# 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.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 2a9uA 144 4.14e-02 1yn9A 169 1.29e+00 1hjp 203 1.50e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1ea1A 455 1.94e+00 1ea1A a.104.1.1 18970 1h5zA 455 2.31e+00 a.104.1.1 90622 1u13A 455 2.48e+00 a.104.1.1 107578 1e9xA 455 2.49e+00 1ea1A a.104.1.1 18969 1hm6A 346 3.31e+00 1avc a.65.1.1 18147 1dt6A 473 3.80e+00 1dt6A a.104.1.1 18977 1x8vA 455 3.83e+00 1cuk 203 3.95e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1axn 323 4.86e+00 1avc a.65.1.1 18149 1trrA 107 4.93e+00 1jhgA a.4.12.1 19017 1h3nA 878 5.46e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1h0oA 390 5.51e+00 a.25.1.2 70845 1aii 323 5.93e+00 1avc a.65.1.1 18150 1lniA 96 6.21e+00 d.1.1.2 74046 1rgeA 96 6.23e+00 1rgeA d.1.1.2 36028 1gmpA 96 6.23e+00 1rgeA d.1.1.2 36036 1i8vA 96 6.23e+00 d.1.1.2 61985 1n6bA 473 7.21e+00 a.104.1.1 85359 1lrv 244 8.18e+00 1lrv a.118.1.5 19146 1nr6A 473 8.42e+00 a.104.1.1 92085 1sqgA 429 8.59e+00 a.79.1.3,c.66.1.38 105912,105913 1p7tA 731 8.87e+00 c.1.13.1 94319 1d8cA 723 9.50e+00 1d8cA c.1.13.1 29325 1mgrA 99 9.65e+00 d.1.1.2 79106 2b1eA 564 9.67e+00 1bvsB 203 9.95e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16281,17956,25275 1odoA 408 1.08e+01 a.104.1.1 92783 1jhgA 101 1.11e+01 1jhgA a.4.12.1 19009 1w5tA 412 1.11e+01 1pylA 97 1.12e+01 d.1.1.2 104391 1q5dA 419 1.29e+01 a.104.1.1 95891 1i4yA 114 1.34e+01 2mhr a.24.4.1 61738 1c1kA 217 1.38e+01 1c1kA a.120.1.1 19239 2a9iA 113 1.38e+01 2wrpR 107 1.42e+01 1jhgA a.4.12.1 19010 1kb9A 431 1.49e+01 d.185.1.1,d.185.1.1 77311,77312 1up6A 416 1.52e+01 c.2.1.5,d.162.1.2 107976,107977 2cwyA 94 1.53e+01 1up7A 417 1.58e+01 1e94F 449 1.73e+01 1do0A c.37.1.20 32443 1ho8A 480 1.84e+01 1ho8A a.118.1.9 61107 1kyoA 430 1.85e+01 d.185.1.1,d.185.1.1 73249,73250 1gl2C 65 1.85e+01 h.1.15.1 65280 1w68A 390 1.87e+01 a.25.1.2 109216 1w9cA 321 1.87e+01 1s8nA 205 1.92e+01 c.23.1.1 105374 1gl2D 65 1.95e+01 h.1.15.1 65281 1i4mA 108 1.97e+01 d.6.1.1 66025 1kwfA 363 2.11e+01 a.102.1.2 73078 1u2wA 122 2.21e+01 1ezvA 430 2.22e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 1z3xA 238 2.22e+01 1tw9A 206 2.26e+01 a.45.1.1,c.47.1.5 107381,107382 1xsm 390 2.34e+01 1xsm a.25.1.2 16804 1gseA 221 2.35e+01 1pgtA a.45.1.1,c.47.1.5 17667,32961 1k3lA 221 2.36e+01 a.45.1.1,c.47.1.5 77229,77230 1yucA 255 2.49e+01 1qcrA 446 2.53e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1dk5A 322 2.53e+01 1dk5A a.65.1.1 18192 1ig6A 107 2.55e+01 1ig6A a.4.3.1 62364 1avoB 140 2.56e+01 1avoB 1lnwA 147 2.59e+01 a.4.5.28 78104 1bl0A 129 2.64e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1iygA 133 2.64e+01 a.118.8.1 76947 2f6hX 419 2.73e+01 1wjbA 55 2.76e+01 1wjcA a.4.10.1 16265 1ibjA 464 2.77e+01 1ibjA c.67.1.3 62162 2fuqA 747 2.77e+01 2fbnA 198 2.81e+01 1w7bA 339 2.85e+01 1xg7A 250 2.93e+01 1hn0A 1021 3.00e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1ovaA 386 3.00e+01 1ovaA e.1.1.1 42619 1uhgA 385 3.04e+01 e.1.1.1 88491 1w99A 558 3.04e+01 1w27A 714 3.08e+01 1z7lA 276 3.32e+01 1iq8A 582 3.34e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1gvhA 396 3.37e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1qdbA 473 3.43e+01 1qdbA a.138.1.3 19688 1vkuA 100 3.47e+01 a.28.1.1 108690 1cem 363 3.48e+01 1cem a.102.1.2 18826 1jmxA 494 3.49e+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 1v4xB 146 3.62e+01 a.1.1.2 108364 1pszA 303 3.63e+01 1toaA c.92.2.2 35600 1bed 181 3.64e+01 1fvkA c.47.1.13 90330 1eyyA 510 3.75e+01 1eyyA c.82.1.1 35389 1i1iP 681 3.78e+01 1i1iP d.92.1.5 40297 1dowA 205 3.81e+01 1dovA a.24.9.1 16626 1xszA 356 3.87e+01 1dovA 181 3.90e+01 1dovA a.24.9.1 16627 1ujwB 135 3.93e+01 h.4.9.1 99472 1ybhA 590 3.94e+01 1rzrA 332 4.01e+01 1ztuA 341 4.03e+01 2a1iA 146 4.11e+01 1y8aA 332 4.12e+01 1r1uA 106 4.14e+01 a.4.5.5 104771 1wj7A 104 4.14e+01 1h38B 883 4.22e+01 e.8.1.3 76626 1kl9A 182 4.22e+01 b.40.4.5 72681 1bqbA 301 4.25e+01 1hyt d.92.1.2 58962 1qlnA 883 4.38e+01 1cezA e.8.1.3 43111 1fjgD 209 4.41e+01 1c05A d.66.1.2 39553 1ez0A 510 4.44e+01 1eyyA c.82.1.1 35385 1yb3A 175 4.47e+01 1as0 353 4.47e+01 1cipA a.66.1.1,c.37.1.8 18212,32095 1or0A 160 4.49e+01 d.153.1.2 93445 1jr3E 334 4.49e+01 a.80.1.1,c.37.1.20 63253,63254 2h58A 330 4.52e+01 1rcsA 105 4.55e+01 1jhgA a.4.12.1 19025 1fm2A 169 4.55e+01 1fm2A d.153.1.2 59877 1zymA 258 4.55e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1kkhA 317 4.56e+01 d.14.1.5,d.58.26.3 72645,72646 1b8pA 329 4.63e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1f7cA 231 4.64e+01 1f7cA a.116.1.1 19107 1gjjA 168 4.69e+01 a.140.1.1,a.140.1.1 83291,83292 1zl8B 54 4.71e+01 1h38D 883 4.74e+01 e.8.1.3 76628 2bcqA 335 4.79e+01 1v63A 101 4.80e+01 a.21.1.1 108391 1s3cA 141 4.95e+01 1rkpA 326 5.00e+01 a.211.1.2 97620 1uptB 60 5.01e+01 a.193.1.1 99768 1h38C 883 5.04e+01 e.8.1.3 76627 1sh0A 510 5.14e+01 e.8.1.4 98876 1xqiA 195 5.20e+01 1vmgA 95 5.38e+01 1or7C 90 5.51e+01 a.180.1.1 87336 1dm5A 315 5.54e+01 1avc a.65.1.1 18186 1go3F 107 5.55e+01 a.60.8.2 65407 1a5t 334 5.70e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1um8A 376 5.72e+01 c.37.1.20 99580 1ujcA 161 5.73e+01 1xi1A 575 5.82e+01 1nznA 126 5.84e+01 a.118.8.1 92382 2b43A 526 5.84e+01 4rnpA 883 5.86e+01 1cezA e.8.1.3 43113 1sfxA 109 5.87e+01 a.4.5.50 105505 3pflA 759 5.97e+01 1cm5A c.7.1.1 30673 1d1rA 116 5.98e+01 1d1rA d.64.1.1 39548 1vddA 228 6.05e+01 e.49.1.1 108519 2cujA 108 6.18e+01 1j9bA 141 6.21e+01 c.47.1.12 66459 1g4yB 101 6.22e+01 1g4yB f.15.1.1 60251 1cezA 883 6.26e+01 1cezA e.8.1.3 43110 1wu7A 434 6.49e+01 1cii 602 6.49e+01 1cii f.1.1.1,h.4.3.1 43381,45787 2bkyX 89 6.49e+01 1rm6C 161 6.51e+01 1muyA 225 6.57e+01 1mun a.96.1.2 18745 1nal3 297 6.61e+01 1nal3 2pflA 759 6.62e+01 1cm5A c.7.1.1 30675 1cm5A 759 6.63e+01 1cm5A c.7.1.1 30671 1zk8A 183 6.64e+01 1qlzA 210 6.73e+01 1b10A d.6.1.1 37309 1h16A 759 6.73e+01 c.7.1.1 76462 1ab4 477 6.76e+01 1ab4 e.11.1.1 43251 1mun 225 6.91e+01 1mun a.96.1.2 18744 1cipA 353 6.96e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1wa8A 99 6.97e+01 1nd9A 49 7.02e+01 a.6.1.6 85575 1ag2 103 7.05e+01 1b10A d.6.1.1 37305 1c05A 159 7.06e+01 1c05A d.66.1.2 39559 1ad6 185 7.06e+01 1guxA a.74.1.3 18390 1xqoA 256 7.13e+01 168lA 164 7.26e+01 1l92 d.2.1.3 36975 1be3A 446 7.32e+01 1be3A d.185.1.1,d.185.1.1 58950,58951 2gi3A 476 7.35e+01 1pk5A 248 7.47e+01 a.123.1.1 88139 2cxnA 557 7.48e+01 1u0fA 564 7.51e+01 1vi0A 206 7.54e+01 a.4.1.9,a.121.1.1 100720,100721 1rcwA 231 7.56e+01 a.132.1.4 97299 1sumB 235 7.70e+01 a.7.12.1 106025 1z91A 147 7.72e+01 1ku0A 388 7.74e+01 c.69.1.18 72994 2cfuA 658 7.81e+01 1sly 618 7.85e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1ala 321 7.85e+01 1avc a.65.1.1 18153 2bbhA 269 7.92e+01 1y6zA 263 8.00e+01 2c3mA 1231 8.15e+01 1vgoA 253 8.26e+01 1zz2A 360 8.30e+01 1q5zA 177 8.33e+01 a.196.1.1 95954 1s28A 132 8.36e+01 d.198.1.1 105223 2beqD 48 8.39e+01 1jkvA 266 8.46e+01 a.25.1.3 71719 1pmzA 86 8.54e+01 a.39.1.10 104195 1fdyA 297 8.57e+01 1nal3 c.1.10.1 29071 1hl2A 297 8.61e+01 c.1.10.1 83581 1o9iA 266 8.63e+01 a.25.1.3 92671 1tjoA 182 8.68e+01 1i1rB 181 8.70e+01 1i1rB a.26.1.1 61548 1vkeA 133 8.73e+01 a.152.1.2 108650 1envA 123 8.81e+01 1envA h.3.2.1 45726 1qm1A 143 8.89e+01 1b10A d.6.1.1 37312 1b10A 142 8.97e+01 1b10A d.6.1.1 37306 1khdA 345 8.99e+01 a.46.2.1,c.27.1.1 77400,77401