# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1tm0A 350 7.36e-02 d.21.1.3 107147 1w61A 414 1.42e-01 1xubA 298 2.04e-01 1u1wA 298 2.51e-01 1t6kA 278 3.15e-01 2gkeA 274 3.95e-01 1gqzA 274 4.19e-01 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 5.64e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1o0pA 104 1.63e+00 d.58.7.1 86535 1p3dA 475 1.64e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1ym5A 300 1.69e+00 1wc3A 219 3.23e+00 1mxmA 254 4.91e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1dp4A 435 5.46e+00 1dp4A c.93.1.1 35710 1sr8A 298 5.98e+00 e.54.1.1 105959 1d0iA 156 6.49e+00 2dhqA c.23.13.1 31383 1qx4A 274 7.41e+00 b.43.4.2,c.25.1.1 104624,104625 1oe4A 247 8.28e+00 c.18.1.3 86895 1dkqA 410 1.01e+01 1dklA c.60.1.2 33998 1dkmA 410 1.01e+01 1dklA c.60.1.2 34000 1azsB 212 1.02e+01 1azsA d.58.29.1 39423 1kkcA 221 1.19e+01 a.2.11.1,d.44.1.1 68660,68661 1umkA 275 1.24e+01 1o17A 345 1.32e+01 a.46.2.1,c.27.1.1 80765,80766 1i7pA 274 1.33e+01 b.43.4.2,c.25.1.1 66048,66049 2b61A 377 1.37e+01 1xttA 216 1.37e+01 1ycoA 279 1.45e+01 1kay 381 1.47e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1bupA 386 1.57e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ug1A 92 1.57e+01 b.34.2.1 99360 2aliA 158 1.67e+01 1vh5A 148 1.78e+01 d.38.1.5 100642 1ab8A 220 1.85e+01 1azsA d.58.29.1 39414 1wekA 217 1.85e+01 1nkqA 259 1.88e+01 d.177.1.1 103862 1g5cA 170 1.89e+01 1g5cA c.53.2.1 60264 1u9yA 284 1.92e+01 1vdkA 466 1.94e+01 a.127.1.1 100561 1jc9A 269 2.08e+01 d.171.1.1 66490 1z5hA 780 2.16e+01 1nnsA 326 2.17e+01 c.88.1.1 85910 1lo7A 141 2.23e+01 d.38.1.1 74144 2azpA 318 2.25e+01 1bvqA 141 2.28e+01 1bvqA d.38.1.1 38542 1j1iA 296 2.38e+01 c.69.1.10 83977 1gv3A 248 2.40e+01 a.2.11.1,d.44.1.1 70585,70586 1smlA 269 2.52e+01 1smlA d.157.1.1 42053 2aioA 269 2.52e+01 2b3nA 159 2.62e+01 1xhlA 297 2.73e+01 c.2.1.2 109591 1ndh 272 2.96e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 4uagA 437 3.30e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1eg9A 449 3.42e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1r2rA 248 3.59e+01 c.1.1.1 96875 1hzdA 272 3.61e+01 c.14.1.3 65969 1yuwA 554 3.71e+01 1iznB 277 3.74e+01 e.43.1.2 83848 1o7nA 449 3.78e+01 b.33.1.2,d.129.3.3 81162,81163 1kr7A 110 3.78e+01 a.1.1.4 72890 1e1oA 504 3.83e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1f2rI 100 3.85e+01 1c9fA d.15.2.1 37641 2a74A 643 4.11e+01 1kq3A 376 4.15e+01 e.22.1.2 68790 1o5zA 442 4.25e+01 c.59.1.2,c.72.2.2 92530,92531 1wxxA 382 4.25e+01 1l0wA 580 4.29e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1rsy 152 4.33e+01 1rsy b.7.1.2 23192 1ru0A 105 4.43e+01 2g84A 197 4.49e+01 2aneA 125 4.52e+01 2b5wA 357 4.53e+01 1t6aA 126 4.53e+01 d.129.8.1 106555 2b0tA 738 4.58e+01 1bw0A 416 4.63e+01 1bw0A c.67.1.1 34385 1sdjA 310 4.83e+01 d.21.1.2,d.21.1.2 98807,98808 1f3uA 118 4.84e+01 1f3uA b.65.1.1 27521 1h7wA 1025 4.87e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1lylA 504 4.91e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1u0kA 288 4.91e+01 d.21.1.2,d.21.1.2 107547,107548 1jf9A 408 5.01e+01 1c0nA c.67.1.3 62931 1dwkA 156 5.04e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1p1mA 406 5.06e+01 b.92.1.4,c.1.9.9 87696,87697 2cxcA 144 5.24e+01 1kvkA 395 5.29e+01 d.14.1.5,d.58.26.3 73060,73061 2a8yA 270 5.30e+01 1gteA 1025 5.38e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1vquA 374 5.39e+01 1d0vA 356 5.45e+01 1d0vA c.39.1.1 32476 1l5oA 356 5.48e+01 c.39.1.1 77711 1j6pA 418 5.49e+01 b.92.1.4,c.1.9.9 77089,77090 1sg4A 260 5.49e+01 1f08A 148 5.59e+01 1f08A d.89.1.2 59564 1q3iA 214 5.60e+01 d.220.1.1 104524 1azsA 220 5.75e+01 1azsA d.58.29.1 39416 1khdA 345 5.76e+01 a.46.2.1,c.27.1.1 77400,77401 1gtzA 156 5.80e+01 c.23.13.1 70539 1zl0A 311 5.97e+01 1yliA 153 5.97e+01 1mngA 203 6.00e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1o0iA 138 6.12e+01 d.38.1.5 86532 1j5yA 187 6.22e+01 a.4.5.1,d.94.2.1 71592,71593 1jb9A 316 6.31e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 2acfA 182 6.35e+01 1alu 186 6.45e+01 1alu a.26.1.1 16826 1tph1 247 6.50e+01 1amk 1woqA 267 6.62e+01 c.55.1.10,c.55.1.10 109462,109463 1y791 680 6.64e+01 1xhkA 187 6.95e+01 1qstA 160 7.01e+01 1yghA d.108.1.1 40804 1wc9A 169 7.11e+01 1mqvA 125 7.19e+01 a.24.3.2 79415 2b6eA 146 7.33e+01 1b93A 152 7.48e+01 1b93A c.24.1.2 31507 2ga9D 469 7.57e+01 2b25A 336 7.60e+01 1iyjB 817 7.73e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1i1iP 681 8.14e+01 1i1iP d.92.1.5 40297 1zy7A 403 8.15e+01 1ixlA 131 8.19e+01 d.38.1.5 90717 1r5eA 115 8.20e+01 2fs2A 151 8.46e+01 1jx4A 352 8.48e+01 d.240.1.1,e.8.1.7 90378,90379 1rzhL 281 8.48e+01 f.26.1.1 98164 2cs7A 55 8.59e+01 1zbqA 327 8.60e+01 1dazC 99 8.78e+01 1hvc b.50.1.1 26501 1jp4A 308 8.79e+01 1jp4A e.7.1.1 63223 1q15A 503 8.83e+01 c.26.2.1,d.153.1.1 95538,95539 1w77A 228 8.90e+01 1wdkC 390 8.95e+01 c.95.1.1,c.95.1.1 109258,109259 1vliA 385 8.99e+01 b.85.1.1,c.1.10.6 108830,108831