# List of top-scoring protein chains for t06-100-30-bys-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 1y14B 171 1.44e-01 1ihjA 98 1.96e-01 1pdr b.36.1.1 62382 1dhn 121 2.89e-01 1dhn d.96.1.3 40663 2d9rA 104 4.72e-01 1kqqA 139 5.04e-01 a.4.3.1 72885 1w6uA 302 6.35e-01 1ts9A 102 6.87e-01 2c78A 405 7.52e-01 1jmxA 494 9.32e-01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 2basA 431 1.04e+00 2h6lA 146 1.08e+00 1wqaA 455 1.28e+00 1g0oA 283 1.41e+00 1ybvA c.2.1.2 60181 1a62 130 1.62e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1c9oA 66 1.66e+00 1mjc b.40.4.5 25325 1z0wA 207 1.72e+00 1l6pA 125 2.17e+00 b.1.17.1 73626 1qd6C 240 2.29e+00 1qd5A 1u04A 771 2.73e+00 b.34.14.1,c.55.3.10 107539,107540 1fr3A 67 2.80e+00 1fr3A b.40.6.1 25436 2f9nA 245 3.15e+00 2cqsA 842 3.18e+00 1bjt 793 3.26e+00 1bjt e.11.1.1 43249 1mfgA 95 3.37e+00 b.36.1.1 79043 1q7hA 153 3.43e+00 b.122.1.1,d.17.6.2 96042,96043 2f2lX 167 3.52e+00 1llfA 534 3.68e+00 c.69.1.17 78094 1lf6A 684 3.77e+00 a.102.1.5,b.30.5.5 77918,77919 1z1yA 186 4.11e+00 2gk9A 426 4.15e+00 1qx4A 274 4.37e+00 b.43.4.2,c.25.1.1 104624,104625 1s5aA 150 4.46e+00 d.17.4.10 98525 1ux6A 350 4.88e+00 b.29.1.16,g.75.1.1 100145,100146 1wdiA 345 5.21e+00 1o0xA 262 5.31e+00 d.127.1.1 80755 1p4kA 295 5.38e+00 d.153.1.5 87772 1bia 321 5.43e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1khoA 370 5.45e+00 a.124.1.1,b.12.1.3 72489,72490 2bszA 278 5.53e+00 1xneA 113 5.64e+00 2h3lA 103 5.70e+00 1em8B 112 5.74e+00 c.126.1.1 90458 2g9zA 348 6.12e+00 2fcfA 103 6.32e+00 1u1sA 82 6.87e+00 1yfuA 174 6.98e+00 1j5wA 298 7.18e+00 d.104.1.1 71589 1kq1A 77 7.27e+00 b.38.1.2 72848 1q6hA 224 7.34e+00 d.26.1.1 95975 1mgqA 83 7.44e+00 b.38.1.1 79099 8abp 306 7.60e+00 8abp c.93.1.1 35647 1ccwA 137 7.80e+00 1be1 c.23.6.1 31238 1u1tA 82 8.25e+00 1wzoA 246 8.29e+00 2ew2A 316 9.09e+00 1u0mA 382 9.11e+00 c.95.1.2,c.95.1.2 107557,107558 1a12A 413 9.18e+00 1a12A b.69.5.1 27663 1ug6A 431 9.50e+00 c.1.8.4 88490 1uwzA 136 1.02e+01 c.97.1.1 108081 1ejbA 168 1.10e+01 1rvv1 c.16.1.1 59417 1cbf 285 1.11e+01 1cbf c.90.1.1 35587 1v5iB 76 1.12e+01 1j1lA 290 1.17e+01 b.82.1.12 90766 1a7tA 232 1.24e+01 1a7tA d.157.1.1 42041 1rwiA 270 1.25e+01 b.68.9.1 97987 1rkd 309 1.30e+01 1rkd c.72.1.1 34928 1tzpA 255 1.33e+01 d.65.1.3 107520 1zx8A 136 1.36e+01 1ugxA 133 1.38e+01 1pl8A 356 1.41e+01 b.35.1.2,c.2.1.1 94878,94879 1h09A 338 1.44e+01 b.109.1.1,c.1.8.8 83420,83421 1am2 199 1.45e+01 1am2 b.86.1.2 28381 1xw3A 110 1.46e+01 1vpjA 192 1.46e+01 1iktA 120 1.46e+01 d.106.1.1 66188 1vj0A 380 1.46e+01 b.35.1.2,c.2.1.1 100786,100787 1q6uA 245 1.50e+01 d.26.1.1 95998 1xxqA 161 1.50e+01 1vjnA 220 1.52e+01 d.157.1.4 100825 1olmA 403 1.53e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1nykA 165 1.57e+01 b.33.1.1 86408 1kzlA 208 1.58e+01 b.43.4.3,b.43.4.3 77635,77636 1sxrA 183 1.60e+01 d.118.1.1 106101 1k3yA 221 1.61e+01 a.45.1.1,c.47.1.5 77245,77246 1i6pA 220 1.63e+01 1ddzA c.53.2.1 61848 1h2kA 349 1.66e+01 b.82.2.6 76572 1iirA 415 1.68e+01 1iirA c.87.1.5 62453 1y1oA 203 1.69e+01 1v1hA 103 1.69e+01 b.83.1.1,h.1.17.1 108243,108244 1pdkB 157 1.71e+01 1pdkB b.2.3.2 22427 1uekA 275 1.73e+01 d.14.1.5,d.58.26.5 88483,88484 1fl0A 171 1.78e+01 1eujA b.40.4.4 25315 1d3bB 91 1.78e+01 1d3bB b.38.1.1 24804 2abqA 306 1.80e+01 1g6sA 427 1.81e+01 1eps d.68.2.2 39584 1e3dB 542 1.81e+01 1h2rL e.18.1.1 59189 1umkA 275 1.82e+01 2cwpA 112 1.84e+01 1p5dX 463 1.89e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1w9pA 433 1.92e+01 1kwgA 645 1.99e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1z4eA 153 2.03e+01 1l3iA 192 2.05e+01 c.66.1.22 77676 1wcv1 257 2.10e+01 1yloA 348 2.24e+01 1eq9A 222 2.30e+01 5ptp b.47.1.2 26068 1c30B 382 2.30e+01 c.8.3.1,c.23.16.1 30736,31413 1chuA 540 2.30e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1xnzA 264 2.31e+01 5nul 138 2.32e+01 5nul c.23.5.1 31191 1sefA 274 2.32e+01 b.82.1.11 105452 2b5rC 165 2.33e+01 2arcA 164 2.37e+01 2arcA b.82.4.1 28148 1vr0A 247 2.37e+01 1fdr 248 2.41e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1zkdA 387 2.43e+01 2ew8A 249 2.48e+01 2bi7A 384 2.49e+01 1b8aA 438 2.50e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1yzsA 121 2.51e+01 1vr3A 191 2.54e+01 1gutA 68 2.55e+01 b.40.6.1 65576 1n0qA 93 2.64e+01 k.37.1.1 79754 2gwdA 449 2.67e+01 1dl5A 317 2.68e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1kqpA 271 2.71e+01 c.26.2.1 72883 1jl3A 139 2.75e+01 c.44.1.1 66826 1qw9A 502 2.80e+01 b.71.1.2,c.1.8.3 96466,96467 2f1kA 279 2.85e+01 1yavA 159 2.87e+01 2fwmX 250 2.90e+01 1v54B 227 2.92e+01 b.6.1.2,f.17.2.1 100322,100323 1el6A 219 2.94e+01 1el6B d.182.1.1 42606 1gefA 123 2.95e+01 1gefA c.52.1.18 60465 1vkwA 218 2.95e+01 d.90.1.2 108695 1dzaA 129 2.96e+01 7rsa d.5.1.1 37275 1nz6A 101 2.99e+01 a.2.3.1 86441 1zx0A 236 3.06e+01 1oqvA 192 3.07e+01 d.24.1.2 87320 1eljA 381 3.08e+01 4mbp c.94.1.1 35791 1jtgB 165 3.13e+01 d.98.1.1 67267 2eveA 157 3.15e+01 2fwkA 121 3.24e+01 1widA 130 3.26e+01 1ksiA 642 3.27e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 2ggcA 263 3.28e+01 2h7bA 105 3.29e+01 1l7dA 384 3.30e+01 c.2.1.4,c.23.12.2 77774,77775 2gwnA 452 3.32e+01 1edg 380 3.33e+01 1edg c.1.8.3 28807 1nscA 390 3.33e+01 2qwc b.68.1.1 27591 2gdjA 264 3.35e+01 1a9xB 379 3.42e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1fthA 122 3.48e+01 d.150.1.2 60028 1lba 146 3.49e+01 1lba d.118.1.1 41062 1zg2A 107 3.52e+01 1lk5A 229 3.57e+01 c.124.1.4,d.58.40.1 73960,73961 1vjkA 98 3.58e+01 d.15.3.1 108631 1g38A 393 3.59e+01 2admA c.66.1.27 60235 2g6fX 59 3.61e+01 1gvkB 240 3.63e+01 b.47.1.2 70610 1xm8A 254 3.66e+01 1xe0A 114 3.77e+01 1d0qA 103 3.87e+01 1d0qA g.41.3.2 45208 3ygsP 97 3.89e+01 3ygsP a.77.1.3 18435 3ezmA 101 3.90e+01 3ezmA b.89.1.1 28395 2bdeA 470 3.96e+01 1o98A 511 4.08e+01 c.105.1.1,c.76.1.3 86684,86685 2dekA 265 4.09e+01 1jmtB 28 4.12e+01 1vmfA 145 4.17e+01 2a5zA 262 4.18e+01 1cdy 178 4.20e+01 1cdy b.1.1.1,b.1.1.3 19719,21658 1ss4A 153 4.25e+01 d.32.1.6 105976 1o6lA 337 4.27e+01 d.144.1.7 81092 1nnwA 252 4.29e+01 d.159.1.5 80674 1wsrA 375 4.29e+01 1kutA 230 4.31e+01 d.143.1.1 73017 1uufA 369 4.34e+01 b.35.1.2,c.2.1.1 100006,100007 1yqdA 366 4.34e+01 2c2xA 281 4.34e+01 1jg1A 235 4.37e+01 c.66.1.7 66661 1kafA 108 4.42e+01 d.199.1.1 68372 1ufkA 254 4.44e+01 c.66.1.39 99340 1vggA 161 4.46e+01 2bdwA 362 4.48e+01 1m5q1 130 4.51e+01 1yn9A 169 4.55e+01 2ex4A 241 4.56e+01 1u4nA 310 4.58e+01 1vc3B 97 4.61e+01 1tkiA 321 4.62e+01 1tkiA d.144.1.7 41638 2cunA 410 4.62e+01 1sk4A 163 4.62e+01 d.118.1.1 105664 1f60A 458 4.62e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1dnlA 199 4.64e+01 1ci0A b.45.1.1 25753 2g2uB 165 4.69e+01 1vk1A 242 4.76e+01 d.268.1.2 108634 2ghjA 118 4.77e+01 1paz 123 4.79e+01 1bqk b.6.1.1 22878 1e0tA 470 4.82e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1cg2A 393 4.84e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 2bibA 547 4.85e+01 1tc1A 220 4.95e+01 1tc1A c.61.1.1 34083 2f20A 240 4.98e+01 2azeB 106 5.00e+01 1g6xA 58 5.02e+01 1bpi g.8.1.1 60320 1ef8A 261 5.11e+01 1ef8A c.14.1.3 30921 1q7eA 428 5.23e+01 c.123.1.1 96035 1tuhA 156 5.26e+01 d.17.4.11 107345 1z7gA 217 5.32e+01 1yphE 97 5.36e+01 1ve4A 206 5.49e+01 2bfxA 284 5.51e+01 1bcpF 99 5.56e+01 1prtF b.40.2.1 25142 1r5yA 386 5.63e+01 c.1.20.1 97134 2f4nA 273 5.67e+01 1rdqE 350 5.70e+01 d.144.1.7 97314 1dciA 275 5.83e+01 1dciA c.14.1.3 30918 1brwA 433 5.84e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1i0lA 221 5.89e+01 c.61.1.1 71096 1f3uB 171 5.89e+01 1f3uB b.65.1.1 27525 1wdyA 285 5.95e+01 1g79A 218 5.95e+01 1ci0A b.45.1.1 25752 1s98A 107 5.97e+01 b.124.1.1 105377 1y2qA 143 5.98e+01 1ecsA 126 5.98e+01 1ecsA d.32.1.2 59407 1efdN 266 6.01e+01 1efdN c.92.2.1 35597 3pviA 157 6.04e+01 3pviA c.52.1.6 33300 1f89A 291 6.05e+01 d.160.1.1 64988 1c7nA 399 6.06e+01 1d2fA c.67.1.3 34413 1k0hA 117 6.11e+01 b.106.1.2 71975 1ca1 370 6.15e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1vkyA 347 6.19e+01 e.53.1.1 108696 1m6kA 251 6.27e+01 e.3.1.1 78695 1sgvA 316 6.29e+01 b.122.1.1,d.265.1.2 98858,98859 1ou8A 111 6.30e+01 b.136.1.1 93543 1yz1A 174 6.33e+01 1ihoA 283 6.34e+01 1ihoA c.26.1.4 62390 1mxmA 254 6.38e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 2fjbA 643 6.40e+01 2czqA 205 6.43e+01 2bc4A 211 6.43e+01 1dt1A 129 6.44e+01 1c52 a.3.1.1 15811 1kdj 102 6.81e+01 1plc b.6.1.1 22864 1hw5A 210 6.92e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1vphA 149 7.00e+01 1vkkA 154 7.02e+01 d.109.1.2 108669 1sv6A 269 7.05e+01 d.177.1.1 106043 1u09A 476 7.06e+01 e.8.1.4 107545 1aapA 58 7.08e+01 1bpi g.8.1.1 44543 1jsmA 325 7.09e+01 b.19.1.2 63264 1jnrA 643 7.09e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1jihA 531 7.10e+01 d.240.1.1,e.8.1.7 90374,90375 1xjdA 345 7.16e+01 1ig3A 263 7.17e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1ww8A 439 7.19e+01 1pmy 123 7.26e+01 1bqk b.6.1.1 22888 1wfeA 86 7.26e+01 1fehA 574 7.28e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1kfwA 435 7.28e+01 c.1.8.5,d.26.3.1 77376,77377 2g0cA 76 7.31e+01 1zd7A 159 7.33e+01 1e7uA 961 7.34e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1doi 128 7.39e+01 1awd d.15.4.1 37676 1yckA 175 7.39e+01 1z02A 446 7.40e+01 1xahA 354 7.40e+01 1i27A 73 7.44e+01 1i27A a.4.5.30 61555 1wmmA 145 7.47e+01 2b6nA 278 7.56e+01 1chmA 401 7.65e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1wi5A 119 7.69e+01 1qwrA 319 7.81e+01 b.82.1.3 96491 1jmcA 246 7.81e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1rc6A 261 7.81e+01 b.82.1.11 97287 1cb0A 283 7.86e+01 1cb0A c.56.2.1 33790 1u3eM 174 7.88e+01 d.4.1.3,d.285.1.1 107640,107641 1s14A 194 7.95e+01 d.122.1.2 98329 1s68A 249 7.98e+01 d.142.2.4 98591 1iz5A 249 7.99e+01 d.131.1.2,d.131.1.2 83834,83835 1zbqA 327 8.02e+01 1rlhA 173 8.06e+01 d.256.1.1 97646 1zh1A 163 8.06e+01 1vhwA 253 8.07e+01 c.56.2.1 100706 1rwzA 245 8.18e+01 d.131.1.2,d.131.1.2 98005,98006 1k7iA 479 8.23e+01 b.80.7.1,d.92.1.6 77281,77282 1hlvA 131 8.26e+01 a.4.1.7,a.4.1.7 65854,65855 1cfr 285 8.27e+01 1cfr c.52.1.7 33312 2d1pC 95 8.30e+01 1mqoA 227 8.37e+01 d.157.1.1 103846 1zvtA 256 8.43e+01 1ivyA 452 8.55e+01 1ivyA c.69.1.5 34654 1i8aA 189 8.59e+01 1i82A b.1.9.2 61951 1qxoA 388 8.61e+01 d.258.1.1 96539 1ois 223 8.64e+01 1a36A e.15.1.1 43267 1njrA 284 8.65e+01 c.50.1.2 103858 1t2wA 145 8.67e+01 b.100.1.1 106289 1exg 110 8.81e+01 1exg b.2.2.1 22387 1wr2A 238 8.85e+01 1bqk 124 8.86e+01 1bqk b.6.1.1 22889 1uw4A 91 8.89e+01 d.58.7.4 100071 2fy6A 143 8.91e+01 1x13A 401 8.92e+01 1td4A 115 8.94e+01 1ig0A 319 8.96e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1f5mA 180 8.98e+01 1f5mB d.110.2.1 40895