# List of top-scoring protein chains for t06-100-30-str2-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 2bitX 165 2.87e-26 1yndA 165 3.50e-26 1dywA 173 5.19e-26 2cpl b.62.1.1 27505 1ihgA 370 5.87e-26 2cpl a.118.8.1,b.62.1.1 62380,62381 1xo7A 166 8.50e-26 1zcxA 178 1.04e-25 2rmcA 182 2.03e-25 2cpl b.62.1.1 27491 1vdnA 162 2.78e-25 2cfeA 162 3.36e-25 1h0pA 182 6.71e-25 b.62.1.1 76450 2a2nA 176 6.78e-24 1zkcA 197 1.19e-23 2fu0A 160 8.53e-23 1v9tA 166 1.26e-20 b.62.1.1 108451 1lopA 164 7.70e-20 2cpl b.62.1.1 27510 1zx8A 136 8.48e-03 2gvkA 317 1.50e+00 2cy7A 396 2.58e+00 1qcsA 211 3.01e+00 1qcsA b.52.2.3,d.31.1.1 26927,38461 1cr5A 189 3.74e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 1lq9A 112 3.93e+00 d.58.4.3 78129 1gteA 1025 4.11e+00 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 1v0wA 506 4.49e+00 d.136.1.2,d.136.1.2 108220,108221 1bdfA 235 5.10e+00 1bdfA d.74.3.1,d.181.1.1 39727,42602 1evlA 401 6.24e+00 1qf6A c.51.1.1,d.104.1.1 33202,40751 2bf6A 449 6.65e+00 1khbA 625 7.93e+00 c.91.1.1,c.109.1.1 68606,68607 1o7iA 119 8.01e+00 b.40.4.3 86642 2azpA 318 8.07e+00 2b8mA 117 8.97e+00 1oa4A 222 1.01e+01 b.29.1.11 86731 2f71A 298 1.02e+01 2bvfA 459 1.04e+01 2aexA 346 1.08e+01 1zoxA 113 1.13e+01 2gk3A 256 1.29e+01 1y7mA 164 1.30e+01 1pa1A 310 1.30e+01 c.45.1.2 94404 2gclA 261 1.39e+01 1ewnA 219 1.39e+01 1bnkA b.46.1.2 25762 2cy5A 140 1.40e+01 1wchA 315 1.41e+01 1vqvA 306 1.41e+01 1xewX 182 1.45e+01 1n0uA 842 1.46e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1tl2A 236 1.48e+01 1tl2A b.67.1.1 27541 1tuwA 109 1.52e+01 d.58.4.8 107346 1h5rA 293 1.53e+01 c.68.1.6 65623 1lugA 259 1.57e+01 b.74.1.1 91127 2bm3A 166 1.57e+01 1acf 125 1.60e+01 3nul d.110.1.1 40882 2as9A 210 1.63e+01 1p42A 270 1.69e+01 d.14.1.7,d.14.1.7 87754,87755 1wu7A 434 1.71e+01 1wsrA 375 1.76e+01 2gefA 217 1.77e+01 1wloA 136 1.80e+01 1vjhA 122 1.83e+01 d.129.3.1 100811 1gd1O 334 1.88e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1bed 181 1.89e+01 1fvkA c.47.1.13 90330 1fxoA 293 1.90e+01 1g0rA c.68.1.6 34524 1yoeA 322 1.94e+01 1vjvA 415 1.94e+01 d.3.1.9 108632 1xe7A 203 1.94e+01 1xhnA 184 1.95e+01 1pbyA 489 1.97e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1h4xA 117 2.02e+01 1auz c.13.2.1 60626 1vfjA 116 2.03e+01 2cqsA 842 2.04e+01 1yqtA 538 2.05e+01 1vkdA 338 2.07e+01 b.67.2.4 108644 1idpA 172 2.11e+01 d.17.4.1 83685 2cb2A 318 2.19e+01 1wriA 93 2.21e+01 830cA 168 2.25e+01 1ck7A d.92.1.11 40400 1z4vA 532 2.35e+01 1zdrA 164 2.43e+01 1rc9A 221 2.53e+01 1qlpA 394 2.53e+01 1ovaA e.1.1.1 42628 2b0aA 186 2.57e+01 1mxiA 160 2.58e+01 c.116.1.1 79646 1s2oA 244 2.65e+01 1u5uA 374 2.66e+01 1oalA 151 2.70e+01 b.1.8.1 86739 1n62B 809 2.71e+01 d.41.1.1,d.133.1.1 80092,80093 1u2zA 433 2.76e+01 c.66.1.31 107626 1wi1A 126 2.77e+01 2gaxA 135 2.78e+01 1ux6A 350 2.87e+01 b.29.1.16,g.75.1.1 100145,100146 1yymG 313 2.88e+01 1wosA 364 2.90e+01 b.44.2.1,d.250.1.1 109468,109469 1s55A 156 2.91e+01 1vr0A 247 2.95e+01 4ubpC 570 2.97e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1ntyA 311 2.99e+01 a.87.1.1,b.55.1.1 103873,103874 2atpB 115 3.09e+01 1qx4A 274 3.12e+01 b.43.4.2,c.25.1.1 104624,104625 2ex4A 241 3.23e+01 1i8dA 213 3.24e+01 b.43.4.3,b.43.4.3 61953,61954 2fomB 185 3.27e+01 1fjgE 162 3.29e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1e1oA 504 3.34e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1lnsA 763 3.36e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1xknA 355 3.39e+01 1oxxK 353 3.43e+01 b.40.6.3,c.37.1.12 93715,93716 1yzxA 226 3.54e+01 2bw2A 140 3.56e+01 1wdnA 226 3.61e+01 1lst c.94.1.1 35816 1vqoD 177 3.62e+01 1thqA 170 3.64e+01 f.4.1.2 106920 1sb2A 133 3.68e+01 1m40A 263 3.69e+01 e.3.1.1 74437 1e5kA 201 3.76e+01 1fr9A c.68.1.8 34578 1o04A 500 3.82e+01 c.82.1.1 86508 1x3lA 440 3.82e+01 1b35B 255 3.84e+01 1b35B b.121.4.1 23334 1dqiA 124 3.89e+01 1do6A b.1.13.1 22357 1q0eA 152 3.95e+01 b.1.8.1 95504 1dz3A 130 3.95e+01 1dz3A c.23.1.1 31105 1mdbA 539 4.01e+01 e.23.1.1 79008 1b77A 228 4.01e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1n0lA 224 4.07e+01 b.1.11.1,b.7.2.1 79744,79745 2ew0A 192 4.18e+01 1xxaA 78 4.27e+01 1xxaA d.74.2.1 39700 1c4rA 182 4.32e+01 1c4rA b.29.1.4 24229 1g5bA 221 4.39e+01 1g5bA d.159.1.3 60261 1q1oA 98 4.46e+01 d.15.2.2 95596 1hr6A 475 4.47e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1ve4A 206 4.59e+01 1sq2N 113 4.70e+01 b.1.1.1 105881 1w2xA 758 4.73e+01 c.14.1.4,c.14.1.4 109134,109135 1x9uA 116 4.75e+01 1t9fA 187 4.75e+01 b.42.6.1 106710 1v7wA 807 4.76e+01 a.102.1.4,b.30.5.3 108411,108412 1a70 97 4.82e+01 1awd d.15.4.1 37678 1lqtA 456 4.86e+01 c.3.1.1,c.4.1.1 74198,74199 1dg9A 157 4.89e+01 1dg9A c.44.1.1 32637 3il8 72 4.91e+01 1tvxA d.9.1.1 37356 1t2bA 397 4.94e+01 1w15A 153 4.95e+01 b.7.1.2 109041 1umkA 275 4.97e+01 1jmxA 494 4.99e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1ww9A 392 4.99e+01 2fpqA 444 5.05e+01 1xwwA 157 5.32e+01 2fbwA 621 5.34e+01 1wxrA 1048 5.35e+01 1zq9A 285 5.39e+01 1q8fA 313 5.45e+01 c.70.1.1 96203 1fh0A 221 5.59e+01 1cs8A d.3.1.1 59832 1m2oA 768 5.65e+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 1vk6A 269 5.69e+01 d.113.1.4,d.113.1.4 100851,100852 1krhA 338 5.70e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1xtmA 175 5.72e+01 1e9pA 151 5.75e+01 1mfmA b.1.8.1 22215 1mpgA 282 5.79e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1itbB 315 5.86e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 2cxnA 557 5.91e+01 2f02A 323 5.96e+01 1rlmA 271 5.96e+01 1k07A 263 6.00e+01 d.157.1.1 77218 2bhmA 164 6.04e+01 1t3qB 788 6.23e+01 d.41.1.1,d.133.1.1 106369,106370 1npuA 117 6.44e+01 b.1.1.1 92038 1f39A 101 6.47e+01 1umuA b.87.1.1 28386 1si6X 282 6.53e+01 1i39A 225 6.58e+01 1ekeA c.55.3.1 61585 1fiqC 763 6.75e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1uscA 178 6.76e+01 b.45.1.2 99860 1q5fA 156 6.80e+01 d.24.1.1 104536 2a46A 238 6.80e+01 1qr0A 228 6.85e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1rkiA 102 6.86e+01 1pfo 500 6.89e+01 1pfo f.9.1.1 43826 2pii 112 6.89e+01 2pii d.58.5.1 39071 1k66A 149 6.89e+01 c.23.1.1 90941 2crvA 120 6.89e+01 1ul7A 102 6.94e+01 d.129.6.1 99540 1sxvA 172 6.99e+01 1uyrA 737 6.99e+01 c.14.1.4,c.14.1.4 100188,100189 2bdrA 175 6.99e+01 1vr8A 142 7.05e+01 1w9sA 142 7.07e+01 1zxfA 155 7.18e+01 1mw7A 240 7.18e+01 e.39.1.1 79557 1pcxA 810 7.26e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1h7sA 365 7.32e+01 d.14.1.3,d.122.1.2 65705,65706 1ixcA 294 7.33e+01 a.4.5.37,c.94.1.1 83764,83765 1d5tA 433 7.41e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1sqkB 25 7.42e+01 j.86.1.1 105924 1fonA 240 7.50e+01 5ptp b.47.1.2 26231 1jer 138 7.58e+01 2cbp b.6.1.1 23022 1mgrA 99 7.63e+01 d.1.1.2 79106 1vi9A 299 7.71e+01 c.72.1.5 100750 1yfqA 342 7.72e+01 1rloA 271 7.80e+01 1wi6A 88 7.87e+01 1jdpA 441 7.92e+01 c.93.1.1 62906 1rg8A 146 7.95e+01 1tiqA 180 7.95e+01 d.108.1.1 107010 1z2lA 423 7.98e+01 1fvuB 125 8.00e+01 1ixxB d.169.1.1 42346 1faaA 124 8.03e+01 1erv c.47.1.1 32738 1s8nA 205 8.04e+01 c.23.1.1 105374 1dceA 567 8.08e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1yoxA 250 8.11e+01 1y60A 169 8.18e+01 1y07A 128 8.19e+01 1l7lA 121 8.21e+01 b.18.1.16 77790 1nbwA 607 8.29e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1aop 497 8.33e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1molA 94 8.37e+01 1molA d.17.1.1 37988 1j71A 334 8.44e+01 1eagA b.50.1.2 62669 1us5A 314 8.45e+01 c.94.1.1 99856 1yemA 179 8.45e+01 1c0pA 363 8.48e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1mqoA 227 8.49e+01 d.157.1.1 103846 2azeA 155 8.50e+01 1hy7A 173 8.54e+01 d.92.1.11 65957 1zd9A 188 8.54e+01 1jkeA 145 8.55e+01 c.110.1.1 66791 1a73A 163 8.57e+01 1a73A d.4.1.3 37145 1dkiA 371 8.61e+01 1dkiA d.3.1.1 37090 1bqcA 302 8.64e+01 1bqcA c.1.8.3 28831 1bfg 146 8.67e+01 1bfg b.42.1.1 25485 2bibA 547 8.72e+01 1ve2A 235 8.75e+01 1bcpB 199 8.78e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1qwtA 255 8.79e+01 b.26.1.3 96501 1dzlA 505 8.85e+01 1dzlA b.121.6.1 23586 1r3eA 309 8.91e+01 b.122.1.1,d.265.1.2 96907,96908 1qwyA 291 8.93e+01 b.84.3.2 96509