# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1bk6A 422 3.41e-24 1bk5A a.118.1.1 19133 1bk5A 422 1.42e-23 1bk5A a.118.1.1 19130 1ee4A 423 2.76e-23 1ee4A a.118.1.1 19128 1wa5B 530 8.49e-22 1ialA 453 1.55e-21 1bk5A a.118.1.1 19116 1b3uA 588 2.26e-15 1b3uA a.118.1.2 19135 2bptA 861 4.78e-13 1qgrA 876 1.19e-12 1qgrA a.118.1.1 19119 1qbkB 890 4.73e-12 1qbkB a.118.1.1 19127 1gw5B 591 9.66e-12 a.118.1.10 70630 1oyzA 280 1.07e-10 a.118.1.16 93775 1i7wA 538 2.31e-10 3bct a.118.1.1 61909 1ibrB 462 4.00e-10 1qgrA a.118.1.1 19120 1jdhA 529 4.47e-10 a.118.1.1 66549 3bct 457 6.65e-10 3bct a.118.1.1 19112 1g3jA 532 1.02e-09 3bct a.118.1.1 19114 1xm9A 457 9.95e-09 1gw5A 621 1.38e-08 a.118.1.10 70629 1xqrA 296 4.53e-08 1xqsA 280 8.20e-08 1upkA 341 2.74e-07 a.118.1.15 99758 1lrv 244 5.20e-05 1lrv a.118.1.5 19146 1w9cA 321 1.15e-02 2bnxA 386 1.30e-02 1z2cB 383 1.63e-02 1wa5C 960 2.05e-02 1dljA 402 2.49e-02 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dliA 402 5.22e-02 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 2f31A 233 6.30e-02 1ho8A 480 1.08e-01 1ho8A a.118.1.9 61107 1dvpA 220 1.15e-01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1lshA 1056 1.56e-01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1jr3A 373 2.10e-01 a.80.1.1,c.37.1.20 63245,63246 1vdyA 140 2.14e-01 2b6cA 220 6.06e-01 1fchA 368 7.43e-01 1fchA a.118.8.1 19212 1z6oM 191 7.52e-01 1azwA 313 8.93e-01 1qtrA c.69.1.7 34658 1xx1A 285 9.79e-01 1jplA 171 1.34e+00 a.118.9.2 67027 1z5hA 780 1.38e+00 1jwgA 147 1.44e+00 a.118.9.2 71911 1mhqA 148 1.47e+00 a.118.9.2 84973 1ujkA 147 1.81e+00 a.118.9.2 99457 1sqc 631 1.88e+00 2sqcA a.102.4.2,a.102.4.2 18858,18859 1qtrA 317 2.43e+00 1qtrA c.69.1.7 34660 1r4wA 226 2.88e+00 c.47.1.13 97050 1uedA 406 3.39e+00 a.104.1.1 99256 1wm1A 317 3.60e+00 c.69.1.7 109405 1kx9A 112 3.63e+00 a.118.21.1 77602 1f4tA 368 3.63e+00 1f4tA a.104.1.1 18973 1paqA 189 3.99e+00 a.118.1.14 94413 2sqcA 631 4.22e+00 2sqcA a.102.4.2,a.102.4.2 18854,18855 1th0A 226 4.82e+00 d.3.1.7 106903 1eexA 554 4.85e+00 1dioA c.1.19.3 29650 1oygA 447 4.91e+00 b.67.2.2 93726 2bpqA 373 5.60e+00 1dioA 554 5.81e+00 1dioA c.1.19.3 29656 1xw2A 405 5.83e+00 1ytlA 174 6.62e+00 1wy7A 207 6.75e+00 1ovlA 271 6.93e+00 a.123.1.1 87455 2af6A 258 7.11e+00 1zsqA 528 7.55e+00 1h12A 405 7.60e+00 a.102.1.2 83447 1mv8A 436 7.72e+00 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1xwtA 405 7.92e+00 2freA 200 8.02e+00 1wixA 164 8.13e+00 1fyhA 258 8.21e+00 1d9cA a.26.1.3,a.26.1.3 16907,16908 1k5nA 276 8.75e+00 b.1.1.2,d.19.1.1 77266,77267 1vhuA 211 8.86e+00 c.50.1.2 100703 1bpoA 494 9.05e+00 1bpoA a.118.1.4,b.69.6.1 19143,27670 1l5jA 865 9.12e+00 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1qlpA 394 9.44e+00 1ovaA e.1.1.1 42628 1hsbA 270 9.45e+00 1agdA b.1.1.2,d.19.1.1 20736,38257 1a87 321 9.74e+00 1a87 f.1.1.1 43380 1atu 374 1.00e+01 1ovaA e.1.1.1 42636 1duzA 275 1.04e+01 1agdA b.1.1.2,d.19.1.1 20670,38224 1i4fA 275 1.05e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1eft 405 1.06e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1lyxA 248 1.08e+01 c.1.1.1 78304 1hu3A 260 1.14e+01 1hu3A a.118.1.14 19137 1ihgA 370 1.14e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 2av1A 275 1.18e+01 2fb1A 226 1.19e+01 1q8yA 373 1.19e+01 d.144.1.7 96234 7catA 506 1.21e+01 1cf9A e.5.1.1 42781 2av7A 275 1.22e+01 1dysA 348 1.23e+01 1bvwA c.6.1.1 30669 1pmi 440 1.24e+01 1pmi b.82.1.3 28114 1nd4A 264 1.26e+01 d.144.1.6 91815 1hqkA 154 1.34e+01 c.16.1.1 65902 1i60A 278 1.41e+01 c.1.15.4 71118 2fflA 756 1.44e+01 3ygsP 97 1.46e+01 3ygsP a.77.1.3 18435 1qcrA 446 1.46e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1zy4A 303 1.50e+01 2gx9A 129 1.52e+01 1eg3A 261 1.56e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1pujA 282 1.56e+01 c.37.1.8 88294 1hz4A 373 1.58e+01 a.118.8.2 65960 1z7mA 344 1.68e+01 1zbmA 280 1.77e+01 1mgpA 313 1.82e+01 c.119.1.1 79098 1n7oA 721 1.86e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1io7A 368 2.07e+01 1f4tA a.104.1.1 18971 1tn6B 437 2.16e+01 1agdA 276 2.20e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1jcrB 437 2.27e+01 a.102.4.3 66507 1d9tA 289 2.40e+01 1deaA 1ft1B 437 2.41e+01 1ft1B a.102.4.3 18867 1w19A 160 2.47e+01 1hjzA 192 2.47e+01 c.50.1.2 83520 1eguA 731 2.48e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1ne7A 289 2.49e+01 c.124.1.1 91833 1rvv1 154 2.50e+01 1rvv1 1rvvA 154 2.50e+01 1rvv1 c.16.1.1 30927 1n97A 389 2.59e+01 a.104.1.1 80335 1ys4A 354 2.63e+01 2dh4A 340 2.68e+01 2f2gA 221 2.69e+01 1rfzA 168 2.71e+01 a.195.1.1 97411 2fji1 399 2.74e+01 1ld8B 437 2.76e+01 a.102.4.3 73839 1usuA 260 2.81e+01 d.14.1.8 99885 2fgeA 995 2.87e+01 1d8dB 437 2.87e+01 1ft1B a.102.4.3 18866 1iyjB 817 2.90e+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 1a3s 160 2.98e+01 1u9aA d.20.1.1 38335 1ha3A 405 3.05e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1wu4A 396 3.06e+01 1kicA 339 3.15e+01 c.70.1.1 72510 1qsaA 618 3.19e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1o5xA 248 3.20e+01 c.1.1.1 92528 2cw6A 298 3.22e+01 1hp0A 339 3.22e+01 c.70.1.1 65900 1b5sA 242 3.24e+01 1eaf c.43.1.1 32626 1be3A 446 3.28e+01 1be3A d.185.1.1,d.185.1.1 58950,58951 1x67A 146 3.35e+01 1ciy 590 3.39e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1lp4A 332 3.44e+01 d.144.1.7 74170 1u08A 386 3.46e+01 c.67.1.1 107543 1utcA 363 3.48e+01 a.118.1.4,b.69.6.1 99914,99915 1dgfA 497 3.55e+01 1cf9A e.5.1.1 42782 1txdA 385 3.55e+01 a.87.1.1,b.55.1.1 107422,107423 1fzkA 274 3.60e+01 1agdA b.1.1.2,d.19.1.1 60149,60150 2myr 501 3.66e+01 2grrA 161 3.70e+01 1nbaA 264 3.71e+01 1nbaA c.33.1.3 31753 1xgwA 176 3.72e+01 1dghB 498 3.75e+01 1cf9A e.5.1.1 42791 9apiA 347 3.76e+01 1ovaA e.1.1.1 42630 1hozA 339 3.85e+01 c.70.1.1 65898 1lw3A 657 3.91e+01 b.55.1.8,c.45.1.3 91152,91153 3crd 100 3.96e+01 3crd a.77.1.3 18429 1u9aA 160 4.01e+01 1u9aA d.20.1.1 38333 1m2rA 327 4.04e+01 d.144.1.7 84760 1ppjA 446 4.08e+01 d.185.1.1,d.185.1.1 104252,104253 1lxkA 721 4.11e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1q4mA 221 4.16e+01 a.132.1.3 95805 1b7yA 350 4.27e+01 1pysA d.104.1.1 40776 1o08A 221 4.36e+01 c.108.1.6 86525 1ouvA 273 4.47e+01 a.118.18.1 93570 1s2oA 244 4.48e+01 1pysA 350 4.53e+01 1pysA d.104.1.1 40775 1tazA 365 4.58e+01 a.211.1.2 106734 1nnwA 252 4.66e+01 d.159.1.5 80674 1e70M 501 4.69e+01 1e70M c.1.8.4 28926 1o69A 394 4.84e+01 c.67.1.4 92560 1om1A 332 4.86e+01 d.144.1.7 93347 1yqsA 349 4.95e+01 1wj7A 104 4.99e+01 1ddgA 374 5.03e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 1e4mM 501 5.05e+01 1e70M c.1.8.4 59226 1kfcA 268 5.19e+01 c.1.2.4 77371 2hmx 133 5.20e+01 1hiwA a.61.1.1 18129 1mkiA 330 5.23e+01 e.3.1.2 84994 1ib2A 349 5.31e+01 1ib2A a.118.1.8 62141 1sdeA 347 5.44e+01 1hstA 90 5.47e+01 1hstA a.4.5.13 16140 1alu 186 5.54e+01 1alu a.26.1.1 16826 1mp1A 111 5.67e+01 a.188.1.1 91382 1uwoA 92 5.78e+01 4icb a.39.1.2 17174 2afaA 425 5.84e+01 1exmA 405 5.85e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1n7hA 381 5.88e+01 c.2.1.2 80250 2bngA 149 5.91e+01 2cq8A 110 5.93e+01 1e6qM 501 6.01e+01 1e70M c.1.8.4 28920 1lpuA 332 6.01e+01 d.144.1.7 74177 1tp4A 97 6.01e+01 a.189.1.1 107183 1l0lA 446 6.03e+01 d.185.1.1,d.185.1.1 84482,84483 1z67A 135 6.06e+01 1idk 359 6.09e+01 1qcxA b.80.1.2 28025 1fokA 568 6.30e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 1sz9A 144 6.33e+01 a.118.9.4 106139 2dg5A 366 6.33e+01 2es9A 115 6.33e+01 1oaa 259 6.38e+01 1oaa c.2.1.2 29829 1obbA 480 6.39e+01 c.2.1.5,d.162.1.2 86760,86761 1pwgA 349 6.43e+01 e.3.1.1 104340 2ga9D 469 6.45e+01 2mgg 154 6.49e+01 1a6m a.1.1.2 15069 2fbmA 291 6.52e+01 1ye8A 178 6.54e+01 1ea9C 583 6.54e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1b24A 188 6.60e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1q8fA 313 6.60e+01 c.70.1.1 96203 1w96A 554 6.66e+01 1a1w 91 6.66e+01 1a1z a.77.1.4 18425 102m 154 6.70e+01 1a6m a.1.1.2 15073 1uw4B 248 6.75e+01 a.118.1.14 100072 1mod 154 6.77e+01 1a6m a.1.1.2 15107 1p3wA 404 6.77e+01 c.67.1.3 87752 1hvbA 349 6.82e+01 3pte e.3.1.1 42686 1wu7A 434 7.00e+01 1xzoA 174 7.01e+01 2fnuA 375 7.05e+01 1glm 470 7.14e+01 1ayx a.102.1.1 18821 1tm9A 137 7.17e+01 a.225.1.1 107150 2g62A 325 7.33e+01 2d1yA 256 7.34e+01 2ct9A 208 7.36e+01 1elkA 157 7.37e+01 1dvpA a.118.9.2 19217 1bkdS 439 7.37e+01 1bkdS a.117.1.1 19111 1db3A 372 7.41e+01 1db3A c.2.1.2 29813 1gd8A 118 7.41e+01 d.188.1.1 60445 1lk2A 274 7.43e+01 b.1.1.2,d.19.1.1 91056,91057 1mxgA 435 7.44e+01 b.71.1.1,c.1.8.1 85193,85194 2tysA 268 7.48e+01 2tysA c.1.2.4 28572 1fzoA 274 7.60e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1l9mA 692 7.64e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 73732,73733,73734,73735 1x79A 98 7.65e+01 1hbg 147 7.65e+01 2hbg a.1.1.2 15015 1hocA 272 7.73e+01 1agdA b.1.1.2,d.19.1.1 20815,38297 1r6fA 310 7.78e+01 e.46.1.1 97149 1kpuA 274 7.80e+01 b.1.1.2,d.19.1.1 84456,84457 2fbnA 198 7.85e+01 1d2mA 665 7.89e+01 1d2mA c.37.1.19,c.37.1.19 32417,32418 1hmvA 560 8.05e+01 1rthA c.55.3.1,e.8.1.2 33587,43046 1o0wA 252 8.11e+01 a.149.1.1,d.50.1.1 80751,80752 2f5xA 312 8.12e+01 1ygs 234 8.24e+01 1ygs b.26.1.1 23907 1ornA 226 8.25e+01 a.96.1.1 87342 1np3A 338 8.33e+01 a.100.1.2,c.2.1.6 85946,85947 1w2fA 276 8.36e+01 d.143.1.3 109125 1g2qA 187 8.40e+01 c.61.1.1 65117 1cb8A 678 8.41e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1dleA 298 8.42e+01 1dleA b.47.1.2 26312 1miuA 738 8.44e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1ua4A 455 8.49e+01 c.72.1.3 99128 1e3oC 160 8.49e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1jf3A 147 8.60e+01 a.1.1.2 71642 1rm6B 324 8.73e+01 1qgoA 264 8.77e+01 1qgoA c.92.1.2 35596 1mlg 154 8.79e+01 1a6m a.1.1.2 15104 1a6m 151 8.83e+01 1a6m a.1.1.2 15018 1g7pA 274 8.85e+01 b.1.1.2,d.19.1.1 70153,70154 1h0aA 158 8.85e+01 a.118.9.1 76434 1z7dA 433 8.88e+01 1d8yA 605 8.88e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1oj7A 408 8.92e+01 e.22.1.2 103971 1akaA 401 8.97e+01 1ajsA c.67.1.1 34258 1o20A 427 8.98e+01 c.82.1.1 86556 1ej6A 1289 8.99e+01 i.7.1.1 45967