.109.1.2 108395 1o9wA 177 6.09e+00 b.2.3.5 86713 1ojqA 212 6.34e+00 d.166.1.1 93146 1kqfB 294 6.45e+00 d.58.1.5,f.23.22.1 75900,75901 1lyxA 248 6.89e+00 c.1.1.1 78304 1psuA 140 7.49e+00 d.38.1.5 88285 1j7xA 302 7.74e+00 c.14.1.2 66425 1hkkA 364 7.83e+00 c.1.8.5,d.26.3.1 90634,90635 1pamA 686 7.92e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740 1d3cA 686 7.96e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1bpoA 494 8.12e+00 1bpoA a.118.1.4,b.69.6.1 19143,27670 1d2oA 187 8.78e+00 1d2oA b.3.5.1,b.3.5.1 22625,22626 1ha3A 405 8.92e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1po0A 751 9.02e+00 f.4.3.3 94960 1ji1A 637 9.65e+00 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1w9pA 433 1.00e+01 2fhxA 246 1.01e+01 1wdkC 390 1.03e+01 c.95.1.1,c.95.1.1 109258,109259 1sz6B 263 1.07e+01 1z6bA 154 1.08e+01 1i8aA 189 1.11e+01 1i82A b.1.9.2 61951 2bibA 547 1.13e+01 1w9zA 283 1.13e+01 1fcjA 322 1.16e+01 1oasA c.79.1.1 35289 1dqgA 135 1.24e+01 1dqgA b.42.2.2 25579 2sns 149 1.24e+01 1snc b.40.1.1 24860 1ui7A 638 1.24e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 2fs2A 151 1.26e+01 1lvmA 229 1.28e+01 b.47.1.3 78243 1yf3A 259 1.29e+01 1lml 478 1.32e+01 1lml d.92.1.3 40295 1s31A 273 1.37e+01 1euwA 152 1.37e+01 1dupA b.85.4.1 28349 1o9yA 84 1.40e+01 b.139.1.1 92692 1l1qA 186 1.41e+01 c.61.1.1 77653 1y08A 323 1.43e+01 1q2bA 434 1.44e+01 b.29.1.10 95624 1ecfA 504 1.45e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1yo1A 260 1.48e+01 1y7rA 133 1.50e+01 1uteA 313 1.54e+01 1uteA d.159.1.1 42078 1umwA 237 1.55e+01 d.223.1.2,d.223.1.2 99631,99632 1uh4A 637 1.55e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1agjA 242 1.56e+01 1agjA b.47.1.1 25827 1ijqA 316 1.64e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1fr7A 260 1.68e+01 2cba b.74.1.1 27828 1xhdA 173 1.76e+01 1b12A 248 1.83e+01 1b12A b.87.1.2 28388 2gpzA 111 1.85e+01 1earA 147 1.88e+01 b.107.1.1,d.58.38.1 64875,64876 1wb0A 445 1.89e+01 1c3mA 147 1.90e+01 1jotA b.77.3.1 27983 2bdrA 175 1.95e+01 1g94A 448 1.98e+01 b.71.1.1,c.1.8.1 65169,65170 1qhdA 398 1.98e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1ftrA 296 2.08e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1wh0A 134 2.08e+01 1ndh 272 2.09e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2aaiB 262 2.09e+01 1abrB b.42.2.1,b.42.2.1 25561,25562 1g8kA 825 2.11e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1o66A 275 2.13e+01 c.1.12.8 92547 2fomB 185 2.14e+01 1wkrA 340 2.14e+01 b.50.1.2 109395 1fs0E 138 2.17e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1owqA 361 2.20e+01 c.1.8.5,d.26.3.1 104041,104042 2b5eA 504 2.32e+01 1tvkA 440 2.34e+01 c.32.1.1,d.79.2.1 107362,107363 1oi1A 221 2.34e+01 b.34.9.3,b.34.9.3 87037,87038 1fecA 490 2.36e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1ax0 239 2.36e+01 1led b.29.1.1 24042 1yz1A 174 2.40e+01 1flcA 432 2.46e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1ifrA 121 2.49e+01 b.1.16.1 71203 1lo6A 223 2.49e+01 b.47.1.2 74143 1z6jT 211 2.51e+01 1wbiA 129 2.52e+01 1n9pA 207 2.54e+01 b.1.18.16 80343 1x8hA 228 2.56e+01 1b65A 375 2.57e+01 1b65A d.154.1.1 42020 1sotA 320 2.61e+01 b.36.1.4,b.47.1.1 105852,105853 1z70X 311 2.62e+01 1uaiA 224 2.63e+01 b.29.1.18 107761 2gq1A 332 2.63e+01 2a5zA 262 2.64e+01 1cb0A 283 2.66e+01 1cb0A c.56.2.1 33790 1rhs 296 2.80e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1o88A 353 2.82e+01 b.80.1.1 81178 1xezA 721 2.82e+01 1yaiA 151 2.87e+01 1yaiA b.1.8.1 22289 1gzgA 337 2.89e+01 c.1.10.3 70805 2bf6A 449 2.92e+01 1yg9A 330 3.00e+01 1a6wL 109 3.09e+01 1mfa b.1.1.1 20252 1ze3C 205 3.12e+01 1t0bA 252 3.24e+01 c.23.16.6 106199 1hzdA 272 3.25e+01 c.14.1.3 65969 1jndA 420 3.29e+01 c.1.8.5,d.26.3.1 71757,71758 1nbaA 264 3.29e+01 1nbaA c.33.1.3 31753 1lba 146 3.31e+01 1lba d.118.1.1 41062 1ll7A 392 3.35e+01 c.1.8.5,d.26.3.1 78085,78086 2asuB 234 3.35e+01 1yhpA 212 3.40e+01 1vhzA 198 3.41e+01 d.113.1.1 100718 1vckA 115 3.42e+01 2cb2A 318 3.42e+01 1ztxE 108 3.46e+01 1i60A 278 3.47e+01 c.1.15.4 71118 1led 243 3.59e+01 1led b.29.1.1 24039 1k32A 1045 3.62e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1en2A 89 3.66e+01 1hev g.3.1.1,g.3.1.1 44048,44049 6cel 434 3.67e+01 1celA b.29.1.10 24279 1te5A 257 3.70e+01 d.153.1.1 106795 1f39A 101 3.71e+01 1umuA b.87.1.1 28386 2aeeA 211 3.76e+01 1xa0A 328 3.76e+01 1bb9 115 3.79e+01 1bb9 b.34.2.1 24554 1vkpA 383 3.81e+01 d.126.1.6 108686 1egnA 434 3.88e+01 1celA b.29.1.10 59411 1plc 99 3.92e+01 1plc b.6.1.1 22846 1q0eA 152 3.95e+01 b.1.8.1 95504 1j2aA 166 3.98e+01 b.62.1.1 90779 2er7E 330 3.98e+01 2er7E b.50.1.2 26779 2b59A 187 4.03e+01 1nszA 347 4.08e+01 b.30.5.4 80724 1g3kA 174 4.15e+01 1nedA d.153.1.4 41989 1oewA 329 4.17e+01 b.50.1.2 86924 2d7nA 93 4.19e+01 1yzyA 413 4.26e+01 1jjeA 222 4.27e+01 1a7tA d.157.1.1 63117 2bsdA 264 4.28e+01 1d2kA 392 4.28e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 1m8aA 70 4.30e+01 d.9.1.1 74579 1vkkA 154 4.33e+01 d.109.1.2 108669 1osyA 115 4.37e+01 b.1.21.1 93502 1wdxA 69 4.38e+01 1qreA 247 4.43e+01 1qreA b.81.1.5 28066 1cbjA 151 4.45e+01 1mfmA b.1.8.1 22213 1w1oA 534 4.48e+01 d.58.32.4,d.145.1.1 109071,109072 1tqyA 424 4.48e+01 c.95.1.1,c.95.1.1 107245,107246 1tg0A 68 4.49e+01 1fnc 314 4.50e+01 1fnc b.43.4.2,c.25.1.1 25627,31517 1dq3A 454 4.52e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1zowA 313 4.56e+01 1aohA 147 4.59e+01 1aohA b.2.2.2 22401 2bryA 497 4.61e+01 1k0wA 231 4.62e+01 c.74.1.1 77220 1ti6A 875 4.62e+01 b.52.2.2,c.81.1.1 106974,106975 1u4gA 301 4.64e+01 d.92.1.2 107670 1suwA 249 4.64e+01 e.52.1.1 106027 1v8yA 170 4.67e+01 1ah6 220 4.67e+01 1yer d.122.1.1 41094 1e9pA 151 4.68e+01 1mfmA b.1.8.1 22215 1oalA 151 4.69e+01 b.1.8.1 86739 2apxA 112 4.71e+01 1su4A 994 4.74e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 2breA 219 4.76e+01 1pixA 587 4.78e+01 c.14.1.4 94708 1vr1H 261 4.81e+01 5ptp 1qniA 581 4.84e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 1oa2A 218 4.90e+01 b.29.1.11 86721 1ynfA 458 4.91e+01 1i1jA 108 4.97e+01 1i1jA b.34.2.1 61531 1914 232 5.01e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1j05A 111 5.04e+01 b.1.1.1 90735 1y0zA 330 5.06e+01 1n0xH 230 5.13e+01 b.1.1.1,b.1.1.2 91528,91529 1uiuA 502 5.13e+01 c.94.1.1 99434 1itvA 195 5.14e+01 b.66.1.1 76791 1qf5A 431 5.14e+01 1adeA c.37.1.10 32212 1w5nA 337 5.15e+01 1ncwH 222 5.18e+01 b.1.1.1,b.1.1.2 85555,85556 1nbwA 607 5.22e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1vf8A 377 5.28e+01 2brcA 214 5.31e+01 2cn3A 737 5.33e+01 2avtA 378 5.35e+01 1uebA 184 5.36e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1nr0A 611 5.40e+01 b.69.4.1,b.69.4.1 86078,86079 1ku0A 388 5.43e+01 c.69.1.18 72994 1kbvA 327 5.48e+01 b.6.1.3,b.6.1.3 68395,68396 1hs6A 611 5.50e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1lxa 262 5.53e+01 1lxa b.81.1.1 28052 1v9tA 166 5.55e+01 b.62.1.1 108451 1eg9B 194 5.56e+01 1ndoB d.17.4.4 38120 1o0xA 262 5.57e+01 d.127.1.1 80755 1yifA 533 5.60e+01 2reb 352 5.66e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1eq6A 189 5.69e+01 1eq6A d.107.1.1 40796 1mjuH 227 5.71e+01 b.1.1.1,b.1.1.2 91302,91303 1g1kA 143 5.75e+01 1aohA b.2.2.2 22404 1aszB 490 5.75e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 2gjgA 248 5.76e+01 1h8eA 510 5.76e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1udc 338 5.79e+01 1xel c.2.1.2 29785 1rds 105 5.86e+01 9rnt d.1.1.4 36236 1uufA 369 5.90e+01 b.35.1.2,c.2.1.1 100006,100007 1h8eD 482 5.92e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1yuwA 554 5.93e+01 1poiB 260 5.96e+01 1poiB c.124.1.3 34155 1m2oA 768 6.00e+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 1y5iA 1246 6.02e+01 1q0qA 406 6.03e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1mp4A 292 6.06e+01 c.68.1.6 79376 1o7nB 194 6.16e+01 d.17.4.4 81164 2d1eA 248 6.17e+01 1mjc 69 6.24e+01 1mjc b.40.4.5 25319 2evbA 74 6.24e+01 1x7oA 287 6.27e+01 1ybiA 288 6.27e+01 1dekA 241 6.35e+01 1dekA c.37.1.1 31842 1kutA 230 6.36e+01 d.143.1.1 73017 4cpv 109 6.43e+01 1a75A a.39.1.4 17198 1dqpA 230 6.45e+01 1dqnA c.61.1.1 34069 1wrjA 156 6.52e+01 1ockA 412 6.53e+01 c.117.1.1 86802 1ooyA 481 6.56e+01 c.124.1.3,c.124.1.2 93388,93389 1nt0A 286 6.59e+01 b.23.1.1,b.23.1.1,g.3.11.1 86143,86144,86145 1u5uA 374 6.59e+01 1xwvA 129 6.66e+01 1y1nA 291 6.68e+01 1sc6A 404 6.68e+01 1dykA 394 6.71e+01 1dykA b.29.1.4,b.29.1.4 24223,24224 1n67A 359 6.71e+01 b.2.3.4,b.2.3.4 85354,85355 1i8kA 107 6.87e+01 b.1.1.1 71130 1ww9A 392 6.92e+01 1idk 359 6.94e+01 1qcxA b.80.1.2 28025 1t5yA 190 6.98e+01 b.122.1.1,d.17.6.3 106495,106496 1iyeA 309 7.04e+01 e.17.1.1 83786 1xx9A 238 7.07e+01 2as0A 396 7.08e+01 1c8zA 265 7.11e+01 1c8zA d.23.1.1 38375 1at0 145 7.14e+01 1at0 b.86.1.1 28374 1who 96 7.14e+01 1who b.7.3.1 23215 1thjA 214 7.20e+01 1qreA b.81.1.5 28072 1pne 140 7.25e+01 1pne d.110.1.1 40866 1r6vA 671 7.30e+01 1gxjA 186 7.32e+01 d.215.1.1 70707 1kblA 873 7.36e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1tf1A 198 7.40e+01 d.110.2.2 106826 1y1jX 311 7.40e+01 1z8gA 372 7.46e+01 1jyoA 130 7.57e+01 d.198.1.1 67483 2cxhA 217 7.59e+01 1vkcA 158 7.61e+01 1vqoE 178 7.64e+01 1ddmA 135 7.72e+01 2nmbA b.55.1.2 26993 1ek6A 348 7.73e+01 1xel c.2.1.2 29800 2culA 232 7.73e+01 1l9kA 305 7.74e+01 c.66.1.25 84569 1jmcA 246 7.79e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1tltA 319 7.81e+01 c.2.1.3,d.81.1.5 107135,107136 2fsjA 346 7.83e+01 1e0tA 470 7.84e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1v9fA 325 7.90e+01 d.265.1.3 108448 2g50A 530 7.91e+01 1umhA 184 7.93e+01 b.18.1.21 99605 1zh5A 195 7.95e+01 1v70A 105 8.03e+01 1nqzA 194 8.09e+01 d.113.1.1 86077 1usyA 275 8.09e+01 2airB 153 8.16e+01 2c0rA 362 8.17e+01 1pkoA 139 8.20e+01 b.1.1.1 88147 1qbkB 890 8.21e+01 1qbkB a.118.1.1 19127 1vlyA 338 8.22e+01 b.44.2.1,d.250.1.1 108871,108872 1xe1A 116 8.24e+01 b.43.3.1 109571 1xffA 240 8.32e+01 d.153.1.1 109580 1dmtA 696 8.33e+01 1dmtA d.92.1.4 40296 1w5qA 337 8.44e+01 1kay 381 8.46e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1xtlA 175 8.59e+01 2fn0A 437 8.61e+01 2foyA 260 8.62e+01 1v25A 541 8.70e+01 e.23.1.1 108275 1i1kA 309 8.71e+01 1daaA e.17.1.1 61533 1yfnA 118 8.74e+01 1f1gA 154 8.75e+01 b.1.8.1 76153 1qmyA 167 8.84e+01 1qmyA d.3.1.2 37094 1jf9A 408 8.84e+01 1c0nA c.67.1.3 62931 1xx0A 127 8.92e+01 1przA 252 8.97e+01 d.265.1.3 95064 1ni5A 433 8.99e+01 c.26.2.5,d.229.1.1 80533,80534