# List of top-scoring protein chains for t04-100-30-str2 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 1k3sA 113 3.23e-02 d.198.1.1 68120 1osdA 72 3.64e-02 1fe0A 68 5.56e-02 1cc8A d.58.17.1 39345 1jj2E 177 1.76e-01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1n2fA 142 1.98e-01 d.227.1.1 79853 1ohvA 472 2.42e-01 2plc 274 3.16e-01 2plc c.1.18.2 29614 1bw0A 416 3.88e-01 1bw0A c.67.1.1 34385 1i2aA 219 3.96e-01 1k3eA 156 5.16e-01 d.198.1.1 68103 1lxnA 99 6.38e-01 d.58.48.1 84737 1pbgA 468 7.74e-01 1e70M c.1.8.4 28946 1iv3A 152 9.75e-01 d.79.5.1 76828 1cc8A 73 9.88e-01 1cc8A d.58.17.1 39343 1mwyA 73 1.13e+00 d.58.17.1 79616 1ek8A 185 1.32e+00 1ek8A d.67.3.1 59444 1ejdA 419 1.35e+00 1uae d.68.2.2 39576 1obr 326 1.64e+00 1aye c.56.5.2 33828 1fx2A 235 2.17e+00 1fx2A d.58.29.1 39430 1l8bA 190 2.30e+00 d.86.1.1 73683 1o8uA 257 2.49e+00 c.14.1.3 81194 1gmeA 151 2.76e+00 b.15.1.1 65305 1gw5S 142 2.77e+00 d.110.4.2 70633 1iba 101 2.82e+00 1iba d.95.1.1 40567 1jyoA 130 2.97e+00 d.198.1.1 67483 1ixlA 131 3.02e+00 1gqzA 274 3.18e+00 d.21.1.1 83311 d.21.1.1 83312 1lvaA 258 3.29e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1uspA 139 3.37e+00 1c7nA 399 3.42e+00 1d2fA c.67.1.3 34413 1v7oA 165 3.58e+00 1h16A 759 3.69e+00 c.7.1.1 76462 1vjeA 166 3.77e+00 1g9gA 629 4.10e+00 a.102.1.2 83279 1cm5A 759 4.28e+00 1cm5A c.7.1.1 30671 1psuA 140 4.61e+00 d.38.1.5 88285 1mg7A 417 4.68e+00 d.14.1.6 84954 d.58.26.6 84955 1cfr 285 4.68e+00 1cfr c.52.1.7 33312 1m7yA 435 4.71e+00 c.67.1.4 78761 1vk8A 106 5.03e+00 1faeA 629 5.08e+00 1fce a.102.1.2 18837 1is1A 185 5.16e+00 d.67.3.1 83704 1ub9A 100 5.29e+00 1h8lA 380 5.87e+00 b.3.2.1 65737 c.56.5.1 65738 1gtdA 85 6.04e+00 d.58.45.1 76344 1rl6A 177 6.85e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 1innA 166 7.07e+00 1j98A d.185.1.2 62608 1j27A 102 7.07e+00 1j5uA 136 7.38e+00 d.208.1.1 71584 1k32A 1045 7.45e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1ew4A 106 7.47e+00 1ew4A d.82.2.1 40023 1okrA 123 7.50e+00 1ekeA 230 7.54e+00 1ekeA c.55.3.1 33572 1cp2A 269 7.63e+00 1cp2A c.37.1.10 32269 1l7mA 211 7.82e+00 c.108.1.4 73664 1bowA 159 7.89e+00 1bowA d.60.1.1 39528 1s3jA 155 7.93e+00 1ml8A 134 8.02e+00 d.227.1.2 85013 1n82A 331 8.09e+00 1t82A 155 8.22e+00 1dq3A 454 8.33e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1que 303 8.92e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1go2A 304 9.42e+00 b.43.4.2 76243 c.25.1.1 76244 1p8kZ 254 9.46e+00 1bg0 356 9.66e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1j97A 211 9.78e+00 1f5sA c.108.1.4 62753 1fxmA 302 9.79e+00 1taxA 1vig 71 1.01e+01 1vih d.51.1.1 38806 1lc5A 364 1.04e+01 c.67.1.1 73827 1dqaA 467 1.04e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 7a3hA 303 1.07e+01 7a3hA c.1.8.3 28817 1kutA 230 1.09e+01 d.143.1.1 73017 1n2zA 245 1.09e+01 c.92.2.2 79865 1fxlA 167 1.12e+01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1i1wA 303 1.13e+01 c.1.8.3 76732 1ej1A 190 1.13e+01 1ejhA d.86.1.1 40144 1ogiA 303 1.16e+01 1oj4A 283 1.17e+01 1o8bA 219 1.18e+01 c.35.1.2 81180 d.58.40.1 81181 1gnuA 117 1.19e+01 d.15.1.3 65403 1zin 217 1.19e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1hnuA 280 1.20e+01 1hnoA c.14.1.3 61096 1p3jA 217 1.35e+01 1js3A 486 1.41e+01 c.67.1.6 67215 1d8cA 723 1.41e+01 1d8cA c.1.13.1 29325 1fg7A 356 1.42e+01 1gewA c.67.1.1 59819 1c4kA 730 1.44e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1m15A 357 1.50e+01 a.83.1.1 78368 d.128.1.2 78369 1kl9A 182 1.53e+01 b.40.4.5 72681 1urnA 97 1.54e+01 1urnA d.58.7.1 39153 1ecsA 126 1.56e+01 1ecsA d.32.1.2 59407 1hx0A 496 1.57e+01 b.71.1.1 61346 c.1.8.1 61347 1r1uA 106 1.61e+01 1smd 496 1.63e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1oiaA 95 1.66e+01 d.58.7.1 87051 1ufwA 95 1.67e+01 1bwzA 274 1.67e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1psdA 409 1.69e+01 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1jssA 224 1.70e+01 d.129.3.2 71844 1pjhA 280 1.75e+01 1ekgA 127 1.83e+01 1dlxA d.82.2.1 40021 1jqgA 433 1.86e+01 c.56.5.1 71791 d.58.3.1 71792 1p7tA 731 1.89e+01 1ln1A 214 1.91e+01 d.129.3.2 74038 1eu8A 409 1.95e+01 1eu8A c.94.1.1 59502 1of8A 370 1.96e+01 1m6sA 347 1.97e+01 c.67.1.1 78701 1jg8A 347 2.01e+01 1jg8A c.67.1.1 62946 1g38A 393 2.03e+01 2admA c.66.1.27 60235 1hi9A 274 2.06e+01 1hi9A c.99.1.1 61063 1o6uA 403 2.11e+01 1qnaA 200 2.12e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1nm2A 317 2.14e+01 c.19.1.1 80654 d.58.23.1 80655 1guiA 155 2.14e+01 b.18.1.14 76351 1l3kA 196 2.14e+01 d.58.7.1 73539 d.58.7.1 73540 1u2fA 90 2.17e+01 1u2fA d.58.7.1 39168 1t7pA 698 2.20e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1f7uA 607 2.23e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1xyzA 347 2.23e+01 1taxA c.1.8.3 28804 1smtA 122 2.26e+01 1smtA a.4.5.5 16109 1ad2 228 2.28e+01 1ad2 e.24.1.1 43353 1kcqA 104 2.28e+01 d.109.1.1 68449 1p5vA 235 2.34e+01 b.1.11.1 87812 b.7.2.1 87813 1q4rA 112 2.39e+01 1dusA 194 2.40e+01 1dusA c.66.1.4 34182 1rf6A 427 2.40e+01 1n7kA 234 2.41e+01 c.1.10.1 85374 1lfjA 119 2.43e+01 a.133.1.2 84604 1v5sA 126 2.46e+01 1eg5A 384 2.48e+01 1ecxA c.67.1.3 34429 1s6bA 119 2.49e+01 1eu1A 780 2.50e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1ur1A 378 2.50e+01 1g8lA 411 2.53e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1iwlA 182 2.56e+01 b.125.1.1 83757 1dj0A 264 2.57e+01 1dj0A d.58.35.1 39497 d.58.35.1 39498 1k8wA 327 2.61e+01 b.122.1.1 83094 d.58.35.2 68317 d.58.35.2 83095 1s48A 609 2.66e+01 1r31A 428 2.69e+01 1ojaA 520 2.70e+01 1a0i 348 2.76e+01 1a0i b.40.4.6 25363 d.142.2.1 41577 1b04A 318 2.80e+01 1b04A d.142.2.2 41579 1gmuA 143 2.81e+01 b.107.1.1 65335 d.58.38.1 65336 1eo6A 117 2.84e+01 1eo6A d.15.1.3 37609 2tct 207 2.84e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1i4yA 114 2.86e+01 2mhr a.24.4.1 61738 1louA 101 2.86e+01 1ris d.58.14.1 39323 1ha1 184 2.86e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1nu4A 97 2.94e+01 d.58.7.1 80731 1ctn 540 2.96e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1koqA 253 3.01e+01 2cba b.74.1.1 27964 1uu1A 335 3.02e+01 1qh4A 380 3.04e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1gd0A 122 3.06e+01 1dptA d.80.1.3 39834 1s3eA 520 3.08e+01 1q9jA 422 3.08e+01 1oivA 191 3.17e+01 1el5A 389 3.20e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 1omp 370 3.31e+01 4mbp c.94.1.1 35778 1p65A 73 3.38e+01 1cuoA 129 3.38e+01 1nwpA b.6.1.1 23015 1qmgA 524 3.43e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1nnhA 294 3.47e+01 1oniA 137 3.48e+01 d.79.1.1 87144 1gewA 356 3.51e+01 1gewA c.67.1.1 60470 1jyaA 130 3.55e+01 d.198.1.1 67453 1id1A 153 3.66e+01 1id1A c.2.1.9 62286 1ursA 402 3.69e+01 1hfoA 113 3.70e+01 d.80.1.3 61006 1dfaA 454 3.78e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1c7gA 456 3.80e+01 1e5eA 404 3.81e+01 1ibjA c.67.1.3 59265 1d8hA 311 3.93e+01 1d8iA d.63.1.1 39544 1gxuA 91 3.96e+01 d.58.10.1 76378