# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1zq1A 438 4.15e-02 1zkdA 387 1.61e-01 1dhn 121 1.63e-01 1dhn d.96.1.3 40663 1y14B 171 2.72e-01 1v54B 227 5.57e-01 b.6.1.2,f.17.2.1 100322,100323 2h6lA 146 7.55e-01 1c9oA 66 9.70e-01 1mjc b.40.4.5 25325 1ofdA 1520 1.15e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1usuA 260 1.23e+00 d.14.1.8 99885 1u0mA 382 1.47e+00 c.95.1.2,c.95.1.2 107557,107558 1xffA 240 1.56e+00 d.153.1.1 109580 1gdoA 240 1.79e+00 1gdoA 1tc1A 220 1.91e+00 1tc1A c.61.1.1 34083 1hl9A 449 2.00e+00 b.71.1.3,c.1.8.11 90650,90651 1wjnA 97 2.01e+00 1kqqA 139 2.03e+00 a.4.3.1 72885 2bs3A 656 2.08e+00 1qlaA 656 2.13e+00 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 2basA 431 2.23e+00 2fb7A 95 2.29e+00 1kwiA 101 2.46e+00 d.17.1.3 77564 2cqsA 842 3.04e+00 1pbe 394 3.32e+00 1pbe c.3.1.2,d.16.1.2 30338,37869 1bia 321 3.36e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2d9rA 104 3.46e+00 1wqaA 455 3.47e+00 2aj6A 159 3.47e+00 1ykjA 394 4.30e+00 1k0iA 394 4.33e+00 c.3.1.2,d.16.1.2 67942,67943 1fr3A 67 4.42e+00 1fr3A b.40.6.1 25436 2cwpA 112 4.66e+00 1z7gA 217 4.98e+00 1qzgA 187 5.24e+00 b.40.4.3 96643 1a62 130 5.32e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 8abp 306 5.38e+00 8abp c.93.1.1 35647 2fwkA 121 5.39e+00 5abp 306 5.55e+00 8abp c.93.1.1 35651 1h2kA 349 5.62e+00 b.82.2.6 76572 1xxqA 161 5.62e+00 1jmxA 494 6.52e+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 1zd7A 159 6.61e+00 1qd6C 240 6.62e+00 1qd5A 1ugxA 133 6.91e+00 4ubpC 570 7.27e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1eajA 126 7.70e+00 1f5wA b.1.1.1 59401 1m26A 133 7.75e+00 1qd5A 275 8.00e+00 1qd5A f.4.2.1 43748 1l6pA 125 8.16e+00 b.1.17.1 73626 2gefA 217 8.28e+00 1vrbA 342 8.78e+00 1yavA 159 8.82e+00 1zybA 232 9.23e+00 1vj0A 380 9.39e+00 b.35.1.2,c.2.1.1 100786,100787 1i0lA 221 9.62e+00 c.61.1.1 71096 1ihjA 98 9.87e+00 1pdr b.36.1.1 62382 1yezA 68 1.01e+01 2gu2A 312 1.03e+01 1khoA 370 1.08e+01 a.124.1.1,b.12.1.3 72489,72490 1d3bB 91 1.18e+01 1d3bB b.38.1.1 24804 1g0hA 252 1.25e+01 1dk4A e.7.1.1 60171 2a5zA 262 1.31e+01 2gzvA 114 1.38e+01 1abrB 267 1.40e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1g2iA 166 1.41e+01 1g2iA c.23.16.2 31438 1cbf 285 1.44e+01 1cbf c.90.1.1 35587 1a8vA 121 1.49e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1ts9A 102 1.51e+01 1reoA 486 1.56e+01 c.3.1.2,d.16.1.5 97325,97326 1ci3M 249 1.57e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1wsrA 375 1.63e+01 1nf3A 195 1.74e+01 c.37.1.8 85594 1ukmB 128 1.97e+01 d.169.1.1 99500 2fcfA 103 2.00e+01 1fthA 122 2.03e+01 d.150.1.2 60028 1iz5A 249 2.03e+01 d.131.1.2,d.131.1.2 83834,83835 1uwzA 136 2.13e+01 c.97.1.1 108081 1l2mA 118 2.14e+01 d.89.1.4 77657 1jtkA 136 2.15e+01 c.97.1.1 71862 1iz0A 302 2.20e+01 b.35.1.2,c.2.1.1 83821,83822 1h8gA 95 2.21e+01 b.109.1.1 65735 1ha3A 405 2.25e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1o6lA 337 2.31e+01 d.144.1.7 81092 1yzsA 121 2.32e+01 1rkd 309 2.33e+01 1rkd c.72.1.1 34928 1exmA 405 2.41e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1qqcA 773 2.43e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1r94A 118 2.45e+01 b.124.1.1 97251 2c78A 405 2.48e+01 1v7pB 128 2.50e+01 d.169.1.1 108407 1uspA 139 2.51e+01 d.227.1.1 99879 1am2 199 2.55e+01 1am2 b.86.1.2 28381 1p97A 114 2.57e+01 d.110.3.7 94382 1vc3B 97 2.62e+01 1kzlA 208 2.66e+01 b.43.4.3,b.43.4.3 77635,77636 1jmuB 666 2.70e+01 1z1yA 186 2.81e+01 1x74A 360 2.85e+01 1qwrA 319 2.95e+01 b.82.1.3 96491 1mgqA 83 2.95e+01 b.38.1.1 79099 1jjiA 311 2.96e+01 c.69.1.2 66766 1p4kA 295 2.99e+01 d.153.1.5 87772 9gafA 295 2.99e+01 1apyA d.153.1.5 42008 1j5wA 298 3.01e+01 d.104.1.1 71589 1vl6A 388 3.03e+01 c.2.1.7,c.58.1.3 108724,108725 1wzoA 246 3.21e+01 1hk9A 74 3.30e+01 b.38.1.2 83541 2ew0A 192 3.30e+01 2fdiA 211 3.36e+01 1pmy 123 3.42e+01 1bqk b.6.1.1 22888 2cu3A 64 3.46e+01 1eg9B 194 3.48e+01 1ndoB d.17.4.4 38120 1yfuA 174 3.49e+01 1zx8A 136 3.49e+01 1y6zA 263 3.56e+01 1q7lA 198 3.57e+01 c.56.5.4 96044 2h7bA 105 3.64e+01 1dl2A 511 3.68e+01 1dl2A a.102.2.1 18844 1gyzA 60 3.70e+01 a.144.2.1 70793 1l3iA 192 4.03e+01 c.66.1.22 77676 1m1hA 248 4.14e+01 b.114.1.1,d.58.42.1 78415,78416 1i6xA 209 4.26e+01 a.4.5.4,b.82.3.2 83673,83674 1i6pA 220 4.33e+01 1ddzA c.53.2.1 61848 1h10A 125 4.43e+01 b.55.1.1 83446 1unqA 125 4.43e+01 b.55.1.1 107968 1jnuA 104 4.45e+01 d.110.3.6 71762 1ht6A 405 4.56e+01 b.71.1.1,c.1.8.1 83629,83630 1a8p 258 4.57e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1xwiA 322 4.63e+01 1vjrA 271 4.68e+01 c.108.1.14 100832 1fsgA 233 4.74e+01 1qk3A c.61.1.1 34029 2asfA 137 4.76e+01 1sefA 274 4.77e+01 b.82.1.11 105452 1thqA 170 4.78e+01 f.4.1.2 106920 1mzyA 333 4.89e+01 b.6.1.3,b.6.1.3 103848,103849 1f56A 91 4.98e+01 2cbp b.6.1.1 22896 1avaA 403 5.00e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1op4A 159 5.02e+01 b.1.6.1 93397 1e3dB 542 5.08e+01 1h2rL e.18.1.1 59189 1vr9A 213 5.13e+01 1jtaA 361 5.13e+01 b.80.1.1 71859 1nriA 306 5.19e+01 c.80.1.3 86123 1auyA 189 5.22e+01 1auyA b.121.4.6 23311 1apyB 141 5.26e+01 1apyB 1amy 403 5.33e+01 1jdc b.71.1.1,c.1.8.1 27799,28786 1v8gA 329 5.48e+01 a.46.2.1,c.27.1.1 100505,100506 1dm0A 287 5.61e+01 1dm0A d.165.1.2 42227 2et1A 201 5.66e+01 1vr3A 191 5.70e+01 1ejbA 168 5.74e+01 1rvv1 c.16.1.1 59417 1avaC 181 5.87e+01 1avaC b.42.4.1 25604 1xy7A 166 5.93e+01 1kapP 479 5.97e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1odmA 331 6.06e+01 b.82.2.1 86875 1xjvA 294 6.07e+01 1k28A 584 6.14e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1l5aA 436 6.24e+01 c.43.1.2,c.43.1.2 75923,75924 1qj2B 809 6.30e+01 1qj2B 2h3lA 103 6.33e+01 2cxaA 256 6.45e+01 1k8kA 418 6.52e+01 c.55.1.1,c.55.1.1 68305,68306 1xw4X 110 6.54e+01 1xw3A 110 6.54e+01 1e4cP 215 6.61e+01 2fua c.74.1.1 34969 1dbhA 354 6.75e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1ea7A 310 6.76e+01 c.41.1.1 70086 1kk1A 410 6.77e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1t9mA 214 6.77e+01 1kq1A 77 6.83e+01 b.38.1.2 72848 1e0gA 48 6.85e+01 1e01A d.7.1.1 37325 1u1tA 82 6.94e+01 1fecA 490 6.97e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 2gwnA 452 6.99e+01 1plq 258 6.99e+01 1plq d.131.1.2,d.131.1.2 41388,41389 2aa4A 289 7.04e+01 1gutA 68 7.06e+01 b.40.6.1 65576 1cy9A 264 7.08e+01 1ecl e.10.1.1 43236 1db3A 372 7.16e+01 1db3A c.2.1.2 29813 1ml8A 134 7.20e+01 d.227.1.2 85013 1s4iA 175 7.23e+01 1pe9A 361 7.28e+01 b.80.1.1 94595 1mjc 69 7.30e+01 1mjc b.40.4.5 25319 1dzkA 157 7.36e+01 1obpA b.60.1.1 27096 1vz6A 393 7.56e+01 d.154.1.2 108949 2bolA 314 7.58e+01 1kskA 234 7.61e+01 d.66.1.5,d.265.1.3 72920,90389 1kv7A 488 7.61e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1euvB 86 7.68e+01 1a5r d.15.1.1 37598 1v9nA 360 7.75e+01 1yloA 348 7.78e+01 1o7nB 194 7.78e+01 d.17.4.4 81164 1zesA 125 7.79e+01 1q6hA 224 7.80e+01 d.26.1.1 95975 1bk0 331 7.85e+01 1bk0 b.82.2.1 28118 1faoA 126 7.90e+01 1faoA b.55.1.1 26974 1t3oA 95 7.97e+01 1uvjA 664 7.98e+01 e.8.1.6 100045 1u1sA 82 7.98e+01 1xtmA 175 8.03e+01 2gs5A 198 8.04e+01 1js8A 394 8.04e+01 a.86.1.1,b.112.1.1 67219,67220 1xtlA 175 8.07e+01 2f2lX 167 8.09e+01 1nykA 165 8.24e+01 b.33.1.1 86408 2fikA 287 8.26e+01 1vjkA 98 8.27e+01 d.15.3.1 108631 1nz0A 118 8.49e+01 d.14.1.2 86433 1e94F 449 8.50e+01 1do0A c.37.1.20 32443 1ibyA 112 8.51e+01 1ibzA b.6.1.4 62233 1cl1A 395 8.52e+01 1cl2A c.67.1.3 34395 1rkiA 102 8.63e+01 1f60A 458 8.65e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1dleA 298 8.68e+01 1dleA b.47.1.2 26312 1i7kA 179 8.68e+01 1u9aA d.20.1.1 61889 2arcA 164 8.69e+01 2arcA b.82.4.1 28148 1l0wA 580 8.85e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428