# List of top-scoring protein chains for t06-100-30-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 1ofdA 1520 2.07e-02 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1y14B 171 5.13e-02 2d9rA 104 2.89e-01 1zkdA 387 4.06e-01 1c9oA 66 4.08e-01 1mjc b.40.4.5 25325 2h6lA 146 4.24e-01 1yfuA 174 5.41e-01 1bia 321 6.15e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1kk1A 410 7.83e-01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2aj6A 159 8.51e-01 1fr3A 67 8.82e-01 1fr3A b.40.6.1 25436 2basA 431 9.41e-01 2fwkA 121 9.65e-01 1yavA 159 9.67e-01 1h2kA 349 1.02e+00 b.82.2.6 76572 1ihjA 98 1.12e+00 1pdr b.36.1.1 62382 2bs3A 656 1.29e+00 2fb7A 95 1.38e+00 1dhn 121 1.41e+00 1dhn d.96.1.3 40663 1l2mA 118 1.61e+00 d.89.1.4 77657 2cwpA 112 1.97e+00 2arcA 164 2.04e+00 2arcA b.82.4.1 28148 2gu2A 312 2.81e+00 1ts9A 102 2.95e+00 1qwrA 319 2.98e+00 b.82.1.3 96491 4ubpC 570 3.15e+00 1ubpC b.92.1.1,c.1.9.2 28431,29053 1p4kA 295 3.34e+00 d.153.1.5 87772 1ykjA 394 3.39e+00 1xxqA 161 3.52e+00 1qd6C 240 3.63e+00 1qd5A 1khoA 370 3.71e+00 a.124.1.1,b.12.1.3 72489,72490 1k0iA 394 3.83e+00 c.3.1.2,d.16.1.2 67942,67943 1kqqA 139 3.85e+00 a.4.3.1 72885 1o5uA 101 4.17e+00 b.82.1.8 92518 1iz5A 249 4.36e+00 d.131.1.2,d.131.1.2 83834,83835 1wzoA 246 4.57e+00 1cbf 285 4.88e+00 1cbf c.90.1.1 35587 1ugxA 133 4.89e+00 2gfaA 119 5.00e+00 2cxaA 256 5.03e+00 1u0mA 382 5.05e+00 c.95.1.2,c.95.1.2 107557,107558 1o91A 178 5.59e+00 b.22.1.1 92656 1am2 199 5.67e+00 1am2 b.86.1.2 28381 1sefA 274 5.97e+00 b.82.1.11 105452 1vq2A 193 6.08e+00 1j5wA 298 6.35e+00 d.104.1.1 71589 1fthA 122 6.45e+00 d.150.1.2 60028 1yphE 97 6.72e+00 1a7tA 232 6.78e+00 1a7tA d.157.1.1 42041 1kzlA 208 6.90e+00 b.43.4.3,b.43.4.3 77635,77636 2a5zA 262 7.47e+00 1a62 130 7.60e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1cjwA 166 7.83e+00 1cjwA d.108.1.1 40818 1z85A 234 7.86e+00 1vj0A 380 7.96e+00 b.35.1.2,c.2.1.1 100786,100787 2f2lX 167 7.99e+00 1o6lA 337 8.45e+00 d.144.1.7 81092 1k3yA 221 8.54e+00 a.45.1.1,c.47.1.5 77245,77246 1i6pA 220 8.82e+00 1ddzA c.53.2.1 61848 1v54B 227 9.56e+00 b.6.1.2,f.17.2.1 100322,100323 1zybA 232 9.62e+00 1dl2A 511 9.76e+00 1dl2A a.102.2.1 18844 1uwzA 136 9.79e+00 c.97.1.1 108081 1sk4A 163 9.93e+00 d.118.1.1 105664 1sxrA 183 9.94e+00 d.118.1.1 106101 2cu3A 64 1.01e+01 1hw5A 210 1.03e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1oxxK 353 1.04e+01 b.40.6.3,c.37.1.12 93715,93716 2gzvA 114 1.11e+01 1pmy 123 1.19e+01 1bqk b.6.1.1 22888 1zd7A 159 1.20e+01 2gwnA 452 1.25e+01 2h3lA 103 1.26e+01 2fcfA 103 1.28e+01 1rkd 309 1.30e+01 1rkd c.72.1.1 34928 1ht6A 405 1.35e+01 b.71.1.1,c.1.8.1 83629,83630 1wi5A 119 1.37e+01 1z4eA 153 1.37e+01 1yrrA 382 1.41e+01 1i24A 404 1.41e+01 c.2.1.2 83663 1g2iA 166 1.47e+01 1g2iA c.23.16.2 31438 1unqA 125 1.50e+01 b.55.1.1 107968 1qj4A 257 1.53e+01 1qj4A c.69.1.20 34796 2gokA 429 1.55e+01 1gutA 68 1.56e+01 b.40.6.1 65576 1yloA 348 1.59e+01 1zx8A 136 1.64e+01 1u1sA 82 1.70e+01 1dbhA 354 1.73e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1e4cP 215 1.73e+01 2fua c.74.1.1 34969 1g291 372 1.79e+01 1g291 1jpzA 473 1.81e+01 a.104.1.1 67069 2bszA 278 1.88e+01 1q6hA 224 1.91e+01 d.26.1.1 95975 1fdr 248 1.92e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1wqaA 455 1.95e+01 1e3dB 542 1.97e+01 1h2rL e.18.1.1 59189 2ch9A 131 1.98e+01 1m6kA 251 1.99e+01 e.3.1.1 78695 1u1tA 82 2.06e+01 1b8aA 438 2.06e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1ibyA 112 2.09e+01 1ibzA b.6.1.4 62233 1v7pB 128 2.12e+01 d.169.1.1 108407 1rkiA 102 2.19e+01 1wsrA 375 2.20e+01 1nykA 165 2.25e+01 b.33.1.1 86408 1krhA 338 2.25e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1mfgA 95 2.27e+01 b.36.1.1 79043 2fdiA 211 2.30e+01 1z4rA 168 2.44e+01 2bkdN 134 2.45e+01 1d3bB 91 2.48e+01 1d3bB b.38.1.1 24804 1k8qA 377 2.48e+01 c.69.1.6 72177 1l6pA 125 2.49e+01 b.1.17.1 73626 1n1tA 641 2.53e+01 b.29.1.15,b.68.1.1 79821,79822 1vjkA 98 2.54e+01 d.15.3.1 108631 1z1yA 186 2.55e+01 2gimA 106 2.56e+01 1y8xB 98 2.58e+01 1yb3A 175 2.75e+01 1v9kA 228 2.77e+01 d.265.1.3 108449 2c78A 405 2.78e+01 2azeA 155 2.80e+01 1f60A 458 2.82e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1kq1A 77 2.85e+01 b.38.1.2 72848 1l1qA 186 2.85e+01 c.61.1.1 77653 1paz 123 2.87e+01 1bqk b.6.1.1 22878 2cqsA 842 2.88e+01 1ms9A 648 2.89e+01 b.29.1.15,b.68.1.1 85088,85089 1vk4A 298 2.89e+01 c.72.1.1 100850 1dqzA 280 2.91e+01 1dqyA c.69.1.3 34638 2fe7A 166 2.99e+01 1hl9A 449 3.01e+01 b.71.1.3,c.1.8.11 90650,90651 1vjnA 220 3.07e+01 d.157.1.4 100825 1y9qA 192 3.09e+01 1chuA 540 3.13e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1ejbA 168 3.16e+01 1rvv1 c.16.1.1 59417 1xjvA 294 3.20e+01 1bjt 793 3.21e+01 1bjt e.11.1.1 43249 1p90A 145 3.26e+01 c.55.5.2 94377 1pl8A 356 3.28e+01 b.35.1.2,c.2.1.1 94878,94879 1yvcA 70 3.28e+01 2bjfA 329 3.30e+01 1bqk 124 3.43e+01 1bqk b.6.1.1 22889 1vr9A 213 3.43e+01 1em8B 112 3.48e+01 c.126.1.1 90458 1fbr 93 3.51e+01 1fbr g.27.1.1,g.27.1.1 44948,44949 1ca1 370 3.53e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 2f4nA 273 3.56e+01 1zud2 66 3.58e+01 1o7iA 119 3.62e+01 b.40.4.3 86642 2d93A 134 3.63e+01 1oqvA 192 3.63e+01 d.24.1.2 87320 1qqrA 138 3.66e+01 1bmlC d.15.5.1 37721 2bbhA 269 3.67e+01 1wcv1 257 3.68e+01 1dj7B 75 3.68e+01 1dj7B b.34.4.3 24598 1ogoX 574 3.68e+01 b.133.1.1,b.80.1.10 92925,92926 1c30B 382 3.71e+01 c.8.3.1,c.23.16.1 30736,31413 1ne2A 200 3.73e+01 c.66.1.32 85586 1rc6A 261 3.77e+01 b.82.1.11 97287 1lba 146 3.79e+01 1lba d.118.1.1 41062 1vybA 238 3.82e+01 d.151.1.1 108897 1mvfD 82 3.83e+01 b.129.1.1 85143 1s5aA 150 3.85e+01 d.17.4.10 98525 2fy6A 143 3.87e+01 2asfA 137 3.91e+01 1j1lA 290 3.94e+01 b.82.1.12 90766 8abp 306 3.94e+01 8abp c.93.1.1 35647 2gn4A 344 4.05e+01 1vrbA 342 4.07e+01 1s4iA 175 4.10e+01 1g6xA 58 4.12e+01 1bpi g.8.1.1 60320 1bxvA 91 4.23e+01 1aac b.6.1.1 22875 1pbjA 125 4.33e+01 d.37.1.1,d.37.1.1 94414,94415 1uekA 275 4.37e+01 d.14.1.5,d.58.26.5 88483,88484 1yckA 175 4.41e+01 1xffA 240 4.42e+01 d.153.1.1 109580 1qavA 90 4.44e+01 1qauA b.36.1.1 24777 1jfuA 186 4.44e+01 c.47.1.10 62940 1te0A 318 4.56e+01 1xy7A 166 4.59e+01 1ois 223 4.67e+01 1a36A e.15.1.1 43267 2fug5 207 4.69e+01 2bi7A 384 4.86e+01 1m5q1 130 4.91e+01 5nul 138 4.97e+01 5nul c.23.5.1 31191 1h8eA 510 5.00e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1xovA 326 5.01e+01 1nz0A 118 5.01e+01 d.14.1.2 86433 1c52 131 5.16e+01 1c52 a.3.1.1 15810 1v9nA 360 5.17e+01 1qx4A 274 5.21e+01 b.43.4.2,c.25.1.1 104624,104625 1pmi 440 5.23e+01 1pmi b.82.1.3 28114 1ne9A 335 5.23e+01 d.108.1.4,d.108.1.4 91839,91840 2fn0A 437 5.30e+01 1smd 496 5.42e+01 1smd b.71.1.1,c.1.8.1 27768,28755 2gm6A 208 5.44e+01 1vie 62 5.47e+01 1vie b.34.4.1 24592 4tsvA 150 5.52e+01 2tnfA b.22.1.1 23860 1faoA 126 5.57e+01 1faoA b.55.1.1 26974 1zczA 464 5.61e+01 1m2dA 110 5.63e+01 c.47.1.11 78476 1a9xB 379 5.69e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 2gfgA 193 5.69e+01 1tuhA 156 5.71e+01 d.17.4.11 107345 2g9zA 348 5.79e+01 1kutA 230 5.84e+01 d.143.1.1 73017 1q6uA 245 5.86e+01 d.26.1.1 95998 1dl5A 317 5.93e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1avyA 74 6.03e+01 1avyB h.1.17.1 45656 1ri9A 102 6.07e+01 b.34.2.1 97506 2ck3A 510 6.13e+01 1s14A 194 6.14e+01 d.122.1.2 98329 2azeB 106 6.20e+01 2dekA 265 6.20e+01 1umkA 275 6.35e+01 1zc1A 208 6.41e+01 1lkoA 191 6.43e+01 a.25.1.1,g.41.5.1 78063,78064 1j79A 347 6.46e+01 1j79A c.1.9.4 62675 1rgyA 360 6.48e+01 e.3.1.1 97456 1pueE 89 6.49e+01 1awcA a.4.5.21 16165 2g0cA 76 6.50e+01 1wdiA 345 6.51e+01 1vlrA 350 6.56e+01 d.13.1.3,d.246.1.1 108860,108861 1rutX 188 6.63e+01 1k8kA 418 6.74e+01 c.55.1.1,c.55.1.1 68305,68306 1i78A 297 6.74e+01 f.4.4.1 66046 1c3cA 429 6.77e+01 1c3cA a.127.1.1 19425 2czqA 205 6.87e+01 2et1A 201 6.89e+01 1fl0A 171 6.91e+01 1eujA b.40.4.4 25315 1ou8A 111 6.93e+01 b.136.1.1 93543 1x47A 98 6.99e+01 1ivg 388 7.04e+01 2qwc b.68.1.1 27578 1mzyA 333 7.07e+01 b.6.1.3,b.6.1.3 103848,103849 1bec 238 7.11e+01 1bec b.1.1.1,b.1.1.2 20627,21561 1oz2A 331 7.13e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1ctt 294 7.17e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1tc1A 220 7.21e+01 1tc1A c.61.1.1 34083 1gj7B 253 7.23e+01 1vphA 149 7.28e+01 1bb9 115 7.37e+01 1bb9 b.34.2.1 24554 2ajrA 331 7.52e+01 2b59B 172 7.53e+01 1q7hA 153 7.53e+01 b.122.1.1,d.17.6.2 96042,96043 1vmeA 410 7.55e+01 c.23.5.1,d.157.1.3 108893,108894 2dg5B 190 7.62e+01 1pk6A 133 7.66e+01 b.22.1.1 94801 1aapA 58 7.68e+01 1bpi g.8.1.1 44543 1xrtA 467 7.71e+01 1tgxA 60 7.78e+01 1tgxA g.7.1.1 44398 1ecsA 126 7.78e+01 1ecsA d.32.1.2 59407 1mgqA 83 7.82e+01 b.38.1.1 79099 1zeqX 84 7.86e+01 1llfA 534 7.90e+01 c.69.1.17 78094 1dt1A 129 7.90e+01 1c52 a.3.1.1 15811 1s98A 107 7.90e+01 b.124.1.1 105377 1fehA 574 7.91e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1dleA 298 7.91e+01 1dleA b.47.1.2 26312 2daqA 110 7.92e+01 1widA 130 8.05e+01 1xw3A 110 8.05e+01 1ydlA 79 8.15e+01 1ekjA 221 8.24e+01 1ekjB c.53.2.1 33364 1oe1A 336 8.30e+01 b.6.1.3,b.6.1.3 86891,86892 2fr5A 146 8.30e+01 1n0qA 93 8.36e+01 k.37.1.1 79754 1lvoA 302 8.37e+01 b.47.1.4 74284 2g50A 530 8.42e+01 1vhyA 257 8.45e+01 b.122.1.2,c.116.1.5 100714,100715 1zkjA 359 8.49e+01 1mqoA 227 8.50e+01 d.157.1.1 103846 1yzsA 121 8.52e+01 1xtmA 175 8.54e+01 1fl2A 310 8.55e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1ixmA 192 8.59e+01 1ixmA d.123.1.1 41114 1wwrA 171 8.66e+01 1ddwA 120 8.67e+01 1evhA b.55.1.4 27001 2f4pA 147 8.69e+01 2g8yA 385 8.70e+01 1vc3B 97 8.74e+01 1lf6A 684 8.77e+01 a.102.1.5,b.30.5.5 77918,77919 1nkqA 259 8.78e+01 d.177.1.1 103862 1x3lA 440 8.80e+01 1nf3A 195 8.81e+01 c.37.1.8 85594 1xauA 122 8.84e+01 1flmA 122 8.90e+01 1axj b.45.1.1 25747 1kwiA 101 8.93e+01 d.17.1.3 77564 1sr9A 644 8.99e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962