# List of top-scoring protein chains for t06-100-30-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 1xubA 298 1.40e-01 2gkeA 274 2.22e-01 1gqzA 274 2.39e-01 d.21.1.1,d.21.1.1 83311,83312 1p3dA 475 8.34e-01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1qx4A 274 2.27e+00 b.43.4.2,c.25.1.1 104624,104625 1mxmA 254 2.94e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1dp4A 435 3.26e+00 1dp4A c.93.1.1 35710 1umkA 275 3.40e+00 1nkqA 259 3.97e+00 d.177.1.1 103862 1dkqA 410 4.17e+00 1dklA c.60.1.2 33998 1dkmA 410 4.84e+00 1dklA c.60.1.2 34000 1oe4A 247 4.86e+00 c.18.1.3 86895 1g5cA 170 5.57e+00 1g5cA c.53.2.1 60264 1sr8A 298 5.62e+00 e.54.1.1 105959 1ab8A 220 7.26e+00 1azsA d.58.29.1 39414 1o17A 345 7.48e+00 a.46.2.1,c.27.1.1 80765,80766 1bupA 386 7.88e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1vdkA 466 8.62e+00 a.127.1.1 100561 1xttA 216 9.14e+00 1j1iA 296 1.13e+01 c.69.1.10 83977 1nnsA 326 1.18e+01 c.88.1.1 85910 1lo7A 141 1.30e+01 d.38.1.1 74144 1jc9A 269 1.35e+01 d.171.1.1 66490 1vh5A 148 1.37e+01 d.38.1.5 100642 4uagA 437 1.55e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1o7nA 449 1.71e+01 b.33.1.2,d.129.3.3 81162,81163 1kq3A 376 1.91e+01 e.22.1.2 68790 1hzdA 272 1.98e+01 c.14.1.3 65969 1o5zA 442 1.99e+01 c.59.1.2,c.72.2.2 92530,92531 1e1oA 504 2.01e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1jf9A 408 2.01e+01 1c0nA c.67.1.3 62931 1qstA 160 2.17e+01 1yghA d.108.1.1 40804 1rsy 152 2.20e+01 1rsy b.7.1.2 23192 1on3A 523 2.35e+01 c.14.1.4,c.14.1.4 87107,87108 1kr7A 110 2.45e+01 a.1.1.4 72890 1iznB 277 2.63e+01 e.43.1.2 83848 1ru0A 105 2.67e+01 1t6aA 126 2.73e+01 d.129.8.1 106555 1mngA 203 2.73e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1azsA 220 2.91e+01 1azsA d.58.29.1 39416 1pjcA 361 2.93e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1mqvA 125 3.06e+01 a.24.3.2 79415 1r2rA 248 3.08e+01 c.1.1.1 96875 1f08A 148 3.13e+01 1f08A d.89.1.2 59564 1l5oA 356 3.17e+01 c.39.1.1 77711 1kvkA 395 3.25e+01 d.14.1.5,d.58.26.3 73060,73061 1gteA 1025 3.28e+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 1sg4A 260 3.29e+01 1rzhL 281 3.46e+01 f.26.1.1 98164 1f3uA 118 3.50e+01 1f3uA b.65.1.1 27521 1bw0A 416 3.51e+01 1bw0A c.67.1.1 34385 2ga9D 469 3.54e+01 1nnhA 294 3.56e+01 d.104.1.1 92005 1alu 186 3.60e+01 1alu a.26.1.1 16826 1gtzA 156 3.62e+01 c.23.13.1 70539 1q15A 503 3.76e+01 c.26.2.1,d.153.1.1 95538,95539 1a0cA 438 3.77e+01 1a0cA c.1.15.3 29529 1r5eA 115 3.84e+01 1ixlA 131 3.85e+01 d.38.1.5 90717 1sdjA 310 3.88e+01 d.21.1.2,d.21.1.2 98807,98808 1p1mA 406 4.09e+01 b.92.1.4,c.1.9.9 87696,87697 1jb9A 316 4.12e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1josA 128 4.20e+01 d.52.7.1 84191 1kkoA 413 4.58e+01 c.1.11.2,d.54.1.1 68675,68676 1ryiA 382 4.59e+01 1jx4A 352 4.61e+01 d.240.1.1,e.8.1.7 90378,90379 1vl2A 421 4.76e+01 c.26.2.1,d.210.1.1 108708,108709 1dwkA 156 4.82e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1q3iA 214 4.85e+01 d.220.1.1 104524 1srqA 341 5.05e+01 e.55.1.1 105967 1o0iA 138 5.11e+01 d.38.1.5 86532 1w6uA 302 5.12e+01 1ogdA 131 5.24e+01 c.133.1.1 92893 1khdA 345 5.27e+01 a.46.2.1,c.27.1.1 77400,77401 1ubkL 534 5.59e+01 e.18.1.1 88422 1b93A 152 5.65e+01 1b93A c.24.1.2 31507 1woqA 267 5.70e+01 c.55.1.10,c.55.1.10 109462,109463 1b7yA 350 5.80e+01 1pysA d.104.1.1 40776 1h9dB 134 5.84e+01 2jhbA b.54.1.1 60822 1dy9A 187 5.87e+01 1jxpA b.47.1.3 26400 1mi3A 322 5.96e+01 c.1.7.1 91274 1sk4A 163 5.96e+01 d.118.1.1 105664 1eq9A 222 5.96e+01 5ptp b.47.1.2 26068 1svy 114 6.03e+01 1svy d.109.1.1 40831 1sz7A 200 6.05e+01 1hekA 131 6.06e+01 a.61.1.5 65818 1qjtA 99 6.08e+01 1eh2 a.39.1.6 17335 1oruA 195 6.09e+01 b.58.1.2 93464 1kveA 63 6.09e+01 1kveA d.70.1.2 39590 1q4gA 553 6.29e+01 a.93.1.2,g.3.11.1 95789,95790 1gkmA 509 6.29e+01 a.127.1.2 70228 1sg6A 393 6.34e+01 e.22.1.1 105522 1jp4A 308 6.36e+01 1jp4A e.7.1.1 63223 1flmA 122 6.41e+01 1axj b.45.1.1 25747 1tafB 70 6.68e+01 1tafB a.22.1.3 16482 1lshA 1056 6.70e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1q1rA 431 6.70e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1izmA 184 6.71e+01 a.199.1.1 90725 1k24A 253 6.87e+01 f.4.4.2 72002 1eexA 554 6.93e+01 1dioA c.1.19.3 29650 1pfsA 78 6.95e+01 1pfsA b.40.4.7 25391 1prxA 224 7.06e+01 1prxA c.47.1.10 33076 1giqA 413 7.08e+01 d.166.1.1,d.166.1.1 76224,76225 1n0wA 243 7.11e+01 c.37.1.11 79772 1t13A 158 7.27e+01 1mp9A 198 7.31e+01 d.129.1.1,d.129.1.1 91385,91386 1s4bP 674 7.36e+01 d.92.1.5 105252 1bhdA 118 7.46e+01 1bkrA a.40.1.1 17398 1lngA 87 7.51e+01 d.201.1.1 74045 1evhA 112 7.63e+01 1evhA b.55.1.4 26997 1cd3B 120 7.82e+01 1cd3B 1dcoA 104 7.82e+01 1dcpA d.74.1.1 39680 1k0eA 453 7.86e+01 d.161.1.1 67938 1kdgA 546 7.90e+01 c.3.1.2,d.16.1.1 77337,77338 1g9oA 91 7.90e+01 1pdr b.36.1.1 60400 1tljA 213 7.92e+01 d.282.1.1 107126 1pzsA 208 7.97e+01 b.1.8.1 104397 1iyjB 817 7.98e+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 1ekjA 221 8.07e+01 1ekjB c.53.2.1 33364 1nt2A 210 8.12e+01 c.66.1.3 86149 1vpbA 451 8.15e+01 1rl0A 255 8.16e+01 1ri5A 298 8.20e+01 c.66.1.34 97502 1tkeA 224 8.43e+01 1mnaA 298 8.44e+01 c.69.1.22 79322 1mvfD 82 8.52e+01 b.129.1.1 85143 1pmmA 466 8.58e+01 c.67.1.6 94901 1n3lA 372 8.64e+01 c.26.1.1 79966 1kqfA 1015 8.70e+01 b.52.2.2,c.81.1.1 72871,72872 1sh8A 154 8.71e+01 d.38.1.5 105549 1os8A 223 8.76e+01 b.47.1.1 93481 1b63A 333 8.93e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1wdvA 152 8.93e+01