# List of top-scoring protein chains for t06-100-30-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 7.42e-02 b.82.1.1 86385 1vqoW 154 2.54e-01 1pk6A 133 9.78e-01 b.22.1.1 94801 1z90A 469 1.19e+00 1svpA 161 1.27e+00 1svpA b.47.1.3 26384 3nul 130 1.38e+00 3nul d.110.1.1 40891 1f9zA 135 1.46e+00 1qipA d.32.1.1 38484 1wwrA 171 2.32e+00 2fcr 173 2.36e+00 1rcf c.23.5.1 31151 1qipA 183 2.87e+00 1qipA d.32.1.1 38470 1oneA 436 2.89e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1q8fA 313 3.08e+00 c.70.1.1 96203 2bryA 497 3.17e+00 2ghsA 326 3.20e+00 1m98A 317 3.29e+00 a.175.1.1,d.17.4.6 78866,78867 1pm3A 78 3.36e+00 b.41.1.2 94889 2fp8A 322 3.48e+00 1oboA 169 3.62e+00 c.23.5.1 86776 1jtdB 273 3.65e+00 b.69.5.2 67265 2al1A 436 3.77e+00 2bepA 159 3.78e+00 1qv1A 195 4.21e+00 a.39.1.5 96347 1q8bA 105 4.37e+00 d.58.4.6 96201 1o5uA 101 4.53e+00 b.82.1.8 92518 2f5tX 233 4.68e+00 1p5zB 263 4.85e+00 c.37.1.1 87815 1s4iA 175 5.12e+00 1u2cA 246 5.15e+00 b.1.6.2,d.272.1.1 107610,107611 1syxB 86 5.39e+00 1ne8A 117 5.39e+00 b.34.6.2 80424 1khdA 345 5.42e+00 a.46.2.1,c.27.1.1 77400,77401 1zgkA 308 5.48e+00 1xtmA 175 5.69e+00 1ywfA 296 5.69e+00 1nziA 159 5.77e+00 b.23.1.1,g.3.11.1 86449,86450 1wkqA 164 6.12e+00 c.97.1.2 109393 1qyaA 307 6.53e+00 d.21.1.2,d.21.1.2 104653,104654 1ww9A 392 6.62e+00 1eo1A 124 7.24e+00 1eo1A c.55.5.1 33739 1o12A 376 7.52e+00 b.92.1.5,c.1.9.10 80758,80759 1o97C 264 7.80e+00 c.26.2.3 81232 1npsA 88 8.20e+00 1prs b.11.1.1 23622 1j71A 334 8.36e+00 1eagA b.50.1.2 62669 1juhA 350 8.52e+00 b.82.1.5 71884 1c4rA 182 8.78e+00 1c4rA b.29.1.4 24229 2al2A 436 8.79e+00 1t2wA 145 8.90e+00 b.100.1.1 106289 1df7A 159 9.02e+00 3dfr c.71.1.1 34885 1z4rA 168 9.02e+00 1lcyA 325 9.02e+00 b.36.1.4,b.47.1.1 73834,73835 1khiA 176 9.29e+00 b.34.5.2,b.40.4.5 77408,77409 1rb9 53 9.37e+00 1rb9 g.41.5.1 45214 1xfsA 178 9.39e+00 d.129.3.5 109589 1woqA 267 9.40e+00 c.55.1.10,c.55.1.10 109462,109463 1m1fA 110 9.78e+00 b.34.6.2 78401 1v04A 355 9.82e+00 b.68.6.2 100240 2ge3A 170 9.98e+00 1vp4A 425 9.98e+00 1u9aA 160 1.06e+01 1u9aA d.20.1.1 38333 1pot 325 1.07e+01 1pot c.94.1.1 35807 1vkdA 338 1.09e+01 b.67.2.4 108644 1lfdA 87 1.10e+01 1lfdA d.15.1.5 37622 1rzhH 260 1.12e+01 b.41.1.1,f.23.10.1 98162,98163 2grrA 161 1.13e+01 2gupA 292 1.19e+01 1urrA 102 1.21e+01 d.58.10.1 107998 1p6oA 161 1.21e+01 c.97.1.2 94185 1u69A 163 1.24e+01 d.32.1.7 107699 2as0A 396 1.27e+01 2fvgA 340 1.28e+01 1gmeA 151 1.32e+01 b.15.1.1 65305 1vquA 374 1.33e+01 1frrA 95 1.38e+01 1awd d.15.4.1 37674 2c4bA 143 1.38e+01 1umgA 362 1.46e+01 d.280.1.1 107956 1dx5I 118 1.46e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1p1mA 406 1.50e+01 b.92.1.4,c.1.9.9 87696,87697 1pcfA 66 1.61e+01 1pcfA d.18.1.1 38142 1ojqA 212 1.62e+01 d.166.1.1 93146 1uzkA 162 1.63e+01 1ew0A 130 1.63e+01 1drmA d.110.3.2 40905 1noyA 388 1.64e+01 1clqA c.55.3.5 33713 1jv1A 505 1.68e+01 c.68.1.5 71892 1tw7A 99 1.69e+01 1olzA 663 1.72e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 2ffsA 157 1.76e+01 2fqpA 97 1.76e+01 1ecsA 126 1.77e+01 1ecsA d.32.1.2 59407 1lvmA 229 1.80e+01 b.47.1.3 78243 1ctt 294 1.84e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1uzpA 162 1.89e+01 g.3.11.1,g.3.11.1,g.23.1.1 100232,100233,100234 1yhfA 115 1.90e+01 1r26A 125 1.91e+01 c.47.1.1 96847 1kblA 873 1.94e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1bxoA 323 1.95e+01 2er7E b.50.1.2 26805 1ra0A 430 1.99e+01 1e44B 96 2.00e+01 1e44B b.101.1.1 59220 2fa8A 105 2.03e+01 1k0hA 117 2.05e+01 b.106.1.2 71975 1m4uA 206 2.10e+01 g.17.1.7 78625 1qz8A 113 2.11e+01 b.140.1.1 96619 1lvoA 302 2.12e+01 b.47.1.4 74284 1w8oA 601 2.13e+01 1zhhB 242 2.16e+01 1i4uA 181 2.18e+01 b.60.1.1 61732 1xe7A 203 2.19e+01 1qwkA 317 2.21e+01 c.1.7.1 96482 1j1qA 261 2.22e+01 d.165.1.1 90768 1uf5A 303 2.32e+01 d.160.1.2 107808 1wr2A 238 2.35e+01 1sffA 426 2.36e+01 c.67.1.4 105482 2biqA 219 2.37e+01 2f4wA 187 2.38e+01 1uv4A 293 2.40e+01 1a2pA 110 2.41e+01 1b20A d.1.1.2 36140 1lj2C 28 2.41e+01 1wcdJ 441 2.44e+01 1yopA 83 2.51e+01 2gwdA 449 2.52e+01 2amdA 311 2.54e+01 1zn8A 180 2.54e+01 1mxgA 435 2.60e+01 b.71.1.1,c.1.8.1 85193,85194 2fymA 431 2.60e+01 1vzwA 244 2.68e+01 2iwaA 266 2.71e+01 2f1lA 187 2.76e+01 3fruA 269 2.87e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1kjkA 64 2.90e+01 d.10.1.4 72613 1svvA 359 2.96e+01 c.67.1.1 106054 1kjvA 284 2.97e+01 b.1.1.2,d.19.1.1 77421,77422 2ac0A 200 2.98e+01 1l7mA 211 3.01e+01 c.108.1.4 73664 1nw3A 416 3.01e+01 c.66.1.31 86288 2fuvA 549 3.02e+01 2gaxA 135 3.07e+01 1evhA 112 3.14e+01 1evhA b.55.1.4 26997 1n3yA 198 3.16e+01 c.62.1.1 79976 1yfuA 174 3.18e+01 2f0aA 98 3.20e+01 1ri6A 343 3.30e+01 b.69.11.1 97503 1s4bP 674 3.32e+01 d.92.1.5 105252 1m2dA 110 3.33e+01 c.47.1.11 78476 1ufkA 254 3.34e+01 c.66.1.39 99340 1zn6A 227 3.37e+01 1lk2A 274 3.43e+01 b.1.1.2,d.19.1.1 91056,91057 1gxqA 106 3.43e+01 a.4.6.1 70721 1w2wB 191 3.50e+01 1dk0A 188 3.57e+01 1b2vA d.35.1.1 38530 1w6nA 134 3.57e+01 1h6hA 143 3.60e+01 d.189.1.1 65681 1lyvA 306 3.68e+01 c.45.1.2 74348 2cz2A 223 3.80e+01 1zkjA 359 3.80e+01 1cv8 174 3.81e+01 1cv8 d.3.1.1 37089 1xs1A 193 3.82e+01 2a38A 194 3.83e+01 1xy7A 166 3.85e+01 1vplA 256 3.92e+01 1lkdA 297 4.08e+01 d.32.1.3,d.32.1.3 78059,78060 1ikpA 613 4.12e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2b61A 377 4.12e+01 2d7nA 93 4.14e+01 1z47A 355 4.16e+01 1ccr 112 4.16e+01 1ycc a.3.1.1 15877 1ijaA 148 4.21e+01 1ijaA b.100.1.1 62484 1xdfA 157 4.22e+01 1qazA 351 4.29e+01 1qazA a.102.3.1 18848 2sak 121 4.30e+01 2sak d.15.5.1 37711 2cy2A 174 4.34e+01 1vbkA 307 4.44e+01 1kw3B 292 4.46e+01 d.32.1.3,d.32.1.3 77549,77550 1wba 175 4.52e+01 1wba b.42.4.1 25591 1i5gA 144 4.52e+01 1ewxA c.47.1.10 61784 1xteA 154 4.59e+01 1vgjA 184 4.70e+01 2bwnA 401 4.70e+01 1q2lA 939 4.82e+01 2d93A 134 4.85e+01 1sixA 174 4.88e+01 b.85.4.1 98892 1d4tA 104 4.89e+01 1d4tA d.93.1.1 40537 1ca1 370 4.89e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1xuvA 178 4.93e+01 2cw8A 537 4.98e+01 2cz1A 206 5.03e+01 2al3A 90 5.04e+01 1sdjA 310 5.10e+01 d.21.1.2,d.21.1.2 98807,98808 1l3lA 234 5.12e+01 a.4.6.2,d.110.5.1 73541,73542 1r2rA 248 5.15e+01 c.1.1.1 96875 1uoyA 64 5.16e+01 g.3.19.1 99709 2c9wA 169 5.21e+01 1z2uA 150 5.22e+01 1o22A 170 5.23e+01 d.238.1.1 86557 1fjgE 162 5.25e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 2h1tA 188 5.26e+01 1vhoA 346 5.28e+01 b.49.3.1,c.56.5.4 100694,100695 1jbwA 428 5.35e+01 c.59.1.2,c.72.2.2 62860,62861 1voqa 90 5.54e+01 2gx9A 129 5.61e+01 2avtA 378 5.64e+01 1uwzA 136 5.64e+01 c.97.1.1 108081 1n40A 396 5.69e+01 a.104.1.1 79977 2bdeA 470 5.76e+01 2c7xA 436 5.83e+01 1lurA 339 5.87e+01 b.30.5.4 84717 1ofdA 1520 5.87e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2biwA 490 5.92e+01 1v37A 177 5.95e+01 1w9sA 142 5.96e+01 1tzfA 259 6.08e+01 c.68.1.13 107476 1npeA 267 6.09e+01 b.68.5.1 92032 2acaA 189 6.18e+01 1ddwA 120 6.27e+01 1evhA b.55.1.4 27001 1nh0A 99 6.29e+01 b.50.1.1 91869 1bhtA 176 6.35e+01 1bhtA g.10.1.1,g.14.1.1 44603,44663 1vr3A 191 6.38e+01 2ftwA 521 6.57e+01 2gfaA 119 6.59e+01 1un7A 400 6.60e+01 b.92.1.5,c.1.9.10 99657,99658 1vrmA 325 6.62e+01 1vloA 381 6.64e+01 b.44.2.1,d.250.1.1 108838,108839 2b5nA 323 6.66e+01 3proC 166 6.75e+01 3proC d.52.1.1,d.52.1.1 38812,38813 2gdqA 382 6.79e+01 1r45A 204 6.82e+01 1ro5A 201 6.84e+01 d.108.1.3 105023 1o50A 157 6.84e+01 d.37.1.1,d.37.1.1 92478,92479 1w2lA 99 6.92e+01 2h0eA 121 7.01e+01 1g291 372 7.12e+01 1g291 1p4kA 295 7.16e+01 d.153.1.5 87772 1zo2A 129 7.17e+01 1zdnA 158 7.17e+01 1fp3A 402 7.20e+01 1fp3A a.102.1.3 18842 2cglA 489 7.24e+01 2gnrA 145 7.25e+01 2frnA 278 7.29e+01 1wriA 93 7.29e+01 2bkkA 264 7.39e+01 1jp4A 308 7.51e+01 1jp4A e.7.1.1 63223 4ubpA 101 7.51e+01 1ubpA d.8.1.1 37352 1y9wA 140 7.61e+01 4ubpC 570 7.64e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 2fuqA 747 7.66e+01 1e7wA 291 7.70e+01 c.2.1.2 59373 2fimA 276 7.73e+01 1vmjA 151 7.79e+01 1ukgA 252 7.91e+01 b.29.1.1 99489 1fjrA 195 7.92e+01 1fjrA b.102.1.1 59855 1ti6B 274 7.92e+01 b.3.5.1,d.58.1.5 106976,106977 1z7uA 112 7.95e+01 1h6dA 433 7.96e+01 c.2.1.3,d.81.1.5 65656,65657 2aq5A 402 8.03e+01 1i1qA 520 8.06e+01 1qdlA d.161.1.1 61543 1oalA 151 8.09e+01 b.1.8.1 86739 1x31C 206 8.09e+01 1j1bA 420 8.12e+01 d.144.1.7 90758 1xrtA 467 8.17e+01 2cbp 96 8.22e+01 2cbp b.6.1.1 22895 1zbfA 142 8.26e+01 1ijtA 128 8.28e+01 1bfg b.42.1.1 62510 2bwfA 77 8.34e+01 1kngA 156 8.35e+01 c.47.1.10 72777 1jatA 155 8.39e+01 1u9aA d.20.1.1 62818 1ejxC 567 8.40e+01 b.92.1.1,c.1.9.2 83184,83185 1acf 125 8.47e+01 3nul d.110.1.1 40882 1v8yA 170 8.62e+01 1hd2A 161 8.67e+01 c.47.1.10 60962 1lj5A 379 8.84e+01 e.1.1.1 73928 1gpiA 431 8.91e+01 b.29.1.10 65450 1rfs 139 8.95e+01 1rfs b.33.1.1 24434