# List of top-scoring protein chains for t04-100-30-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 1nxmA 197 5.58e-02 b.82.1.1 86385 1vqoW 154 6.53e-01 1jj2V 154 8.02e-01 1ffkT d.59.1.1 63107 1s72W 154 8.06e-01 d.59.1.1 105342 1z90A 469 1.56e+00 1pk6A 133 1.77e+00 b.22.1.1 94801 1svpA 161 2.04e+00 1svpA b.47.1.3 26384 1d7yA 408 2.45e+00 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1m98A 317 3.01e+00 a.175.1.1,d.17.4.6 78866,78867 3nul 130 3.27e+00 3nul d.110.1.1 40891 2fcr 173 3.32e+00 1rcf c.23.5.1 31151 1q8bA 105 3.90e+00 d.58.4.6 96201 1f9zA 135 3.96e+00 1qipA d.32.1.1 38484 1jlnA 297 4.39e+00 1pty c.45.1.2 63172 1zgkA 308 4.71e+00 1fa8A 135 4.79e+00 1qipA d.32.1.1 38486 1u6dX 308 5.14e+00 1jtdB 273 5.19e+00 b.69.5.2 67265 2fp8A 322 5.55e+00 1qipA 183 5.61e+00 1qipA d.32.1.1 38470 1pm3A 78 5.63e+00 b.41.1.2 94889 1h8gA 95 5.64e+00 b.109.1.1 65735 1oboA 169 5.68e+00 c.23.5.1 86776 2awaA 390 5.74e+00 1el4A 195 6.20e+00 1ej3A a.39.1.5 59453 2ghsA 326 6.27e+00 1qv1A 195 6.29e+00 a.39.1.5 96347 2bepA 159 6.36e+00 1o5uA 101 6.53e+00 b.82.1.8 92518 1y6iA 233 7.00e+00 1juhA 350 7.27e+00 b.82.1.5 71884 2bryA 497 7.29e+00 1rcf 169 7.49e+00 1rcf c.23.5.1 31170 1wwrA 171 7.59e+00 1prs 173 7.65e+00 1prs b.11.1.1,b.11.1.1 23625,23626 1ywfA 296 7.68e+00 1s4iA 175 7.81e+00 2fqpA 97 8.08e+00 1nziA 159 8.16e+00 b.23.1.1,g.3.11.1 86449,86450 1wkqA 164 8.40e+00 c.97.1.2 109393 1khdA 345 8.73e+00 a.46.2.1,c.27.1.1 77400,77401 1xtmA 175 8.95e+00 1gmeA 151 9.50e+00 b.15.1.1 65305 1cc1L 498 9.67e+00 1h2rL e.18.1.1 43301 1oneA 436 9.75e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1khiA 176 9.85e+00 b.34.5.2,b.40.4.5 77408,77409 1jf2A 195 9.91e+00 1ej3A a.39.1.5 62930 2f5tX 233 1.07e+01 1ww9A 392 1.07e+01 1xtlA 175 1.09e+01 1o12A 376 1.09e+01 b.92.1.5,c.1.9.10 80758,80759 1u2cA 246 1.10e+01 b.1.6.2,d.272.1.1 107610,107611 1p5zB 263 1.15e+01 c.37.1.1 87815 1gmmA 133 1.16e+01 b.18.1.10 65314 1m1fA 110 1.18e+01 b.34.6.2 78401 2al1A 436 1.21e+01 1npsA 88 1.24e+01 1prs b.11.1.1 23622 1c4rA 182 1.26e+01 1c4rA b.29.1.4 24229 1qyaA 307 1.27e+01 d.21.1.2,d.21.1.2 104653,104654 2ge3A 170 1.27e+01 1syxB 86 1.31e+01 1pot 325 1.32e+01 1pot c.94.1.1 35807 1eo1A 124 1.33e+01 1eo1A c.55.5.1 33739 1q8fA 313 1.38e+01 c.70.1.1 96203 1z4rA 168 1.40e+01 4enl 436 1.44e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1vp4A 425 1.53e+01 1eur 365 1.54e+01 1eut b.68.1.1 27607 1yr0A 175 1.57e+01 1lfdA 87 1.57e+01 1lfdA d.15.1.5 37622 1ne8A 117 1.60e+01 b.34.6.2 80424 1yhfA 115 1.67e+01 2ahjA 206 1.69e+01 2ahjA d.149.1.1 41772 1rzhH 260 1.78e+01 b.41.1.1,f.23.10.1 98162,98163 1p1mA 406 1.79e+01 b.92.1.4,c.1.9.9 87696,87697 1woqA 267 1.81e+01 c.55.1.10,c.55.1.10 109462,109463 1jv1A 505 1.82e+01 c.68.1.5 71892 1qovH 260 1.83e+01 6prcH b.41.1.1,f.23.10.1 25464,43457 1j71A 334 1.86e+01 1eagA b.50.1.2 62669 1zq1A 438 1.86e+01 1p6oA 161 1.89e+01 c.97.1.2 94185 1df7A 159 1.92e+01 3dfr c.71.1.1 34885 1o97C 264 1.97e+01 c.26.2.3 81232 1noyA 388 1.97e+01 1clqA c.55.3.5 33713 1urrA 102 2.00e+01 d.58.10.1 107998 1vquA 374 2.02e+01 1r26A 125 2.06e+01 c.47.1.1 96847 1k6wA 426 2.11e+01 b.92.1.2,c.1.9.5 68236,68237 1xfsA 178 2.21e+01 d.129.3.5 109589 2gupA 292 2.21e+01 1ra0A 430 2.22e+01 1frrA 95 2.25e+01 1awd d.15.4.1 37674 2fvgA 340 2.29e+01 1gyfA 62 2.30e+01 1gyfA d.76.1.1 39749 1tw7A 99 2.37e+01 1rb9 53 2.37e+01 1rb9 g.41.5.1 45214 2al2A 436 2.42e+01 1xe7A 203 2.42e+01 1pcfA 66 2.42e+01 1pcfA d.18.1.1 38142 2cz1A 206 2.46e+01 2c4bA 143 2.51e+01 1t2wA 145 2.52e+01 b.100.1.1 106289 1vkdA 338 2.53e+01 b.67.2.4 108644 1uzkA 162 2.56e+01 1ew0A 130 2.59e+01 1drmA d.110.3.2 40905 1u9aA 160 2.62e+01 1u9aA d.20.1.1 38333 2as0A 396 2.67e+01 1ctt 294 2.69e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1uzpA 162 2.74e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 1kblA 873 2.75e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1yopA 83 2.76e+01 1ojqA 212 2.82e+01 d.166.1.1 93146 2grrA 161 2.84e+01 1lvoA 302 2.99e+01 b.47.1.4 74284 1cv8 174 2.99e+01 1cv8 d.3.1.1 37089 1erzA 303 3.02e+01 1erzA d.160.1.2 59498 1s4bP 674 3.03e+01 d.92.1.5 105252 1uf5A 303 3.05e+01 d.160.1.2 107808 1w8oA 601 3.12e+01 1i4uA 181 3.13e+01 b.60.1.1 61732 1v04A 355 3.24e+01 b.68.6.2 100240 1lcyA 325 3.24e+01 b.36.1.4,b.47.1.1 73834,73835 1yfuA 174 3.26e+01 1ecsA 126 3.27e+01 1ecsA d.32.1.2 59407 1j6pA 418 3.29e+01 b.92.1.4,c.1.9.9 77089,77090 1m4uA 206 3.35e+01 g.17.1.7 78625 1umgA 362 3.36e+01 d.280.1.1 107956 1wba 175 3.42e+01 1wba b.42.4.1 25591 2fa8A 105 3.42e+01 1sffA 426 3.64e+01 c.67.1.4 105482 1tiyA 164 3.64e+01 c.97.1.2 107012 1tupA 219 3.68e+01 1tupA b.2.5.2 22434 2fuvA 549 3.71e+01 2f1lA 187 3.71e+01 1kzkA 99 3.72e+01 b.50.1.1 73371 1zn6A 227 3.76e+01 1dik 874 3.78e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2biqA 219 3.80e+01 1kjvA 284 3.82e+01 b.1.1.2,d.19.1.1 77421,77422 2ampA 304 4.00e+01 1qwkA 317 4.00e+01 c.1.7.1 96482 1ufkA 254 4.05e+01 c.66.1.39 99340 1dx5I 118 4.16e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 2gwdA 449 4.25e+01 2amdA 311 4.32e+01 1lqsR 214 4.36e+01 b.1.2.1,b.1.2.1 74194,74195 1e44B 96 4.38e+01 1e44B b.101.1.1 59220 1nw3A 416 4.38e+01 c.66.1.31 86288 1r45A 204 4.50e+01 2ffsA 157 4.52e+01 1ri6A 343 4.54e+01 b.69.11.1 97503 1d4tA 104 4.57e+01 1d4tA d.93.1.1 40537 1vzwA 244 4.67e+01 1a2pA 110 4.67e+01 1b20A d.1.1.2 36140 1l7mA 211 4.68e+01 c.108.1.4 73664 1uolA 219 4.72e+01 b.2.5.2 99695 1zhhB 242 4.74e+01 1zn8A 180 4.80e+01 1j97A 211 4.86e+01 1f5sA c.108.1.4 62753 1xygD 359 4.87e+01 1u69A 163 4.89e+01 d.32.1.7 107699 1yh6A 179 4.95e+01 2c7xA 436 4.96e+01 2fymA 431 5.00e+01 1wr2A 238 5.06e+01 1wcqA 601 5.09e+01 3fruA 269 5.13e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 2f0aA 98 5.20e+01 1o22A 170 5.22e+01 d.238.1.1 86557 1qz8A 113 5.22e+01 b.140.1.1 96619 1vgjA 184 5.27e+01 1n3yA 198 5.27e+01 c.62.1.1 79976 2b59A 187 5.28e+01 1svvA 359 5.36e+01 c.67.1.1 106054 1vdxA 184 5.38e+01 2f4wA 187 5.45e+01 1xs1A 193 5.45e+01 1lvmA 229 5.53e+01 b.47.1.3 78243 2cw8A 537 5.56e+01 1bxoA 323 5.59e+01 2er7E b.50.1.2 26805 1evhA 112 5.63e+01 1evhA b.55.1.4 26997 1k0hA 117 5.68e+01 b.106.1.2 71975 1ca1 370 5.69e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1i1qA 520 5.72e+01 1qdlA d.161.1.1 61543 1lj2C 28 5.75e+01 2a5kA 307 5.84e+01 1kjkA 64 5.87e+01 d.10.1.4 72613 1vm8A 534 6.06e+01 1q2wA 308 6.14e+01 b.47.1.4 88355 1olzA 663 6.16e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 2ac0A 200 6.16e+01 2c9wA 169 6.18e+01 1xrtA 467 6.25e+01 1vplA 256 6.28e+01 1vbkA 307 6.30e+01 1lyvA 306 6.31e+01 c.45.1.2 74348 1vloA 381 6.35e+01 b.44.2.1,d.250.1.1 108838,108839 2fimA 276 6.37e+01 1l3lA 234 6.38e+01 a.4.6.2,d.110.5.1 73541,73542 2ftwA 521 6.54e+01 1txkA 498 6.60e+01 b.1.18.2,b.30.5.9 107425,107426 1dk0A 188 6.63e+01 1b2vA d.35.1.1 38530 1j7lA 264 6.65e+01 d.144.1.6 62697 1uv4A 293 6.67e+01 1p7gA 222 6.67e+01 a.2.11.1,d.44.1.1 94223,94224 1f37A 110 6.74e+01 1f37A c.47.1.11 33088 2iwaA 266 6.77e+01 2d7nA 93 6.79e+01 1wcdJ 441 6.87e+01 1m2dA 110 6.88e+01 c.47.1.11 78476 2acaA 189 7.17e+01 1ti6B 274 7.21e+01 b.3.5.1,d.58.1.5 106976,106977 1w6nA 134 7.27e+01 2fbeA 201 7.28e+01 1ccr 112 7.34e+01 1ycc a.3.1.1 15877 1gxqA 106 7.35e+01 a.4.6.1 70721 1r2rA 248 7.37e+01 c.1.1.1 96875 2cz2A 223 7.40e+01 4ubpC 570 7.40e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1qazA 351 7.45e+01 1qazA a.102.3.1 18848 1o50A 157 7.48e+01 d.37.1.1,d.37.1.1 92478,92479 1korA 400 7.57e+01 c.26.2.1,d.210.1.1 72824,72825 1kexA 155 7.63e+01 b.18.1.2 77350 1yaiA 151 7.70e+01 1yaiA b.1.8.1 22289 2bwnA 401 7.80e+01 1i5gA 144 7.83e+01 1ewxA c.47.1.10 61784 1sdjA 310 7.83e+01 d.21.1.2,d.21.1.2 98807,98808 1vr3A 191 7.84e+01 1ywsA 82 7.87e+01 1j1qA 261 7.92e+01 d.165.1.1 90768 1lurA 339 8.02e+01 b.30.5.4 84717 1xdfA 157 8.07e+01 1gzwA 134 8.09e+01 b.29.1.3 90535 1w2wB 191 8.18e+01 1ejxC 567 8.26e+01 b.92.1.1,c.1.9.2 83184,83185 1ml9A 302 8.27e+01 b.85.7.1 79282 1tph1 247 8.31e+01 1amk 1q2lA 939 8.40e+01 1yobA 179 8.45e+01 2b61A 377 8.50e+01 1w2lA 99 8.53e+01 2bkkA 264 8.55e+01 1ikpA 613 8.58e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1mxgA 435 8.61e+01 b.71.1.1,c.1.8.1 85193,85194 2sak 121 8.61e+01 2sak d.15.5.1 37711 1zkjA 359 8.62e+01 1ijaA 148 8.62e+01 1ijaA b.100.1.1 62484 1ro5A 201 8.65e+01 d.108.1.3 105023 1w9sA 142 8.67e+01 1tzfA 259 8.73e+01 c.68.1.13 107476 1kwsA 261 8.73e+01 c.68.1.7 73083 2gx9A 129 8.82e+01 1tf4A 605 8.88e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1uoyA 64 8.96e+01 g.3.19.1 99709