# List of top-scoring protein chains for t06-100-30-o_notor2-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 1dhn 121 1.14e-01 1dhn d.96.1.3 40663 1y14B 171 2.63e-01 1khoA 370 3.95e-01 a.124.1.1,b.12.1.3 72489,72490 1a62 130 4.03e-01 1a62 a.140.3.1,b.40.4.5 64708,64709 2c78A 405 5.18e-01 2h6lA 146 6.48e-01 1c9oA 66 7.27e-01 1mjc b.40.4.5 25325 1u4nA 310 8.95e-01 1s5aA 150 1.13e+00 d.17.4.10 98525 2d9rA 104 1.24e+00 1ig0A 319 1.40e+00 1ig0A b.82.6.1,c.100.1.1 62354,62355 1fr3A 67 1.92e+00 1fr3A b.40.6.1 25436 2fcfA 103 2.01e+00 1ts9A 102 2.37e+00 2a5zA 262 2.89e+00 1xzpB 150 2.92e+00 1zghA 260 2.95e+00 2f4nA 273 3.06e+00 1l6pA 125 3.40e+00 b.1.17.1 73626 1ofdA 1520 3.47e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1ugxA 133 3.52e+00 1vkkA 154 3.69e+00 d.109.1.2 108669 1h2kA 349 3.75e+00 b.82.2.6 76572 2basA 431 4.15e+00 1kngA 156 4.26e+00 c.47.1.10 72777 1kqqA 139 4.27e+00 a.4.3.1 72885 2cqsA 842 4.87e+00 1i6pA 220 4.95e+00 1ddzA c.53.2.1 61848 1wqaA 455 4.99e+00 1jmxA 494 5.37e+00 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 1vphA 149 5.65e+00 1vjnA 220 5.89e+00 d.157.1.4 100825 1s4cA 155 6.03e+00 1unqA 125 6.16e+00 b.55.1.1 107968 1vrbA 342 6.48e+00 1ihjA 98 6.53e+00 1pdr b.36.1.1 62382 1zd7A 159 6.96e+00 1ca1 370 7.37e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 2fb7A 95 7.37e+00 2fdiA 211 7.45e+00 2fwkA 121 7.59e+00 1qzgA 187 7.71e+00 b.40.4.3 96643 1krhA 338 7.75e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2aj6A 159 8.13e+00 1mfgA 95 8.59e+00 b.36.1.1 79043 1llfA 534 8.60e+00 c.69.1.17 78094 1x74A 360 8.65e+00 1v54B 227 8.68e+00 b.6.1.2,f.17.2.1 100322,100323 1mgqA 83 8.79e+00 b.38.1.1 79099 1d3bB 91 8.93e+00 1d3bB b.38.1.1 24804 1fdr 248 9.07e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 4ubpC 570 9.32e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 2h3lA 103 9.64e+00 1yloA 348 9.70e+00 1dl2A 511 1.03e+01 1dl2A a.102.2.1 18844 1kv7A 488 1.05e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1avaC 181 1.09e+01 1avaC b.42.4.1 25604 1ux6A 350 1.17e+01 b.29.1.16,g.75.1.1 100145,100146 1lba 146 1.20e+01 1lba d.118.1.1 41062 2cwpA 112 1.23e+01 1qx4A 274 1.25e+01 b.43.4.2,c.25.1.1 104624,104625 1uq5A 263 1.26e+01 d.165.1.1 99778 2gzvA 114 1.30e+01 2g9zA 348 1.30e+01 1v5iB 76 1.32e+01 2ci9A 102 1.35e+01 1sefA 274 1.35e+01 b.82.1.11 105452 1gutA 68 1.35e+01 b.40.6.1 65576 1b77A 228 1.40e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1vmfA 145 1.40e+01 1yavA 159 1.42e+01 2bs3A 656 1.49e+01 1o0xA 262 1.52e+01 d.127.1.1 80755 1xxqA 161 1.62e+01 1pl8A 356 1.64e+01 b.35.1.2,c.2.1.1 94878,94879 1tuhA 156 1.66e+01 d.17.4.11 107345 1l2mA 118 1.69e+01 d.89.1.4 77657 2cxaA 256 1.71e+01 1m5q1 130 1.72e+01 1zg2A 107 1.73e+01 1cbf 285 1.74e+01 1cbf c.90.1.1 35587 1v9kA 228 1.79e+01 d.265.1.3 108449 1x1oA 286 1.81e+01 1v7pB 128 1.83e+01 d.169.1.1 108407 1rkd 309 1.83e+01 1rkd c.72.1.1 34928 1yfuA 174 1.84e+01 1r4pB 70 1.84e+01 b.40.2.1 97026 1iz5A 249 1.85e+01 d.131.1.2,d.131.1.2 83834,83835 2f2lX 167 1.86e+01 2b1xA 470 1.88e+01 1efdN 266 1.92e+01 1efdN c.92.2.1 35597 1qd6C 240 1.99e+01 1qd5A 2bibA 547 1.99e+01 1bia 321 2.00e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1l5wA 796 2.01e+01 c.87.1.4 73605 1ns5A 155 2.05e+01 c.116.1.3 80705 1wzoA 246 2.05e+01 1sacA 204 2.06e+01 1sacA b.29.1.5 24237 1vj0A 380 2.07e+01 b.35.1.2,c.2.1.1 100786,100787 1xneA 113 2.07e+01 1eq9A 222 2.13e+01 5ptp b.47.1.2 26068 1iktA 120 2.16e+01 d.106.1.1 66188 1bjt 793 2.18e+01 1bjt e.11.1.1 43249 1s4iA 175 2.21e+01 1rgyA 360 2.21e+01 e.3.1.1 97456 1ms9A 648 2.22e+01 b.29.1.15,b.68.1.1 85088,85089 2bjkA 516 2.23e+01 1sk4A 163 2.25e+01 d.118.1.1 105664 1n1tA 641 2.31e+01 b.29.1.15,b.68.1.1 79821,79822 1h5uA 842 2.31e+01 1a8i c.87.1.4 60655 1hw5A 210 2.32e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1dbhA 354 2.34e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1dleA 298 2.36e+01 1dleA b.47.1.2 26312 1odfA 290 2.37e+01 c.37.1.6 92782 1sxrA 183 2.39e+01 d.118.1.1 106101 1lk5A 229 2.42e+01 c.124.1.4,d.58.40.1 73960,73961 1z1yA 186 2.43e+01 2ew0A 192 2.48e+01 1uwzA 136 2.51e+01 c.97.1.1 108081 1uzbA 516 2.54e+01 c.82.1.1 100220 1yb3A 175 2.60e+01 1vmeA 410 2.60e+01 c.23.5.1,d.157.1.3 108893,108894 1dmhA 311 2.64e+01 1dmhA b.3.6.1 22633 2czqA 205 2.67e+01 1p4kA 295 2.69e+01 d.153.1.5 87772 1i27A 73 2.71e+01 1i27A a.4.5.30 61555 1a7tA 232 2.77e+01 1a7tA d.157.1.1 42041 1am2 199 2.78e+01 1am2 b.86.1.2 28381 1qxoA 388 2.79e+01 d.258.1.1 96539 1f3uB 171 2.83e+01 1f3uB b.65.1.1 27525 1oa4A 222 2.87e+01 b.29.1.11 86731 1wraA 308 3.07e+01 1dqaA 467 3.08e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 2ajtA 500 3.11e+01 1gefA 123 3.14e+01 1gefA c.52.1.18 60465 1qftA 175 3.15e+01 1qftA b.60.1.1 27151 4tmkA 213 3.15e+01 5tmpA c.37.1.1 31930 1o5uA 101 3.22e+01 b.82.1.8 92518 1j1lA 290 3.22e+01 b.82.1.12 90766 1xtqA 177 3.23e+01 1ecsA 126 3.23e+01 1ecsA d.32.1.2 59407 1whi 122 3.23e+01 1whi b.39.1.1 24810 1ss4A 153 3.24e+01 d.32.1.6 105976 1e3dB 542 3.25e+01 1h2rL e.18.1.1 59189 1l5aA 436 3.33e+01 c.43.1.2,c.43.1.2 75923,75924 1g291 372 3.36e+01 1g291 2cu3A 64 3.37e+01 1gx1A 160 3.43e+01 d.79.5.1 70675 1z5yE 149 3.44e+01 1vk4A 298 3.45e+01 c.72.1.1 100850 1xw3A 110 3.46e+01 1rc6A 261 3.49e+01 b.82.1.11 97287 2h7bA 105 3.49e+01 1u0mA 382 3.49e+01 c.95.1.2,c.95.1.2 107557,107558 1h9mA 145 3.52e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1m1hA 248 3.53e+01 b.114.1.1,d.58.42.1 78415,78416 1q7hA 153 3.54e+01 b.122.1.1,d.17.6.2 96042,96043 1c30B 382 3.56e+01 c.8.3.1,c.23.16.1 30736,31413 2cjaA 522 3.61e+01 1zjjA 263 3.61e+01 1ibyA 112 3.65e+01 1ibzA b.6.1.4 62233 1u7bA 261 3.67e+01 1iirA 415 3.72e+01 1iirA c.87.1.5 62453 1nz6A 101 3.73e+01 a.2.3.1 86441 1j5wA 298 3.75e+01 d.104.1.1 71589 1u04A 771 3.75e+01 b.34.14.1,c.55.3.10 107539,107540 1va6A 518 3.76e+01 1fi2A 201 3.77e+01 1fi2A b.82.1.2 59845 1mqoA 227 3.80e+01 d.157.1.1 103846 2bbhA 269 3.89e+01 1z85A 234 3.90e+01 1wsrA 375 3.92e+01 1k0iA 394 3.92e+01 c.3.1.2,d.16.1.2 67942,67943 1nnwA 252 3.97e+01 d.159.1.5 80674 2gwnA 452 3.97e+01 1q6hA 224 3.99e+01 d.26.1.1 95975 1o98A 511 4.01e+01 c.105.1.1,c.76.1.3 86684,86685 1g6sA 427 4.01e+01 1eps d.68.2.2 39584 1nr4A 71 4.03e+01 d.9.1.1 92077 1xm8A 254 4.05e+01 1dgwA 178 4.05e+01 1dgwA b.82.1.2 28090 1i0lA 221 4.08e+01 c.61.1.1 71096 1g0oA 283 4.10e+01 1ybvA c.2.1.2 60181 2frnA 278 4.14e+01 2bszA 278 4.16e+01 1q6uA 245 4.18e+01 d.26.1.1 95998 1xtmA 175 4.25e+01 1nz0A 118 4.26e+01 d.14.1.2 86433 1ym0A 238 4.29e+01 2f6eA 127 4.35e+01 1z4eA 153 4.36e+01 2gn4A 344 4.42e+01 1t6aA 126 4.43e+01 d.129.8.1 106555 8abp 306 4.45e+01 8abp c.93.1.1 35647 1j6wA 175 4.47e+01 1j98A d.185.1.2 62663 2bjfA 329 4.49e+01 2fhfA 1083 4.53e+01 1zkoA 136 4.53e+01 1ctt 294 4.53e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1ois 223 4.62e+01 1a36A e.15.1.1 43267 1ro5A 201 4.62e+01 d.108.1.3 105023 1zjcA 418 4.62e+01 1kqwA 134 4.64e+01 b.60.1.2 72887 2a2fX 325 4.66e+01 1wi5A 119 4.68e+01 1djrD 103 4.68e+01 3chbD b.40.2.1 24865 1b8aA 438 4.69e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1rwiA 270 4.74e+01 b.68.9.1 97987 1nykA 165 4.80e+01 b.33.1.1 86408 2f5yA 91 4.88e+01 1dl5A 317 4.88e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1o7nB 194 4.90e+01 d.17.4.4 81164 1yz1A 174 4.92e+01 1rl6A 177 4.93e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 1te0A 318 4.95e+01 2et1A 201 4.98e+01 1jmtB 28 5.02e+01 2czrA 226 5.04e+01 2hciA 69 5.07e+01 1y1oA 203 5.13e+01 1eceA 358 5.14e+01 1eceA c.1.8.3 28813 1rdqE 350 5.16e+01 d.144.1.7 97314 1jihA 531 5.18e+01 d.240.1.1,e.8.1.7 90374,90375 2h0uA 217 5.22e+01 1ni9A 338 5.27e+01 e.7.1.2 85739 1pjxA 314 5.28e+01 b.68.6.1 104167 1x47A 98 5.28e+01 2g76A 335 5.28e+01 1brwA 433 5.29e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2arcA 164 5.34e+01 2arcA b.82.4.1 28148 1ou8A 111 5.36e+01 b.136.1.1 93543 2bw8A 227 5.37e+01 2ggcA 263 5.37e+01 1olmA 403 5.38e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1vr9A 213 5.39e+01 1zx5A 300 5.47e+01 1o6lA 337 5.47e+01 d.144.1.7 81092 2cbiA 594 5.48e+01 2cvjA 180 5.49e+01 1wnyA 186 5.54e+01 1zybA 232 5.56e+01 1zupA 315 5.57e+01 1lf6A 684 5.59e+01 a.102.1.5,b.30.5.5 77918,77919 2fy6A 143 5.59e+01 1ve0A 134 5.59e+01 1yvcA 70 5.60e+01 1dzaA 129 5.65e+01 7rsa d.5.1.1 37275 1ykjA 394 5.66e+01 1vizA 240 5.67e+01 c.1.4.1 100784 1xffA 240 5.68e+01 d.153.1.1 109580 1p5dX 463 5.69e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1w0uA 55 5.69e+01 1xebA 150 5.70e+01 1zpvA 91 5.77e+01 2bgiA 272 5.79e+01 2fikA 287 5.82e+01 1xk5A 204 5.90e+01 2gu2A 312 5.93e+01 1f5mA 180 5.93e+01 1f5mB d.110.2.1 40895 2b6nA 278 5.94e+01 2ciaA 102 5.99e+01 2cs7A 55 6.04e+01 2f9nA 245 6.10e+01 1tq5A 242 6.21e+01 2gimA 106 6.23e+01 2gf9A 189 6.28e+01 2g6fX 59 6.32e+01 1d7qA 143 6.34e+01 1d7qA b.40.4.5 25331 1m8aA 70 6.40e+01 d.9.1.1 74579 1fjgL 135 6.48e+01 1fjfL b.40.4.5 25346 1umkA 275 6.52e+01 1xklA 273 6.53e+01 1udzA 182 6.53e+01 b.51.1.1 99239 2f1kA 279 6.58e+01 1xubA 298 6.60e+01 2bokA 241 6.80e+01 1hq1A 105 6.81e+01 1dulA a.36.1.1 17120 1pz4A 116 6.86e+01 d.106.1.1 95400 2fp4B 395 6.87e+01 2g2uB 165 6.89e+01 1xe0A 114 6.91e+01 1ixh 321 6.97e+01 1ixh c.94.1.1 35761 1c0pA 363 7.02e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1kk1A 410 7.02e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1fthA 122 7.04e+01 d.150.1.2 60028 1m6kA 251 7.04e+01 e.3.1.1 78695 1mxmA 254 7.08e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1cqqA 180 7.10e+01 1cqqA b.47.1.4 26422 2eveA 157 7.12e+01 1js8A 394 7.16e+01 a.86.1.1,b.112.1.1 67219,67220 1jv1A 505 7.17e+01 c.68.1.5 71892 1oyc 400 7.17e+01 1oyc c.1.4.1 28603 1a9xB 379 7.17e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1t6lA 290 7.21e+01 d.131.1.2,d.131.1.2 106574,106575 1g6uA 48 7.28e+01 1g6uA k.9.1.1 46425 1xnzA 264 7.30e+01 1cyx 205 7.37e+01 1cyx b.6.1.2 23023 2ffyA 358 7.37e+01 1vkwA 218 7.45e+01 d.90.1.2 108695 1kq1A 77 7.48e+01 b.38.1.2 72848 1y88A 199 7.50e+01 1k8qA 377 7.53e+01 c.69.1.6 72177 2c2xA 281 7.59e+01 2fvtA 135 7.65e+01 1zkdA 387 7.72e+01 1gen 218 7.74e+01 1gen b.66.1.1 27536 1yhtA 367 7.76e+01 1yn9A 169 7.77e+01 1ntvA 152 7.79e+01 b.55.1.2 86168 1zkjA 359 7.82e+01 1q4rA 112 7.84e+01 d.58.4.4 95823 2fqxA 318 7.86e+01 1i36A 264 7.91e+01 a.100.1.8,c.2.1.6 71108,71109 1k8kA 418 7.94e+01 c.55.1.1,c.55.1.1 68305,68306 2cu5A 129 7.95e+01 2furA 209 8.04e+01 1m6iA 493 8.06e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2bjrA 368 8.07e+01 1oewA 329 8.11e+01 b.50.1.2 86924 1zczA 464 8.11e+01 1hl9A 449 8.13e+01 b.71.1.3,c.1.8.11 90650,90651 1qreA 247 8.21e+01 1qreA b.81.1.5 28066 1jg1A 235 8.26e+01 c.66.1.7 66661 1zx8A 136 8.26e+01 1pk6A 133 8.26e+01 b.22.1.1 94801 1txnA 328 8.26e+01 2fn0A 437 8.27e+01 1v9nA 360 8.29e+01 1g5bA 221 8.35e+01 1g5bA d.159.1.3 60261 1wbhA 214 8.36e+01 1neyA 247 8.42e+01 c.1.1.1 80449 1gbg 214 8.46e+01 1axkA b.29.1.2 24171 1g2rA 100 8.64e+01 1g2rA d.192.1.1 60231 1g6xA 58 8.65e+01 1bpi g.8.1.1 60320 1h70A 255 8.71e+01 1h70A d.126.1.3 60711 1fl0A 171 8.72e+01 1eujA b.40.4.4 25315 1q15A 503 8.80e+01 c.26.2.1,d.153.1.1 95538,95539 1tc1A 220 8.83e+01 1tc1A c.61.1.1 34083 1gtfA 74 8.89e+01 b.82.5.1 70460 1f2tA 149 8.89e+01 1f2tA c.37.1.12 32373 1vr3A 191 8.89e+01 1jfuA 186 8.90e+01 c.47.1.10 62940 1yphE 97 8.98e+01