# List of top-scoring protein chains for t04-100-40-40-str2+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 1ihp 438 3.10e-02 1ihp c.60.1.2 33993 1tx4B 178 1.22e-01 1ctqA c.37.1.8 32045 1tqyB 415 1.32e-01 c.95.1.1,c.95.1.1 107247,107248 1kmvA 186 2.80e-01 c.71.1.1 72757 1kmqA 184 3.52e-01 c.37.1.8 84412 1l1qA 186 4.13e-01 c.61.1.1 77653 1i0lA 221 6.23e-01 c.61.1.1 71096 1tc1A 220 6.85e-01 1tc1A c.61.1.1 34083 8dfr 189 7.67e-01 1aoeA c.71.1.1 34895 2b3yA 888 8.54e-01 1k8kA 418 1.36e+00 c.55.1.1,c.55.1.1 68305,68306 1qwoA 442 1.42e+00 c.60.1.2 104620 1nd6A 354 1.60e+00 c.60.1.2 80407 1xcbA 211 1.93e+00 a.4.5.38,c.2.1.12 109552,109553 1k4tA 592 1.97e+00 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1b1cA 181 2.09e+00 1amoA c.23.5.2 31212 1esmA 316 2.24e+00 1esmA c.37.1.6 31953 1lxjA 104 2.63e+00 d.58.48.1 84736 1cby 259 3.22e+00 1cby d.103.1.1 40705 1se0A 116 3.33e+00 g.52.1.1 98814 1ny6A 267 3.39e+00 c.37.1.20 92321 1lxnA 99 3.44e+00 d.58.48.1 84737 1sxjE 354 3.55e+00 a.80.1.1,c.37.1.20 106089,106090 1s2wA 295 4.11e+00 c.1.12.7 98407 1x7oA 287 4.26e+00 2ghrA 302 4.55e+00 1ss4A 153 4.58e+00 d.32.1.6 105976 1tvjA 166 4.82e+00 1izmA 184 5.23e+00 a.199.1.1 90725 1g4yR 148 5.51e+00 1cll a.39.1.5 60252 1pymA 295 6.13e+00 1pymA c.1.12.7 29308 2b25A 336 6.36e+00 2bnxA 386 6.58e+00 1v58A 241 6.70e+00 c.47.1.9,d.17.3.1 108371,108372 1dyr 206 7.10e+00 1aoeA c.71.1.1 34916 1mp9A 198 7.42e+00 d.129.1.1,d.129.1.1 91385,91386 5ukdA 194 7.54e+00 1zin c.37.1.1 31851 1vddA 228 7.75e+00 e.49.1.1 108519 2gw6A 123 8.01e+00 1a9xB 379 8.14e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1zetA 388 8.76e+00 1vjtA 483 8.91e+00 c.2.1.5,d.162.1.2 100833,100834 1nox 205 8.99e+00 1nox d.90.1.1 40242 1vr5A 547 9.27e+00 1nonA 179 9.29e+00 c.61.1.1 103868 1rj9A 304 9.67e+00 a.24.13.1,c.37.1.10 97553,97554 1z9bA 135 9.99e+00 1uohA 226 1.00e+01 d.211.1.1 99690 1n2fA 142 1.00e+01 d.227.1.1 79853 1xxoA 147 1.02e+01 2olbA 517 1.11e+01 1jevA c.94.1.1 35721 1fp2A 352 1.18e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1uspA 139 1.21e+01 d.227.1.1 99879 1shuX 182 1.21e+01 c.62.1.1 98882 1c30B 382 1.32e+01 c.8.3.1,c.23.16.1 30736,31413 1ytlA 174 1.32e+01 1qf9A 194 1.33e+01 1zin c.37.1.1 31848 1zavA 180 1.35e+01 1qvcA 145 1.35e+01 3ullA b.40.4.3 25284 1xznA 179 1.38e+01 1cdzA 96 1.45e+01 1cdzA c.15.1.1 30925 2c2hA 192 1.45e+01 1b7yB 785 1.46e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 2bx2L 517 1.50e+01 1fdr 248 1.54e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 2c27A 315 1.58e+01 1gx1A 160 1.59e+01 d.79.5.1 70675 1t6cA 315 1.62e+01 c.55.1.8,c.55.1.8 106558,106559 2av5A 120 1.63e+01 2esrA 177 1.69e+01 1ble 163 1.71e+01 1ble c.38.1.1 32475 1rzhL 281 1.72e+01 f.26.1.1 98164 1hqz1 141 1.72e+01 1vhnA 318 1.82e+01 c.1.4.1 100693 1x3lA 440 1.83e+01 1j2gA 319 1.88e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1j58A 385 1.93e+01 b.82.1.2 71531 1urjA 1136 1.93e+01 1v86A 95 1.93e+01 d.15.1.1 108421 2atxA 194 1.94e+01 2cy2A 174 2.03e+01 1q7lA 198 2.05e+01 c.56.5.4 96044 1shwB 181 2.05e+01 b.18.1.4 105563 351c 82 2.13e+01 451c a.3.1.1 15905 1cqxA 403 2.15e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1e5pA 151 2.21e+01 1bj7 b.60.1.1 59272 1w9aA 147 2.22e+01 1cipA 353 2.25e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 451c 82 2.26e+01 451c a.3.1.1 15904 1vkjA 285 2.26e+01 c.37.1.5 108666 2bjvA 265 2.44e+01 1t71A 281 2.45e+01 1y7rA 133 2.49e+01 2pii 112 2.53e+01 2pii d.58.5.1 39071 1wvqA 167 2.54e+01 1jetA 517 2.55e+01 1jevA c.94.1.1 35718 2hts 88 2.58e+01 2hts a.4.5.22 16174 1mo7A 213 2.65e+01 d.220.1.1 85028 2hpaA 342 2.69e+01 1cviA c.60.1.2 33985 1c25 161 2.72e+01 1c25 c.46.1.1 32698 1elqA 390 2.74e+01 1elqA c.67.1.3 34436 1t6nA 220 2.77e+01 c.37.1.19 106576 2cc0A 195 2.78e+01 1alvA 173 2.81e+01 1alvA a.39.1.8 17370 1whsA 255 2.86e+01 1ivyA c.69.1.5 34649 1ve9A 347 2.87e+01 c.4.1.2,d.16.1.3 100571,100572 1w5fA 353 2.88e+01 1zj6A 187 2.89e+01 1i37A 260 2.90e+01 1a28A a.123.1.1 61583 1dqpA 230 2.91e+01 1dqnA c.61.1.1 34069 2f9dA 125 2.95e+01 2d28C 149 2.97e+01 1eluA 390 2.99e+01 1elqA c.67.1.3 34434 1jztA 246 3.01e+01 c.104.1.1 63319 1kqqA 139 3.01e+01 a.4.3.1 72885 1qhdA 398 3.03e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1whtA 256 3.03e+01 1ivyA c.69.1.5 34646 1wmhA 89 3.04e+01 2cb2A 318 3.11e+01 1yyaA 250 3.14e+01 2fbhA 146 3.16e+01 1vj7A 393 3.16e+01 a.211.1.1,d.218.1.8 100801,100802 2gbp 309 3.23e+01 1gca c.93.1.1 35657 1nukA 183 3.36e+01 1nukA b.18.1.4 23721 2cxhA 217 3.37e+01 1kjwA 295 3.47e+01 b.34.2.1,c.37.1.1 68643,68644 1p7hL 286 3.48e+01 b.1.18.1,b.2.5.3 94271,94272 1tadA 324 3.49e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1aa8A 347 3.50e+01 1an9A 1qfxA 460 3.53e+01 1qfxA c.60.1.2 33994 5pal 109 3.54e+01 1a75A a.39.1.4 17215 1or7A 194 3.55e+01 a.4.13.2,a.177.1.1 87332,87333 1w6uA 302 3.57e+01 1gca 309 3.58e+01 1gca c.93.1.1 35659 2agdA 287 3.62e+01 2b5gA 171 3.71e+01 1lswA 131 3.75e+01 d.110.3.2 78181 1ufyA 122 3.76e+01 d.79.1.2 88489 2d27A 149 3.90e+01 2ftrA 108 3.90e+01 1jy1A 464 3.93e+01 d.136.1.3,d.136.1.3 67438,67439 2f1rA 171 3.93e+01 1utcA 363 3.97e+01 a.118.1.4,b.69.6.1 99914,99915 1zuwA 272 4.08e+01 1vcc 77 4.11e+01 1vcc d.121.1.1 41092 1nrzA 164 4.12e+01 c.38.1.1 86131 1qnxA 209 4.18e+01 1qnxA d.111.1.1 40914 1ig0A 319 4.19e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1qfjA 232 4.19e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1vd2A 89 4.19e+01 d.15.2.2 108517 1qo0D 196 4.21e+01 1qo0D c.23.1.3 31125 1dnv 437 4.22e+01 1dnv b.121.5.3 23332 1t3bA 211 4.40e+01 c.47.1.9,d.17.3.1 106341,106342 1o0uA 429 4.41e+01 c.118.1.1 80743 1vk8A 106 4.41e+01 d.58.48.1 108636 1ofgA 381 4.43e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1ryoA 327 4.45e+01 c.94.1.2 98108 1sq5A 308 4.46e+01 c.37.1.6 105882 2aq6A 147 4.46e+01 2bk7B 222 4.49e+01 2bo9B 222 4.49e+01 2c1lA 358 4.56e+01 1j55A 95 4.59e+01 a.39.1.2 77078 1mh1 186 4.64e+01 1eesA c.37.1.8 32002 1no7A 604 4.66e+01 e.48.1.1 92016 1rpa 342 4.69e+01 1cviA c.60.1.2 33983 1wpoA 256 4.70e+01 1lay b.57.1.1 27012 1xeaA 323 4.72e+01 c.2.1.3,d.81.1.5 109572,109573 1oeyA 83 4.78e+01 d.15.2.2 92800 1e2kA 331 4.86e+01 1qhiA c.37.1.1 31854 1zx5A 300 4.86e+01 1l5wA 796 4.93e+01 c.87.1.4 73605 1a0i 348 4.97e+01 1a0i b.40.4.6,d.142.2.1 25363,41577 1mtpA 323 4.97e+01 e.1.1.1 85107 1tllA 688 5.12e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1j08A 226 5.14e+01 c.47.1.2,c.47.1.2 83855,83856 1q87A 221 5.14e+01 e.47.1.1 96192 2b8nA 429 5.14e+01 1uarA 285 5.19e+01 c.46.1.2,c.46.1.2 107762,107763 1k8rB 110 5.22e+01 d.15.1.5 72180 1a8p 258 5.22e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 2fsjA 346 5.33e+01 1vhiA 142 5.40e+01 1b3tA d.58.8.1 39230 1zkoA 136 5.40e+01 1lqtA 456 5.41e+01 c.3.1.1,c.4.1.1 74198,74199 1qkkA 155 5.45e+01 1dbwA c.23.1.1 31104 2f3yA 148 5.51e+01 1ru3A 732 5.58e+01 e.26.1.3 97835 1hq8A 123 5.64e+01 1b6e d.169.1.1 61127 1sfnA 246 5.69e+01 b.82.1.11 105496 1pvdA 537 5.69e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1ftrA 296 5.69e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 2c5aA 379 5.72e+01 1a8e 329 5.72e+01 1cb6A c.94.1.2 35888 1an9A 340 5.77e+01 1an9A c.4.1.2,d.16.1.3 30617,37904 1keyA 235 5.80e+01 a.118.16.1 72389 1hleA 345 5.80e+01 1ovaA e.1.1.1 42618 1a8l 226 5.84e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1y81A 138 5.98e+01 1nnlA 225 5.99e+01 c.108.1.4 85906 1b3tA 147 6.02e+01 1b3tA d.58.8.1 39228 1fnnA 389 6.06e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1a5t 334 6.12e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1lhpA 312 6.22e+01 c.72.1.5 77960 1ukkA 142 6.28e+01 d.227.1.1 99491 1nfjA 89 6.37e+01 d.68.6.1 91866 1mzhA 225 6.41e+01 c.1.10.1 79698 1z2nX 324 6.41e+01 1wh8A 111 6.42e+01 1qynA 153 6.45e+01 d.33.1.1 96597 1zpuA 534 6.49e+01 1ii5A 233 6.50e+01 c.94.1.1 62412 1ggzA 148 6.54e+01 a.39.1.5 70176 1q2hA 69 6.67e+01 a.34.4.1 104498 2cxcA 144 6.67e+01 1eejA 216 6.73e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1lfdA 87 6.80e+01 1lfdA d.15.1.5 37622 1cznA 169 6.97e+01 1rcf c.23.5.1 31181 1s72L 165 7.01e+01 c.12.1.1 105331 1ynbA 173 7.07e+01 1xhbA 472 7.15e+01 1kgyA 181 7.22e+01 b.18.1.4 72449 1oaoC 729 7.28e+01 e.26.1.3 86746 1jj2K 164 7.29e+01 1ffkJ c.12.1.1 63096 1y0vH 146 7.31e+01 1ezvD 245 7.31e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1othA 321 7.31e+01 1othA c.78.1.1,c.78.1.1 35260,35261 2eshA 118 7.35e+01 1t7rA 269 7.36e+01 a.123.1.1 106635 1yckA 175 7.39e+01 1adjA 421 7.41e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2be3A 226 7.45e+01 1vqoL 165 7.47e+01 1jnrB 150 7.50e+01 d.58.1.5 66969 1uiuA 502 7.52e+01 c.94.1.1 99434 1x3zA 335 7.53e+01 1grx 85 7.53e+01 1kte c.47.1.1 32766 1tbmA 326 7.70e+01 a.211.1.2 106744 1hn6A 110 7.74e+01 g.61.1.1 76721 1bpoA 494 7.79e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1o51A 114 7.83e+01 d.58.5.4 92480 1ywmA 200 7.84e+01 1dqnA 230 7.87e+01 1dqnA c.61.1.1 34067 2cu5A 129 7.93e+01 1ys4A 354 8.05e+01 1iibA 106 8.13e+01 1iibA c.44.2.1 32648 1m7bA 184 8.31e+01 c.37.1.8 74572 1oy3D 282 8.34e+01 d.211.1.1 87554 1n27A 96 8.37e+01 b.34.9.2 91549 2cy7A 396 8.42e+01 1h6dA 433 8.47e+01 c.2.1.3,d.81.1.5 65656,65657 1ursA 402 8.60e+01 c.94.1.1 99833 1nmmB 286 8.62e+01 c.68.1.2 80662 1ep3B 262 8.67e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2dg5B 190 8.72e+01 1xnpA 202 8.74e+01 1fm2A 169 8.89e+01 1fm2A d.153.1.2 59877 2fy7A 287 8.96e+01 1hr6A 475 8.98e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1kb9D 246 8.99e+01 a.3.1.3,f.23.11.1 77317,77318