# List of top-scoring protein chains for t04-100-30-str2-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 5.35e-02 1ofdA 1520 6.02e-02 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1zq1A 438 1.17e-01 1c9oA 66 3.87e-01 1mjc b.40.4.5 25325 2d9rA 104 5.27e-01 1fr3A 67 7.12e-01 1fr3A b.40.6.1 25436 1kk1A 410 7.70e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1zkdA 387 8.65e-01 2h6lA 146 8.79e-01 2fwkA 121 9.67e-01 1h2kA 349 1.01e+00 b.82.2.6 76572 1dhn 121 1.03e+00 1dhn d.96.1.3 40663 1yavA 159 1.06e+00 1bia 321 1.13e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2basA 431 1.24e+00 2fb7A 95 1.60e+00 2bs3A 656 1.96e+00 1qlaA 656 2.01e+00 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1l2mA 118 2.10e+00 d.89.1.4 77657 1yfuA 174 2.17e+00 2cwpA 112 2.17e+00 1yezA 68 2.20e+00 2aj6A 159 2.24e+00 1ts9A 102 2.51e+00 1a8vA 121 2.74e+00 1a62 a.140.3.1,b.40.4.5 64712,64713 1wjnA 97 2.81e+00 4ubpC 570 3.54e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1iz0A 302 3.65e+00 b.35.1.2,c.2.1.1 83821,83822 1kzlA 208 3.66e+00 b.43.4.3,b.43.4.3 77635,77636 1ykjA 394 3.82e+00 1ihjA 98 3.89e+00 1pdr b.36.1.1 62382 1j5wA 298 3.89e+00 d.104.1.1 71589 2gfaA 119 4.20e+00 1k0iA 394 4.70e+00 c.3.1.2,d.16.1.2 67942,67943 1cbf 285 4.74e+00 1cbf c.90.1.1 35587 1khoA 370 5.24e+00 a.124.1.1,b.12.1.3 72489,72490 2arcA 164 5.40e+00 2arcA b.82.4.1 28148 1f3aA 222 5.59e+00 1pgtA a.45.1.1,c.47.1.5 17701,32995 1hk9A 74 5.59e+00 b.38.1.2 83541 1p4kA 295 5.64e+00 d.153.1.5 87772 9gafA 295 5.70e+00 1apyA d.153.1.5 42008 1am2 199 6.03e+00 1am2 b.86.1.2 28381 2cxaA 256 6.34e+00 1a8p 258 6.44e+00 1fdr b.43.4.2,c.25.1.1 25654,31544 1k3yA 221 6.52e+00 a.45.1.1,c.47.1.5 77245,77246 2cu3A 64 6.84e+00 1iz5A 249 6.85e+00 d.131.1.2,d.131.1.2 83834,83835 1m26A 133 7.12e+00 1sefA 274 7.30e+00 b.82.1.11 105452 1qwrA 319 7.81e+00 b.82.1.3 96491 1a62 130 8.16e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1i6pA 220 8.20e+00 1ddzA c.53.2.1 61848 1g0hA 252 8.45e+00 1dk4A e.7.1.1 60171 1kqqA 139 8.88e+00 a.4.3.1 72885 1vj0A 380 8.92e+00 b.35.1.2,c.2.1.1 100786,100787 1fthA 122 9.11e+00 d.150.1.2 60028 1zybA 232 9.19e+00 1qd6C 240 9.19e+00 1qd5A 1ha3A 405 9.45e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1xxqA 161 9.83e+00 1wzoA 246 9.85e+00 1u0mA 382 1.03e+01 c.95.1.2,c.95.1.2 107557,107558 1mjc 69 1.05e+01 1mjc b.40.4.5 25319 1yphE 97 1.06e+01 2gu2A 312 1.08e+01 1gg6C 97 1.09e+01 5ptp 1vq2A 193 1.11e+01 1yloA 348 1.14e+01 1z85A 234 1.15e+01 1usuA 260 1.15e+01 d.14.1.8 99885 1fdr 248 1.16e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1db3A 372 1.25e+01 1db3A c.2.1.2 29813 1rkd 309 1.30e+01 1rkd c.72.1.1 34928 1sotA 320 1.32e+01 b.36.1.4,b.47.1.1 105852,105853 1b8aA 438 1.33e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1ht6A 405 1.36e+01 b.71.1.1,c.1.8.1 83629,83630 2a5zA 262 1.38e+01 1o91A 178 1.41e+01 b.22.1.1 92656 1jtkA 136 1.45e+01 c.97.1.1 71862 1uwzA 136 1.46e+01 c.97.1.1 108081 1qd5A 275 1.51e+01 1qd5A f.4.2.1 43748 1ugxA 133 1.54e+01 1xjvA 294 1.61e+01 1zd7A 159 1.64e+01 1i6xA 209 1.64e+01 a.4.5.4,b.82.3.2 83673,83674 1aszB 490 1.70e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1o5uA 101 1.77e+01 b.82.1.8 92518 1sk4A 163 1.81e+01 d.118.1.1 105664 2fcfA 103 1.85e+01 1dfcA 493 1.90e+01 1dfcA b.42.5.1,b.42.5.1,b.42.5.1,b.42.5.1 25616,25617,25618,25619 1reoA 486 1.91e+01 c.3.1.2,d.16.1.5 97325,97326 1d3bB 91 1.91e+01 1d3bB b.38.1.1 24804 1s0uA 408 1.94e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2bszA 278 1.94e+01 1yb3A 175 2.00e+01 1sxrA 183 2.01e+01 d.118.1.1 106101 2f2lX 167 2.07e+01 1q6hA 224 2.11e+01 d.26.1.1 95975 1h10A 125 2.12e+01 b.55.1.1 83446 1unqA 125 2.12e+01 b.55.1.1 107968 1kq1A 77 2.14e+01 b.38.1.2 72848 1exmA 405 2.15e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1m6kA 251 2.18e+01 e.3.1.1 78695 1qx4A 274 2.19e+01 b.43.4.2,c.25.1.1 104624,104625 1oqvA 192 2.26e+01 d.24.1.2 87320 1v1pA 211 2.26e+01 b.40.2.2,d.15.6.1 108268,108269 1cjwA 166 2.27e+01 1cjwA d.108.1.1 40818 2gwnA 452 2.29e+01 1u1sA 82 2.30e+01 1dl2A 511 2.31e+01 1dl2A a.102.2.1 18844 1mvwA 840 2.33e+01 i.15.1.1 79523 1vjnA 220 2.38e+01 d.157.1.4 100825 1z4eA 153 2.42e+01 1gutA 68 2.44e+01 b.40.6.1 65576 1pl8A 356 2.46e+01 b.35.1.2,c.2.1.1 94878,94879 1oxsC 353 2.53e+01 b.40.6.3,c.37.1.12 87519,87520 1y9qA 192 2.61e+01 1yvcA 70 2.61e+01 1krhA 338 2.61e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1qj4A 257 2.63e+01 1qj4A c.69.1.20 34796 1s4iA 175 2.63e+01 1qrrA 394 2.63e+01 1qrrA c.2.1.2 29824 1i24A 404 2.67e+01 c.2.1.2 83663 1p90A 145 2.70e+01 c.55.5.2 94377 2f4nA 273 2.70e+01 1y8xB 98 2.71e+01 2fdiA 211 2.71e+01 1wqaA 455 2.72e+01 1u1tA 82 2.75e+01 1ukmB 128 2.78e+01 d.169.1.1 99500 1ixmA 192 2.82e+01 1ixmA d.123.1.1 41114 2gokA 429 2.91e+01 1v7pB 128 2.91e+01 d.169.1.1 108407 1f60A 458 2.97e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1e3dB 542 3.04e+01 1h2rL e.18.1.1 59189 1xtmA 175 3.06e+01 1hdr 244 3.06e+01 1dhr c.2.1.2 29837 1e4cP 215 3.09e+01 2fua c.74.1.1 34969 2c78A 405 3.11e+01 1g291 372 3.13e+01 1g291 2bbhA 269 3.18e+01 2bjfA 329 3.23e+01 1umkA 275 3.26e+01 1o6lA 337 3.29e+01 d.144.1.7 81092 1te0A 318 3.30e+01 1vybA 238 3.31e+01 d.151.1.1 108897 1xy7A 166 3.34e+01 1jpzA 473 3.42e+01 a.104.1.1 67069 1ne9A 335 3.42e+01 d.108.1.4,d.108.1.4 91839,91840 1wsrA 375 3.44e+01 1hl9A 449 3.45e+01 b.71.1.3,c.1.8.11 90650,90651 1ei1A 391 3.46e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1zx8A 136 3.46e+01 1ca1 370 3.50e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1wi5A 119 3.51e+01 1z4rA 168 3.55e+01 1dbhA 354 3.55e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1a7tA 232 3.56e+01 1a7tA d.157.1.1 42041 2gzvA 114 3.57e+01 1q6uA 245 3.57e+01 d.26.1.1 95998 1mgqA 83 3.64e+01 b.38.1.1 79099 1ne2A 200 3.65e+01 c.66.1.32 85586 1h9sA 140 3.69e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1rutX 188 3.72e+01 1m5q1 130 3.78e+01 1p97A 114 3.80e+01 d.110.3.7 94382 1uspA 139 3.82e+01 d.227.1.1 99879 1o7iA 119 3.85e+01 b.40.4.3 86642 1c30B 382 3.88e+01 c.8.3.1,c.23.16.1 30736,31413 1s5aA 150 3.92e+01 d.17.4.10 98525 1v8gA 329 4.07e+01 a.46.2.1,c.27.1.1 100505,100506 2azeA 155 4.08e+01 1e0gA 48 4.13e+01 1e01A d.7.1.1 37325 1vr9A 213 4.19e+01 1l1jA 239 4.21e+01 b.47.1.1 84516 2ck3A 510 4.24e+01 1g2iA 166 4.30e+01 1g2iA c.23.16.2 31438 1oxxK 353 4.32e+01 b.40.6.3,c.37.1.12 93715,93716 1j1lA 290 4.33e+01 b.82.1.12 90766 1zud2 66 4.37e+01 1ois 223 4.38e+01 1a36A e.15.1.1 43267 1v9kA 228 4.40e+01 d.265.1.3 108449 1nykA 165 4.44e+01 b.33.1.1 86408 2fe7A 166 4.47e+01 1mqoA 227 4.53e+01 d.157.1.1 103846 1vjkA 98 4.53e+01 d.15.3.1 108631 1yasA 257 4.56e+01 1qj4A c.69.1.20 34801 1pmy 123 4.57e+01 1bqk b.6.1.1 22888 1v54B 227 4.65e+01 b.6.1.2,f.17.2.1 100322,100323 2et1A 201 4.71e+01 1k8tA 510 4.72e+01 e.41.1.1 68316 2fug5 207 4.72e+01 1bxvA 91 4.73e+01 1aac b.6.1.1 22875 1xtlA 175 4.80e+01 1l1qA 186 4.85e+01 c.61.1.1 77653 1vz6A 393 4.89e+01 d.154.1.2 108949 1gyzA 60 4.90e+01 a.144.2.1 70793 1bjt 793 4.91e+01 1bjt e.11.1.1 43249 1vk4A 298 4.93e+01 c.72.1.1 100850 1qqcA 773 4.94e+01 1tgoA c.55.3.5,e.8.1.1 33724,43013 1uekA 275 4.98e+01 d.14.1.5,d.58.26.5 88483,88484 2cqsA 842 5.01e+01 2fy6A 143 5.02e+01 1k8qA 377 5.03e+01 c.69.1.6 72177 1xpiA 231 5.03e+01 1yrrA 382 5.11e+01 1widA 130 5.12e+01 1ibyA 112 5.12e+01 1ibzA b.6.1.4 62233 1zczA 464 5.12e+01 1e3jA 352 5.23e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1h8eA 510 5.23e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1hw5A 210 5.23e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1vmeA 410 5.34e+01 c.23.5.1,d.157.1.3 108893,108894 2cw9A 194 5.46e+01 1dj7B 75 5.54e+01 1dj7B b.34.4.3 24598 2bkdN 134 5.58e+01 2h3lA 103 5.59e+01 1bu7A 455 5.62e+01 1bu7A a.104.1.1 18937 1z1yA 186 5.62e+01 2gefA 217 5.65e+01 7pti 58 5.67e+01 1bpi g.8.1.1 44476 1paz 123 5.70e+01 1bqk b.6.1.1 22878 1rgyA 360 5.70e+01 e.3.1.1 97456 1vphA 149 5.71e+01 1rc6A 261 5.74e+01 b.82.1.11 97287 1g6xA 58 5.76e+01 1bpi g.8.1.1 60320 1ri9A 102 5.83e+01 b.34.2.1 97506 1abrB 267 5.83e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1em8B 112 5.87e+01 c.126.1.1 90458 1gj7B 253 5.91e+01 1a9xB 379 5.92e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1bb9 115 5.93e+01 1bb9 b.34.2.1 24554 1y4oA 104 5.94e+01 1mvfD 82 5.95e+01 b.129.1.1 85143 2ch9A 131 5.95e+01 1gkpA 458 5.99e+01 b.92.1.3,c.1.9.6 70231,70232 1e79A 510 6.09e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2gfgA 193 6.12e+01 1jfuA 186 6.18e+01 c.47.1.10 62940 1l6pA 125 6.21e+01 b.1.17.1 73626 1tgxA 60 6.23e+01 1tgxA g.7.1.1 44398 2daqA 110 6.41e+01 1avaA 403 6.45e+01 1jdc b.71.1.1,c.1.8.1 27797,28784 1ogoX 574 6.63e+01 b.133.1.1,b.80.1.10 92925,92926 2asfA 137 6.64e+01 2h17A 181 6.74e+01 1dhr 241 6.76e+01 1dhr c.2.1.2 29832 1c5yB 253 6.87e+01 5ptp 1a12A 413 6.95e+01 1a12A b.69.5.1 27663 1n1tA 641 7.00e+01 b.29.1.15,b.68.1.1 79821,79822 1sr9A 644 7.01e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1opjA 293 7.02e+01 d.144.1.7 87230 1fbr 93 7.04e+01 1fbr g.27.1.1,g.27.1.1 44948,44949 1vrbA 342 7.07e+01 1smvA 260 7.12e+01 1smvA b.121.4.7 23288 1zupA 315 7.13e+01 1tuhA 156 7.21e+01 d.17.4.11 107345 1fl2A 310 7.25e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 2dekA 265 7.27e+01 1o7dE 126 7.29e+01 1dl5A 317 7.30e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1pbe 394 7.31e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1jv1A 505 7.37e+01 c.68.1.5 71892 1ejbA 168 7.38e+01 1rvv1 c.16.1.1 59417 1iicA 422 7.45e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1xfoA 357 7.46e+01 2g50A 530 7.47e+01 1ru8A 232 7.48e+01 c.26.2.1 97849 2b59B 172 7.49e+01 1yzbA 182 7.52e+01 5abp 306 7.58e+01 8abp c.93.1.1 35651 1ydlA 79 7.58e+01 1t9mA 214 7.65e+01 1bk1 184 7.66e+01 1axkA b.29.1.11 24340 1ryt 190 7.67e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 1r6jA 82 7.72e+01 b.36.1.1 97151 1ndh 272 7.74e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1lba 146 7.76e+01 1lba d.118.1.1 41062 1yckA 175 7.81e+01 1lkoA 191 7.81e+01 a.25.1.1,g.41.5.1 78063,78064 2bi7A 384 7.84e+01 1pmi 440 7.88e+01 1pmi b.82.1.3 28114 1wc2A 181 7.91e+01 1lvoA 302 7.96e+01 b.47.1.4 74284 1y0yA 353 8.00e+01 1rkiA 102 8.01e+01 2azeB 106 8.02e+01 2ak5A 64 8.04e+01 1pueE 89 8.06e+01 1awcA a.4.5.21 16165 4tsvA 150 8.07e+01 2tnfA b.22.1.1 23860 1pbjA 125 8.07e+01 d.37.1.1,d.37.1.1 94414,94415 1zjcA 418 8.08e+01 1qcsA 211 8.13e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1b71A 191 8.13e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 1my7A 114 8.13e+01 b.1.18.1 79675 1d5tA 433 8.18e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1qwyA 291 8.20e+01 b.84.3.2 96509 1pud 386 8.25e+01 1pud c.1.20.1 29658 1gdoA 240 8.30e+01 1gdoA 1b24A 188 8.32e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1x47A 98 8.33e+01 2g9zA 348 8.37e+01 1drw 273 8.44e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1oe1A 336 8.45e+01 b.6.1.3,b.6.1.3 86891,86892 1xe1A 116 8.46e+01 b.43.3.1 109571 1fi2A 201 8.51e+01 1fi2A b.82.1.2 59845 1wcv1 257 8.52e+01 1ivg 388 8.55e+01 2qwc b.68.1.1 27578 1jpyA 137 8.55e+01 g.17.1.6 67065 1xffA 240 8.57e+01 d.153.1.1 109580 1xrtA 467 8.57e+01 1t3cA 421 8.59e+01 d.92.1.7 106343 1i78A 297 8.63e+01 f.4.4.1 66046 1dnlA 199 8.64e+01 1ci0A b.45.1.1 25753 2czqA 205 8.69e+01 1b04A 318 8.75e+01 1b04A d.142.2.2 41579 1chuA 540 8.78e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1pxgA 382 8.78e+01 c.1.20.1 95287 1rtqA 299 8.79e+01 c.56.5.4 97819 1ycyA 71 8.97e+01 2arhA 203 8.99e+01