# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 2ay1A 394 7.45e-01 1ajsA c.67.1.1 34357 1h6oA 204 7.54e-01 a.146.1.1 60689 1sedA 117 1.59e+00 1bpb 248 1.70e+00 1bpyA a.60.12.1 75811 d.218.1.2 75812 1rpl 251 1.92e+00 1bpyA a.60.12.1 75933 d.218.1.2 75934 1ap8 213 2.16e+00 1ap8 d.86.1.1 40151 1souA 194 2.18e+00 1ris 101 2.35e+00 1ris d.58.14.1 39314 1he1A 135 2.86e+00 1he1A a.24.11.1 16641 1o6zA 303 3.01e+00 c.2.1.5 81107 d.162.1.1 81108 4xiaA 393 3.17e+00 4xis c.1.15.3 29439 1louA 101 3.32e+00 1ris d.58.14.1 39323 1mnzA 388 4.37e+00 c.1.15.3 79328 3xis 387 4.38e+00 4xis c.1.15.3 29423 1xis 387 4.60e+00 4xis c.1.15.3 29422 4xis 387 4.80e+00 4xis c.1.15.3 29421 1nom 248 4.81e+00 1bpyA a.60.12.1 75929 d.218.1.2 75930 1h6qA 168 4.95e+00 1h6qA b.88.1.2 60692 1gw9A 388 5.01e+00 c.1.15.3 70658 2xis 387 5.19e+00 4xis c.1.15.3 29427 1qnxA 209 5.32e+00 1qnxA d.111.1.1 40914 1bj5 585 5.84e+00 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1w0bA 102 6.48e+00 1v64A 108 6.58e+00 1hi9A 274 6.66e+00 1hi9A c.99.1.1 61063 1o6jA 150 7.32e+00 c.47.1.10 81089 1r8sA 164 7.85e+00 c.37.1.8 -7082 1ab4 477 8.05e+00 1ab4 e.11.1.1 43251 1fukA 165 8.27e+00 1fukA c.37.1.19 32409 1s72V 71 8.52e+00 1ky3A 182 8.73e+00 c.37.1.8 73193 1dbhA 354 8.83e+00 1awe a.87.1.1 18514 b.55.1.1 26967 1b54 257 9.15e+00 1ct5A c.1.6.2 28664 2lfb 100 9.21e+00 1lfb a.4.1.1 15990 1kjwA 295 9.44e+00 b.34.2.1 68643 c.37.1.1 68644 1r3nA 462 9.58e+00 c.56.5.4 -7872 d.58.19.1 -10096 1ct5A 256 9.69e+00 1ct5A c.1.6.2 28663 1uu1A 335 9.76e+00 c.67.1.1 -8146 1o3yA 166 9.97e+00 c.37.1.8 86618 1j2iA 166 1.03e+01 1ut9A 609 1.08e+01 a.102.1.2 -1326 b.1.18.2 -2710 1hurA 180 1.11e+01 1hurA c.37.1.8 32052 1s2xA 206 1.15e+01 1jxmA 301 1.20e+01 b.34.2.1 67420 c.37.1.1 67421 1muwA 386 1.23e+01 c.1.15.3 79495 1rwhA 757 1.25e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1ud0A 113 1.26e+01 unknown_sccs -450 1op1A 82 1.27e+01 a.13.1.1 -456 2sas 185 1.29e+01 2sas a.39.1.5 17258 1qc7A 101 1.34e+01 1qc7A a.118.14.1 18456 1kgnA 329 1.46e+01 a.25.1.2 68584 1i5gA 144 1.49e+01 1ewxA c.47.1.10 61784 1g73A 162 1.49e+01 1fewA a.7.4.1 16332 1cb0A 283 1.50e+01 1cb0A c.56.2.1 33790 1q8bA 105 1.51e+01 unknown_sccs -9958 1lfb 99 1.51e+01 1lfb a.4.1.1 15989 1ifqA 138 1.62e+01 1ifqA d.110.4.1 62350 1cqmA 101 1.63e+01 1ris d.58.14.1 39321 1cp3A 277 1.67e+01 1pauA c.17.1.1 30992 1s9rA 410 1.68e+01 unknown_sccs -10989 1l1zA 274 1.69e+01 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1fgyA 127 1.70e+01 1faoA b.55.1.1 26976 1jj2U 70 1.73e+01 1ffkS a.2.2.1 63106 1iynA 295 1.75e+01 a.93.1.1 -1244 1vk8A 106 1.77e+01 1uuqA 440 1.79e+01 c.1.8.3 -5321 1h10A 125 1.80e+01 b.55.1.1 83446 1fc2C 58 1.85e+01 1fc2C a.8.1.1 16345 1nykA 165 1.87e+01 b.33.1.1 86408 1hfc 169 1.89e+01 1hfc d.92.1.11 40335 1lay 256 1.89e+01 1lay b.57.1.1 27014 1dcoA 104 1.90e+01 1dcpA d.74.1.1 39680 1ha2A 585 1.93e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1r2fA 319 1.95e+01 1r2fA a.25.1.2 16800 1cleA 534 1.97e+01 1thg c.69.1.17 34771 1o0pA 104 1.98e+01 d.58.7.1 86535 1lxyA 409 2.00e+01 unknown_sccs -10987 1qrrA 394 2.00e+01 1qrrA c.2.1.2 29824 1qcrC 378 2.01e+01 1be3C f.32.1.1 75931 f.21.1.2 75932 1llfA 534 2.09e+01 c.69.1.17 78094 1htjF 210 2.10e+01 1htjF a.91.1.1 61254 1wpoB 256 2.18e+01 1lay b.57.1.1 27013 1d2eA 397 2.18e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1orjA 130 2.19e+01 unknown_sccs -611 1nu7D 282 2.23e+01 unknown_sccs -433 unknown_sccs -434 1fl1A 230 2.25e+01 1at3A b.57.1.1 27023 1m55A 197 2.35e+01 d.89.1.3 74469 1f83A 425 2.35e+01 1f82A d.92.1.7 40306 1nmeA 146 2.39e+01 c.17.1.1 85874 1i4nA 251 2.43e+01 c.1.2.4 71114 1mjnA 179 2.44e+01 c.62.1.1 79210 1m5yA 408 2.45e+01 a.167.1.1 78664 d.26.1.1 78665 d.26.1.1 78666 1r1bA 59 2.45e+01 1r1bA a.16.1.3 16396 1azo 232 2.46e+01 1azo c.52.1.14 33329 1kbqA 273 2.51e+01 c.23.5.3 68391 1or3A 165 2.52e+01 1nfn a.24.1.1 16522 1bpyA 335 2.53e+01 1bpyA a.60.6.1 17980 a.60.12.1 75819 d.218.1.2 75820 1dd5A 185 2.54e+01 1dd5A d.67.3.1 39564 1jh6A 189 2.57e+01 d.61.1.1 66707 1cdzA 96 2.57e+01 1cdzA c.15.1.1 30925 2chsA 127 2.58e+01 2chsA d.79.1.2 39764 1pyoA 167 2.59e+01 c.17.1.1 -7932 1o12A 376 2.61e+01 b.92.1.5 80758 c.1.9.10 80759 1i9zA 347 2.62e+01 1i9yA d.151.1.2 62102 1jsmB 176 2.64e+01 h.3.1.1 63265 1io2A 213 2.69e+01 1ekeA c.55.3.1 62612 2cas 548 2.74e+01 2cas b.121.5.2 23376 1jvnA 555 2.83e+01 c.1.2.1 67355 c.23.16.1 67356 1ee8A 266 2.83e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1dcpA 104 2.84e+01 1dcpA d.74.1.1 39672 1msk 331 2.89e+01 1msk d.173.1.1 42495 1umdA 367 2.89e+01 c.36.1.11 -6969 1i24A 404 2.91e+01 c.2.1.2 83663 1kvdB 77 2.99e+01 1kveB 1qpmA 69 3.08e+01 1qpmA a.6.1.7 16230 1f82A 424 3.11e+01 1f82A d.92.1.7 40307 1fsiA 189 3.11e+01 1fsiA d.61.1.1 39536 1hb6A 86 3.13e+01 a.11.1.1 70959 1mzhA 225 3.16e+01 c.1.10.1 79698 1a9nA 176 3.19e+01 1a9nA c.10.2.4 30875 1eia 207 3.19e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1crl 534 3.19e+01 1thg c.69.1.17 34765 6pfkA 319 3.21e+01 3pfk c.89.1.1 35583 1ezvA 430 3.26e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 1f0jA 377 3.35e+01 1f0jA a.125.1.1 19346 1kt8A 365 3.35e+01 e.17.1.1 77531 1nx8A 273 3.37e+01 b.82.2.8 86374 1dbfA 127 3.37e+01 2chsA d.79.1.2 39761 2abd 86 3.45e+01 1aca a.11.1.1 16366 4dpvZ 584 3.46e+01 2cas b.121.5.2 23377 1iq3A 110 3.49e+01 1iq3A a.39.1.6 62640 1i9yA 347 3.53e+01 1i9yA d.151.1.2 62101 1jmxA 494 3.54e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1bz4A 144 3.55e+01 1nfn a.24.1.1 16521 1hzfA 367 3.59e+01 a.102.4.4 76731 1aocA 175 3.63e+01 1aocA g.17.1.5 44817 1dmtA 696 3.64e+01 1dmtA d.92.1.4 40296 1t3uA 104 3.65e+01 unknown_sccs -9325 1jr5A 90 3.68e+01 a.150.1.1 67113 1c8gA 548 3.75e+01 2cas b.121.5.2 23380 1l2iA 261 3.79e+01 a.123.1.1 73503 1ghhA 81 3.86e+01 1ghhA d.57.1.1 38940 1pjjA 271 3.87e+01 1s0yB 71 3.91e+01 d.80.1.1 -10442 1auwA 468 3.92e+01 1auwA a.127.1.1 19416 1nfn 191 3.97e+01 1nfn a.24.1.1 16523