# List of top-scoring protein chains for t2k-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.soe.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 1htp 131 2.88e-01 1htp 1hpcA 131 3.17e-01 1htp b.84.1.1 28221 1zkoA 136 7.27e-01 1fm4A 159 7.64e-01 1bv1 d.129.3.1 76186 2aq5A 402 1.32e+00 1a65A 504 1.32e+00 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 1tdtA 259 1.60e+00 3tdt b.81.1.2 28055 1hfuA 503 1.62e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1brwA 433 2.57e+00 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2zdiC 151 3.06e+00 1bv1 159 3.22e+00 1bv1 1gjxA 81 3.44e+00 b.84.1.1 65222 2ckkA 127 3.56e+00 3tdt 274 3.66e+00 3tdt 3tdtA 274 3.66e+00 b.81.1.2 28053 1gycA 499 4.71e+00 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1vdzA 588 4.86e+00 1y8oB 128 5.54e+00 b.84.1.1 122759 2eenA 183 5.89e+00 2gcuA 245 6.56e+00 1us8A 147 6.93e+00 c.37.1.12 99859 2evbA 74 6.98e+00 2hrvA 142 8.41e+00 2hrvA b.47.1.4 26429 1vkpA 383 8.84e+00 d.126.1.6 108686 2q3uA 383 9.53e+00 d.126.1.6 139809 1ixlA 131 9.70e+00 d.38.1.5 90717 1xrkA 124 1.02e+01 d.32.1.2 115881 1ghj 79 1.03e+01 1ghj 2ptfA 233 1.07e+01 1nls 237 1.18e+01 1nls 1nr0A 611 1.18e+01 b.69.4.1,b.69.4.1 86078,86079 2akrA 285 1.19e+01 b.1.1.2,d.19.1.1 126931,126932 1yx0A 159 1.19e+01 d.108.1.1 124168 1u9tA 354 1.21e+01 e.62.1.1 119651 1hx0A 496 1.21e+01 b.71.1.1,c.1.8.1 61346,61347 1poiA 317 1.25e+01 1poiA c.124.1.2 34153 1crzA 403 1.26e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1k8mA 93 1.26e+01 b.84.1.1 68314 2gaiA 633 1.29e+01 2cw8A 537 1.38e+01 1zi0A 307 1.40e+01 1f2tA 149 1.49e+01 1f2tA c.37.1.12 32373 2e63A 170 1.79e+01 3cnwA 148 1.98e+01 1nqzA 194 1.99e+01 d.113.1.1 86077 2elaA 175 1.99e+01 2ds0A 130 2.02e+01 1klo 162 2.10e+01 1klo 1kloA 162 2.10e+01 g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 2ej8A 160 2.14e+01 2ijrA 300 2.23e+01 1gpr 162 2.28e+01 1gpr 1gprA 162 2.28e+01 b.84.3.1 28267 1m6iA 493 2.31e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1qjoA 80 2.35e+01 1iyu b.84.1.1 28229 1ef8A 261 2.50e+01 1ef8A c.14.1.3 30921 1oe1A 336 2.51e+01 b.6.1.3,b.6.1.3 86891,86892 1udxA 416 2.56e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1hh1A 143 2.57e+01 1gefA c.52.1.18 61036 1b6fA 159 2.59e+01 1bv1 d.129.3.1 41316 1y2qA 143 2.66e+01 2qm1A 326 2.70e+01 2gj3A 120 2.70e+01 2be1A 339 2.72e+01 1eaxA 241 2.92e+01 b.47.1.2 64889 1kn9A 249 2.97e+01 b.87.1.2 68699 1ut9A 609 3.05e+01 a.102.1.2,b.1.18.2 99912,99913 1seiA 130 3.05e+01 1seiA d.140.1.1 41463 1bdo 80 3.08e+01 1bdo 1bdoA 80 3.08e+01 b.84.1.1 28214 1vf8A 377 3.21e+01 c.1.8.5,d.26.3.1 120029,120030 2qt6A 498 3.29e+01 1e2tA 284 3.34e+01 1e2tA d.3.1.5 37121 1n26A 325 3.37e+01 b.1.1.4,b.1.2.1,b.1.2.1 79850,79851,79852 2q1fA 1022 3.45e+01 1qmrA 159 3.61e+01 1bv1 d.129.3.1 41314 2pjhB 193 3.68e+01 1jyhA 157 3.77e+01 d.60.1.3 71956 2j2zB 173 3.77e+01 1nkqA 259 3.82e+01 d.177.1.1 103862 2h62A 114 3.82e+01 g.17.1.2 136177 1op3H 225 3.84e+01 b.1.1.1,b.1.1.2 87208,87209 2sak 121 3.88e+01 2sak 2sakA 121 3.88e+01 d.15.5.1 37711 2fx7H 228 3.89e+01 b.1.1.1,b.1.1.2 134276,134277 1o7dC 159 3.90e+01 b.30.5.6 86640 1v6iA 232 3.98e+01 b.29.1.1 100383 1yu4A 381 4.07e+01 b.163.1.1,d.169.1.8 124033,124034 1lb6A 160 4.11e+01 b.8.1.1 73798 1mzyA 333 4.14e+01 b.6.1.3,b.6.1.3 103848,103849 1v25A 541 4.17e+01 e.23.1.1 108275 2j4hA 193 4.18e+01 1wluA 136 4.22e+01 d.38.1.5 121015 1mxgA 435 4.23e+01 b.71.1.1,c.1.8.1 85193,85194 1e9lA 377 4.26e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 1yu2A 381 4.31e+01 b.163.1.1,d.169.1.8 124029,124030 1yu1A 381 4.36e+01 b.163.1.1,d.169.1.8 124027,124028 3bjkA 153 4.37e+01 2hrgA 496 4.44e+01 1xs1A 193 4.45e+01 b.85.4.1 115892 2hl0A 143 4.47e+01 1bteA 97 4.49e+01 1bteA g.7.1.3 44463 1id2A 106 4.50e+01 1aac b.6.1.1 62288 1ds6B 180 4.50e+01 1rhoA b.1.18.8 21898 2oziA 98 4.56e+01 1vrmA 325 4.73e+01 d.96.2.1 120472 2d4zA 250 4.73e+01 d.37.1.1,d.37.1.1 131260,131261 2cghA 268 4.79e+01 1at0 145 4.87e+01 1at0 1at0A 145 4.87e+01 b.86.1.1 28374 2hq2A 354 4.88e+01 e.62.1.1 136656 2dyiA 162 4.99e+01 2b0vA 153 5.08e+01 d.113.1.1 127650 2gjgA 248 5.16e+01 1eybA 471 5.22e+01 1ey2A b.82.1.4 28115 1afcA 140 5.24e+01 1bfg b.42.1.1 25506 1b12A 248 5.35e+01 1b12A b.87.1.2 28388 1shfA 59 5.37e+01 1bbzA b.34.2.1 24462 1gkuB 1054 5.40e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 2in0A 139 5.46e+01 2hqsA 415 5.46e+01 b.68.4.1,c.51.2.1 136662,136663 1j8yF 297 5.50e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1kyaA 499 5.50e+01 b.6.1.3,b.6.1.3,b.6.1.3 73203,73204,73205 1v10A 521 5.50e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1j8mF 297 5.52e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1yu0A 381 5.56e+01 b.163.1.1,d.169.1.8 124025,124026 2a6hC 1119 5.62e+01 e.29.1.1 126264 1xx0A 127 5.66e+01 b.55.1.1 122412 2vduB 450 5.69e+01 1yu3A 381 5.70e+01 b.163.1.1,d.169.1.8 124031,124032 1x1oA 286 5.72e+01 1cd1A 315 5.81e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1molA 94 5.89e+01 1molA d.17.1.1 37988 4fgf 146 5.93e+01 1bfg 1cb8A 678 5.95e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1yqeA 282 5.95e+01 c.56.7.1 123879 1p4kA 295 5.98e+01 d.153.1.5 87772 1pz7A 204 6.16e+01 b.29.1.4 95405 1j99A 293 6.38e+01 c.37.1.5 71618 1jvwA 167 6.67e+01 d.26.1.1 71907 1azdA 237 6.73e+01 1nls b.29.1.1 24020 2oitA 434 6.78e+01 9gafA 295 6.80e+01 1apyA d.153.1.5 42008 1barA 140 6.85e+01 1bfg b.42.1.1 25504 1k82A 268 6.89e+01 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 1zghA 260 7.00e+01 b.46.1.1,c.65.1.1 125028,125029 1ru8A 232 7.06e+01 c.26.2.1 97849 2g50A 530 7.07e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 2fikA 287 7.07e+01 b.1.1.2,d.19.1.1 133524,133525 1jmxB 349 7.08e+01 b.69.2.2 66906 1g5aA 628 7.10e+01 b.71.1.1,c.1.8.1 65152,65153 1aozA 552 7.25e+01 1aozA b.6.1.3,b.6.1.3,b.6.1.3 23124,23125,23126 2yv7A 260 7.45e+01 2c0cA 362 7.50e+01 3c8cA 240 7.51e+01 2gllA 171 7.62e+01 1wp5A 323 7.77e+01 b.68.10.1 114780 2ao3A 130 7.82e+01 1tmxA 293 7.85e+01