# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1wy0A 342 4.43e-01 1xn7A 78 4.90e-01 1elvA 333 5.72e-01 5ptp b.47.1.2,g.18.1.1 59454,59455 1lddA 74 8.57e-01 a.4.5.34 73841 2fcr 173 1.13e+00 1rcf c.23.5.1 31151 1souA 194 1.21e+00 c.124.1.6 105858 1i5gA 144 1.52e+00 1ewxA c.47.1.10 61784 1i3cA 149 1.74e+00 c.23.1.1 71112 1xq6A 253 2.34e+00 1zin 217 2.74e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1zip 217 2.93e+00 1zin c.37.1.1,g.41.2.1 31916,45179 1kl1A 419 3.20e+00 c.67.1.4 72663 1pswA 348 3.46e+00 c.87.1.7 88287 1yjsA 419 3.75e+00 1y02A 120 4.51e+00 1bkdS 439 4.65e+00 1bkdS a.117.1.1 19111 2gtsA 86 5.33e+00 1rzuA 485 5.51e+00 c.87.1.8 105140 1ub9A 100 5.65e+00 a.4.5.28 99159 1vhwA 253 5.77e+00 c.56.2.1 100706 2aeuA 374 5.92e+00 1q1hA 110 5.94e+00 a.4.5.41 95580 1xx6A 191 5.97e+00 1srvA 145 6.13e+00 1derA c.8.5.1 30817 1gveA 327 6.15e+00 c.1.7.1 70597 1t6cA 315 6.78e+00 c.55.1.8,c.55.1.8 106558,106559 2cj4A 150 7.02e+00 1qwrA 319 7.04e+00 b.82.1.3 96491 2cfxA 144 7.43e+00 1k66A 149 7.48e+00 c.23.1.1 90941 1v93A 296 7.61e+00 c.1.23.1 100532 1pueE 89 8.66e+00 1awcA a.4.5.21 16165 1g3qA 237 8.67e+00 1hyqA c.37.1.10 60237 1lvaA 258 9.12e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1xt5A 135 9.58e+00 1vfsA 386 9.60e+00 b.49.2.2,c.1.6.1 108584,108585 1fohA 664 1.03e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1dqnA 230 1.05e+01 1dqnA c.61.1.1 34067 1ivyA 452 1.08e+01 1ivyA c.69.1.5 34654 1noyA 388 1.14e+01 1clqA c.55.3.5 33713 1s9jA 341 1.22e+01 1xmkA 79 1.24e+01 1nvvS 481 1.27e+01 a.117.1.1 86279 1ylmA 144 1.31e+01 2gi3A 476 1.31e+01 1uv7A 110 1.33e+01 d.67.4.1 100040 1ecpA 238 1.35e+01 1ecpA c.56.2.1 33775 2a61A 145 1.36e+01 1pn0A 665 1.36e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1dqpA 230 1.36e+01 1dqnA c.61.1.1 34069 1vzwA 244 1.41e+01 2ff4A 388 1.47e+01 1pot 325 1.48e+01 1pot c.94.1.1 35807 1em9A 154 1.51e+01 1d1dA a.73.1.1 18333 1y7pA 223 1.54e+01 1uk8A 282 1.62e+01 c.69.1.10 107907 1jubA 311 1.66e+01 c.1.4.1 90908 1t2bA 397 1.66e+01 1y0uA 96 1.66e+01 2ethA 154 1.68e+01 1k68A 140 1.68e+01 c.23.1.1 90943 1uq5A 263 1.75e+01 d.165.1.1 99778 1iupA 282 1.77e+01 c.69.1.10 76815 1zs9A 261 1.86e+01 1xt8A 292 1.87e+01 1j2zA 270 1.89e+01 b.81.1.1 90805 2fulA 178 1.89e+01 1sfe 180 1.89e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1zxmA 400 1.92e+01 1umwA 237 1.93e+01 d.223.1.2,d.223.1.2 99631,99632 1uzxA 169 1.93e+01 d.20.1.2 100238 1dorA 311 1.93e+01 2dorA c.1.4.1 28595 1vi9A 299 1.93e+01 c.72.1.5 100750 1wolA 122 1.97e+01 1z15A 344 2.02e+01 1z83A 196 2.09e+01 1xw5A 217 2.14e+01 1t6nA 220 2.17e+01 c.37.1.19 106576 1yk3A 210 2.17e+01 1kid 203 2.18e+01 1derA c.8.5.1 30771 1rj1A 151 2.21e+01 a.29.6.1 97526 1b4pA 217 2.26e+01 a.45.1.1,c.47.1.5 83158,83159 1u5tA 233 2.28e+01 a.4.5.54,a.4.5.54 107684,107685 1ec7A 446 2.31e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 2a0b 125 2.32e+01 2a0b a.24.10.1 16630 1gtmA 419 2.34e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 2fyxA 143 2.35e+01 256bA 106 2.39e+01 256bA a.24.3.1 16539 1rzsA 61 2.42e+01 a.35.1.2 105139 2liv 344 2.42e+01 2liv c.93.1.1 35708 1sumB 235 2.47e+01 a.7.12.1 106025 1wstA 417 2.48e+01 1prtF 98 2.49e+01 1prtF b.40.2.1 25140 6gsvA 217 2.50e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 2fq4A 192 2.56e+01 1fmcA 255 2.58e+01 1cydA c.2.1.2 29856 1sgvA 316 2.59e+01 b.122.1.1,d.265.1.2 98858,98859 2ex2A 458 2.60e+01 1a05A 358 2.62e+01 1cnzA c.77.1.1 35059 1de4C 640 2.65e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 2amxA 376 2.68e+01 2awiA 317 2.70e+01 1tw4A 125 2.79e+01 1jr5A 90 2.85e+01 a.150.1.1 67113 1wdaA 670 2.86e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 1tz9A 367 2.86e+01 c.1.15.6 107466 2dorA 311 2.92e+01 2dorA c.1.4.1 28593 1r3eA 309 2.94e+01 b.122.1.1,d.265.1.2 96907,96908 2fx0A 201 2.96e+01 1kiyA 374 3.02e+01 a.128.1.5 72555 1k9sA 237 3.03e+01 c.56.2.1 68359 2b9wA 424 3.06e+01 2c7pA 327 3.08e+01 6mhtA 327 3.13e+01 6mhtA c.66.1.26 34226 1zjrA 211 3.18e+01 2fnjC 96 3.19e+01 1q6zA 528 3.22e+01 1auiA 521 3.24e+01 1auiA d.159.1.3 42085 1bfd 528 3.32e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1tqnA 486 3.34e+01 a.104.1.1 107238 2bptA 861 3.36e+01 1rkuA 206 3.40e+01 c.108.1.11 97627 2bogX 286 3.44e+01 1y13A 181 3.45e+01 1ni4A 365 3.52e+01 c.36.1.11 85728 1xknA 355 3.53e+01 1w0pA 781 3.62e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1wgzA 510 3.67e+01 1eokA 290 3.71e+01 1eokA c.1.8.5 28991 1yiiA 320 3.73e+01 1hw1A 239 3.75e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1lfo 128 3.75e+01 1hmt b.60.1.2 27223 2c4jA 218 3.80e+01 1n25A 368 3.82e+01 c.37.1.20 85264 1f60A 458 3.84e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1ift 263 3.85e+01 1mrj d.165.1.1 42211 2gptA 523 3.86e+01 1ass 159 3.91e+01 1a6dA c.8.5.2 30818 1m2rA 327 3.91e+01 d.144.1.7 84760 1h4vB 421 3.95e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1bc5A 269 3.96e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1nbcA 155 3.97e+01 1nbcA b.2.2.2 22390 4mbp 370 3.97e+01 4mbp c.94.1.1 35777 1xo0A 324 4.04e+01 1o6uA 403 4.06e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1ji7A 89 4.09e+01 a.60.1.1 71682 1bcpF 99 4.10e+01 1prtF b.40.2.1 25142 1yemA 179 4.11e+01 1eiwA 111 4.14e+01 1eiwA c.23.3.1 31130 1q8yA 373 4.18e+01 d.144.1.7 96234 2ck3A 510 4.23e+01 2be3A 226 4.25e+01 1b77A 228 4.28e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1io7A 368 4.34e+01 1f4tA a.104.1.1 18971 1z6mA 175 4.42e+01 1yf5L 254 4.42e+01 1fnlA 175 4.42e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1olmA 403 4.46e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 2f06A 144 4.47e+01 2bh1A 250 4.48e+01 1i6xA 209 4.53e+01 a.4.5.4,b.82.3.2 83673,83674 1in6A 334 4.56e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1yyqA 374 4.56e+01 1gcoA 261 4.56e+01 1ybvA c.2.1.2 29884 2rslA 140 4.62e+01 2rslA c.53.1.1 33345 1vbuA 328 4.63e+01 1y5eA 169 4.67e+01 1vqzA 341 4.69e+01 2fm8A 135 4.71e+01 1sly 618 4.72e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1omp 370 4.73e+01 4mbp c.94.1.1 35778 1aqcA 172 4.74e+01 1x11A b.55.1.2 26983 2b0cA 206 4.77e+01 1hq1A 105 4.81e+01 1dulA a.36.1.1 17120 1jfuA 186 4.83e+01 c.47.1.10 62940 1dpuA 99 4.83e+01 1dpuA a.4.5.16 16150 1laxA 370 4.89e+01 c.94.1.1 84576 1ub0A 258 5.00e+01 c.72.1.2 88394 1zjjA 263 5.01e+01 1xppA 115 5.03e+01 2bodX 286 5.06e+01 2dexX 671 5.08e+01 1vgjA 184 5.09e+01 1ytvA 366 5.15e+01 1e79A 510 5.29e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1kao 167 5.30e+01 1ctqA c.37.1.8 32014 1td2A 287 5.32e+01 c.72.1.5 106765 1y0nA 78 5.32e+01 1bxkA 355 5.34e+01 1bxkA c.2.1.2 29803 2feaA 236 5.42e+01 1jl2A 156 5.43e+01 c.55.3.1 66822 2a3nA 355 5.43e+01 1f44A 324 5.45e+01 a.60.9.1,d.163.1.1 64982,64983 2fpoA 202 5.46e+01 1zkdA 387 5.49e+01 1lm8C 96 5.54e+01 d.42.1.1 74034 1qsaA 618 5.55e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1aocA 175 5.55e+01 1aocA g.17.1.5 44817 1zklA 353 5.57e+01 1omoA 322 5.59e+01 c.2.1.13 104017 1ddwA 120 5.63e+01 1evhA b.55.1.4 27001 1vhqA 232 5.72e+01 c.23.16.2 100696 1adjA 421 5.73e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1zxiF 288 5.79e+01 1g5aA 628 5.79e+01 b.71.1.1,c.1.8.1 65152,65153 1jvr 137 5.79e+01 1jvr a.61.1.2 18132 1umzA 278 5.81e+01 b.29.1.2 99639 1r6lA 239 5.81e+01 d.14.1.4,d.101.1.1 97153,97154 1m1nB 522 5.88e+01 c.92.2.3 78418 1vp4A 425 5.89e+01 1z5oA 242 5.90e+01 1hw5A 210 5.93e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 2apjA 260 5.96e+01 1jysA 242 5.97e+01 c.56.2.1 77216 1zrn 232 5.98e+01 1qq5A c.108.1.1 43323 1geeA 261 6.00e+01 c.2.1.2 90509 1on3A 523 6.00e+01 c.14.1.4,c.14.1.4 87107,87108 1s7kA 182 6.10e+01 1kp8A 547 6.12e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1hskA 326 6.15e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1kit 757 6.27e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 2bp1A 360 6.30e+01 1ydwA 362 6.35e+01 1yhpA 212 6.41e+01 1vdxA 184 6.44e+01 1z8gA 372 6.49e+01 2ebn 289 6.62e+01 2ebn c.1.8.5 28990 1i36A 264 6.65e+01 a.100.1.8,c.2.1.6 71108,71109 2a38A 194 6.65e+01 1af7 274 6.69e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1h8eA 510 6.73e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2f51A 118 6.79e+01 1z5nA 242 6.85e+01 1guxA 218 6.92e+01 1guxA a.74.1.3 18388 1svmA 377 7.03e+01 2aelA 374 7.13e+01 1l2uA 245 7.16e+01 c.1.2.3 73516 1vr5A 547 7.21e+01 1wi9A 72 7.22e+01 1z1dA 103 7.23e+01 2d1sA 548 7.25e+01 1f7cA 231 7.26e+01 1f7cA a.116.1.1 19107 1y5iB 512 7.35e+01 1q7zA 566 7.36e+01 c.1.21.2,c.1.26.1 96090,96091 1pixA 587 7.36e+01 c.14.1.4 94708 4crxA 322 7.44e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1oaa 259 7.45e+01 1oaa c.2.1.2 29829 1q16B 512 7.48e+01 d.58.1.5 95548 1k20A 310 7.60e+01 c.107.1.1 68027 2prd 174 7.63e+01 2prd b.40.5.1 25435 2adcA 229 7.64e+01 1anf 370 7.66e+01 4mbp c.94.1.1 35776 2fuqA 747 7.73e+01 1vllA 334 7.74e+01 c.2.1.13 108834 1b8dA 164 7.91e+01 1cpcA a.1.1.3 15665 1z2lA 423 8.03e+01 2a5hA 416 8.10e+01 1u7pA 164 8.13e+01 1iruK 201 8.14e+01 d.153.1.4 71362 1up8A 598 8.25e+01 a.111.1.2 99710 1yvvA 336 8.33e+01 1rd5A 262 8.34e+01 1j71A 334 8.37e+01 1eagA b.50.1.2 62669 1x99A 145 8.40e+01 1j1nA 492 8.50e+01 c.94.1.1 83978 1i74A 309 8.50e+01 1i74A c.107.1.1 61867 1vclA 432 8.58e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 2bfgA 503 8.65e+01 2fg1A 158 8.67e+01 1xd7A 145 8.82e+01 a.4.5.55 109566 1pu1A 94 8.83e+01 d.266.1.1 104307 1a99A 344 8.91e+01 1pot c.94.1.1 35812 2c07A 285 8.92e+01 1kjqA 391 8.92e+01 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1zd3A 555 8.95e+01