# 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 1o04A 500 1.23e-79 c.82.1.1 86508 1euhA 475 5.29e-71 1euhA c.82.1.1 35369 1uzbA 516 1.68e-70 c.82.1.1 100220 2bjkA 516 2.83e-70 1o20A 427 7.35e-69 c.82.1.1 86556 1uxtA 501 3.22e-66 c.82.1.1 108125 1ez0A 510 3.89e-47 1eyyA c.82.1.1 35385 1kaeA 434 9.49e-18 c.82.1.2 72247 1ls1A 295 4.13e-02 a.24.13.1,c.37.1.10 78170,78171 1w8sA 263 1.04e-01 1vmaA 306 1.07e-01 a.24.13.1,c.37.1.10 108887,108888 1nrzA 164 1.47e-01 c.38.1.1 86131 1hqkA 154 1.85e-01 c.16.1.1 65902 1p5dX 463 3.59e-01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1vh6A 145 3.89e-01 a.24.19.1 100644 1z0sA 278 5.26e-01 1in0A 163 5.49e-01 d.58.49.1,d.58.49.1 83694,83695 1nqkA 381 6.29e-01 c.1.16.4 92050 1f3vA 179 6.79e-01 1f3vA d.58.22.1 39382 2ah5A 210 8.04e-01 1zjjA 263 8.08e-01 1nnfA 309 8.43e-01 c.94.1.1 85903 1suwA 249 1.00e+00 e.52.1.1 106027 1qlmA 316 1.29e+00 1qlmA d.147.1.1 41765 2fbwC 141 1.58e+00 1qopB 396 1.60e+00 2tysB c.79.1.1 35270 1u7pA 164 1.61e+00 1h8uA 117 1.71e+00 1h8uA d.169.1.1 60793 1gx5A 536 1.99e+00 e.8.1.4 70682 1kjqA 391 2.08e+00 b.84.2.1,c.30.1.1,d.142.1.2 72616,72617,72618 1ss4A 153 2.29e+00 d.32.1.6 105976 1vrvA 101 2.45e+00 1uujA 88 2.64e+00 a.221.1.1 108046 1ockA 412 2.67e+00 c.117.1.1 86802 1y5eA 169 2.71e+00 1wxxA 382 2.79e+00 2br9A 234 2.79e+00 1wrvA 308 2.87e+00 1vbkA 307 3.02e+00 1bqcA 302 3.10e+00 1bqcA c.1.8.3 28831 1p0hA 318 3.41e+00 d.108.1.1 93866 1x42A 232 3.49e+00 1t5oA 351 3.75e+00 c.124.1.5 106459 1ra9 159 3.77e+00 1vdrA c.71.1.1 34820 1v6sA 390 3.80e+00 c.86.1.1 100424 1wbhA 214 4.11e+00 1ywqA 200 4.17e+00 1x1tA 260 4.17e+00 1u7bA 261 4.19e+00 1wwkA 307 4.28e+00 1vkcA 158 4.37e+00 1ujnA 348 4.46e+00 e.22.1.1 99460 1imjA 210 4.48e+00 c.69.1.23 71246 1mtyB 384 4.73e+00 1mtyB a.25.1.2 16740 1v4vA 376 4.74e+00 c.87.1.3 100313 1f0yA 302 4.78e+00 2hdhA a.100.1.3,c.2.1.6 18793,30197 1jyeA 349 4.97e+00 c.93.1.1 67455 1vhsA 175 5.00e+00 d.108.1.1 100698 1r31A 428 5.07e+00 d.58.20.1,d.179.1.1 96897,96898 1go3E 187 5.07e+00 b.40.4.5,d.230.1.1 83054,83055 1jwiB 125 5.46e+00 d.169.1.1 67384 1lfpA 249 5.54e+00 e.39.1.1 73885 1fmcA 255 5.62e+00 1cydA c.2.1.2 29856 1d1gA 168 5.64e+00 1d1gA c.71.1.1 34889 1n97A 389 5.75e+00 a.104.1.1 80335 1nv8A 284 5.76e+00 c.66.1.30 86224 2b0cA 206 5.88e+00 2gjsA 176 5.92e+00 2bykB 128 5.93e+00 1uv0A 149 5.98e+00 d.169.1.1 100028 1gxjA 186 6.02e+00 d.215.1.1 70707 1atg 231 6.32e+00 1atg c.94.1.1 35834 1sixA 174 6.35e+00 b.85.4.1 98892 1y81A 138 6.69e+00 1vjqA 79 6.71e+00 k.43.1.1 100830 1wy9A 147 6.81e+00 8dfr 189 6.82e+00 1aoeA c.71.1.1 34895 2bj7A 138 7.48e+00 2bllA 345 7.66e+00 1tzjA 338 7.84e+00 1m3uA 264 7.96e+00 c.1.12.8 84784 1g6sA 427 8.11e+00 1eps d.68.2.2 39584 1zd7A 159 8.37e+00 1qgdA 662 8.57e+00 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1q3eA 207 8.81e+00 b.82.3.2 95669 1sflA 238 8.87e+00 1d4oA 184 8.89e+00 1d4oA c.31.1.4 31748 1i3cA 149 8.97e+00 c.23.1.1 71112 1s62A 106 9.25e+00 1m2dA 110 9.26e+00 c.47.1.11 78476 1xxlA 239 9.36e+00 2es9A 115 9.41e+00 2bjnA 160 9.47e+00 2hmzA 113 9.71e+00 2mhr a.24.4.1 16564 1z2lA 423 9.73e+00 1j8mF 297 9.74e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1vzwA 244 1.00e+01 1q7sA 117 1.03e+01 c.131.1.1 96055 1vdmA 153 1.04e+01 1gvhA 396 1.08e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1r0mA 375 1.10e+01 c.1.11.2,d.54.1.1 104747,104748 1y0uA 96 1.11e+01 1rt8A 513 1.12e+01 a.40.1.1 105095 1t0bA 252 1.13e+01 c.23.16.6 106199 1zxxA 319 1.16e+01 1xfcA 384 1.17e+01 1v7pB 128 1.21e+01 d.169.1.1 108407 1nzaA 103 1.21e+01 d.58.5.2 86444 2az0A 73 1.22e+01 1xqoA 256 1.23e+01 1knzA 164 1.25e+01 e.34.1.1 68709 1r7lA 110 1.27e+01 d.277.1.1 104837 1r64A 481 1.28e+01 b.18.1.20,c.41.1.1 97140,97141 1vljA 407 1.30e+01 e.22.1.2 108832 1l6wA 220 1.31e+01 c.1.10.1 73632 2fiuA 99 1.32e+01 2fl4A 149 1.34e+01 1k5dB 201 1.35e+01 b.55.1.3 68169 1ta8A 332 1.36e+01 1yyaA 250 1.41e+01 1jkmB 361 1.42e+01 1jkmA c.69.1.2 34634 1wekA 217 1.44e+01 1rk8C 58 1.47e+01 b.72.3.1 97605 2dri 271 1.48e+01 2dri c.93.1.1 35637 1iq4A 179 1.50e+01 1iq4A d.77.1.1 62641 1cnt1 187 1.52e+01 1cnt3 1dozA 309 1.53e+01 1ak1 c.92.1.1 35592 1eziA 228 1.59e+01 1eyrA c.68.1.13 34512 1wv2A 265 1.60e+01 1upaA 573 1.62e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 1dj7A 117 1.62e+01 1dj7A g.36.1.1 44997 1wurA 220 1.63e+01 1vqoV 71 1.63e+01 1u5hA 273 1.64e+01 1jztA 246 1.66e+01 c.104.1.1 63319 1g8mA 593 1.67e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 2f4lA 297 1.68e+01 1vbiA 344 1.76e+01 2ajtA 500 1.78e+01 1kllA 130 1.79e+01 d.32.1.2 72720 1o1zA 234 1.80e+01 c.1.18.3 86555 1rxwA 336 1.82e+01 a.60.7.1,c.120.1.2 98059,98060 1gudA 288 1.84e+01 c.93.1.1 83326 1o4wA 147 1.84e+01 c.120.1.1 86629 1vr7A 142 1.85e+01 1ve1A 304 1.86e+01 1uw4B 248 1.86e+01 a.118.1.14 100072 1zt3A 80 1.87e+01 2b8iA 77 1.89e+01 1q77A 138 1.96e+01 c.26.2.4 96023 1iomA 377 1.98e+01 a.103.1.1 83698 2bs3C 256 2.01e+01 2ganA 190 2.01e+01 1cqxA 403 2.04e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 2a8jA 420 2.07e+01 2bmfA 451 2.11e+01 2a1iA 146 2.13e+01 1p1xA 260 2.14e+01 c.1.10.1 104060 2bjbA 462 2.17e+01 1zedA 484 2.18e+01 1tiqA 180 2.19e+01 d.108.1.1 107010 4dfrA 159 2.19e+01 1vdrA c.71.1.1 34822 2f94F 350 2.20e+01 1wy7A 207 2.20e+01 1tygB 87 2.23e+01 d.15.3.2 107455 1vajA 214 2.25e+01 2tpt 440 2.27e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1yt5A 258 2.30e+01 1q6hA 224 2.31e+01 d.26.1.1 95975 1eumA 165 2.33e+01 1eumA a.25.1.1 59507 2ar0A 541 2.35e+01 1on0A 158 2.43e+01 d.108.1.1 87095 1l3pA 102 2.44e+01 a.24.17.1 84520 1m8jA 181 2.55e+01 c.26.1.3 84875 1gnkA 112 2.55e+01 2pii d.58.5.1 39073 1mdl 359 2.62e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1yx1A 264 2.69e+01 2cx1A 187 2.70e+01 1sx5A 244 2.75e+01 c.52.1.2 99023 1qzzA 374 2.77e+01 a.4.5.29,c.66.1.12 96719,96720 1olmA 403 2.77e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1t98A 287 2.79e+01 1tmxA 293 2.79e+01 1nm2A 317 2.81e+01 c.19.1.1,d.58.23.1 80654,80655 1ojhA 65 2.82e+01 a.214.1.1 103976 1evsA 187 2.83e+01 1evsA a.26.1.1 16845 1bt3A 345 2.86e+01 1bt3A a.86.1.2 18507 2bnmA 198 2.89e+01 1wh5A 80 2.90e+01 1usmA 80 2.91e+01 d.74.1.1 99876 1kktA 511 2.92e+01 a.102.2.1 68687 1ujpA 271 2.96e+01 c.1.2.4 99462 1jd1A 129 2.97e+01 1qu9A d.79.1.1 62890 1hr6A 475 2.98e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1t6eX 381 3.01e+01 b.50.1.2 106564 1zd0A 150 3.01e+01 1kgnA 329 3.10e+01 a.25.1.2 68584 1ej2A 181 3.16e+01 1f9aA c.26.1.3 59414 1iujA 106 3.18e+01 d.58.4.5 90701 1useA 45 3.28e+01 1fs7A 485 3.32e+01 1qdbA a.138.1.3 19691 1adt 356 3.33e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1mucA 373 3.36e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1wd6A 123 3.38e+01 1jdpA 441 3.41e+01 c.93.1.1 62906 1u0fA 564 3.41e+01 2cwkA 160 3.41e+01 2af4C 333 3.44e+01 1yksA 440 3.46e+01 1yfnA 118 3.48e+01 1ve0A 134 3.49e+01 1a53 247 3.49e+01 1a53 c.1.2.4 28564 1oxkB 134 3.51e+01 c.23.1.1 93691 2g3aA 152 3.52e+01 1p4kA 295 3.52e+01 d.153.1.5 87772 1u5vA 273 3.61e+01 1tc1A 220 3.65e+01 1tc1A c.61.1.1 34083 1srvA 145 3.65e+01 1derA c.8.5.1 30817 1dowA 205 3.66e+01 1dovA a.24.9.1 16626 1gtvA 214 3.66e+01 c.37.1.1 70537 1w0mA 226 3.67e+01 c.1.1.1 109027 1cs1A 386 3.68e+01 1ibjA c.67.1.3 34399 1yloA 348 3.68e+01 2c27A 315 3.71e+01 1f86A 115 3.77e+01 1etb1 b.3.4.1 59689 2gf6A 135 3.78e+01 2f62A 161 3.79e+01 1fnnA 389 3.81e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1yozA 116 3.82e+01 1vrmA 325 3.85e+01 1s7iA 124 3.93e+01 d.58.4.9 105353 1x1iA 752 3.94e+01 1evyA 366 3.96e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1wp5A 323 4.02e+01 1j34A 129 4.05e+01 d.169.1.1 84048 1vi2A 300 4.06e+01 c.2.1.7,c.58.1.5 100726,100727 1cliA 345 4.09e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2fueA 262 4.10e+01 1a0p 290 4.12e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 2be3A 226 4.13e+01 1l8dA 112 4.18e+01 h.4.12.1 73687 2cvzA 289 4.24e+01 1q2lA 939 4.25e+01 1jc4A 148 4.28e+01 1jc4A d.32.1.4 62863 1tf5A 844 4.34e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 2ezvA 269 4.35e+01 1q6uA 245 4.37e+01 d.26.1.1 95998 1ygtA 111 4.37e+01 1a8q 274 4.38e+01 1brt c.69.1.12 34702 1js3A 486 4.50e+01 c.67.1.6 67215 1vlgA 176 4.53e+01 a.25.1.1 108816 1u2wA 122 4.53e+01 1oapA 109 4.60e+01 d.79.7.1 92706 1u55A 188 4.64e+01 d.278.1.1 107677 1wkyA 464 4.65e+01 1rw6A 210 4.69e+01 a.47.4.1 105113 1wwpA 119 4.74e+01 1xtpA 254 4.76e+01 1w6uA 302 4.78e+01 1mpgA 282 4.78e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1ihuA 589 4.80e+01 c.37.1.10,c.37.1.10 62394,62395 2bhgA 209 4.81e+01 1xg8A 111 4.83e+01 1kpf 126 4.84e+01 1kpf d.13.1.1 37507 1grj 158 4.93e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1zczA 464 4.97e+01 1ufoA 238 4.98e+01 c.69.1.27 99344 1li4A 432 5.01e+01 c.2.1.4,c.23.12.3 84616,84617 1xbiA 120 5.03e+01 1nuuA 252 5.03e+01 c.26.1.3 86209 1vkfA 188 5.04e+01 c.1.29.1 108656 1sfxA 109 5.05e+01 a.4.5.50 105505 1wt9B 123 5.07e+01 1n7sB 68 5.08e+01 h.1.15.1 80272 1tuoA 464 5.09e+01 1cuk 203 5.14e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1gd8A 118 5.14e+01 d.188.1.1 60445 2cxnA 557 5.16e+01 2b5hA 200 5.20e+01 1wnaA 131 5.24e+01 2cfxA 144 5.28e+01 1whsB 153 5.29e+01 1whtB 1ymtA 246 5.34e+01 1ub0A 258 5.37e+01 c.72.1.2 88394 1lkdA 297 5.40e+01 d.32.1.3,d.32.1.3 78059,78060 2f5gA 133 5.40e+01 1xrkA 124 5.51e+01 1b2pA 119 5.57e+01 1b2pA b.78.1.1 27998 1oi2A 366 5.59e+01 c.119.1.2 103802 1r4xA 275 5.60e+01 b.1.10.3,d.105.1.2 97054,97055 1h6tA 291 5.62e+01 b.1.18.15,c.10.2.1 65686,65687 1uesA 191 5.63e+01 a.2.11.1,d.44.1.1 107798,107799 1vpjA 192 5.64e+01 1zsyA 357 5.66e+01 2erxA 172 5.69e+01 1dl5A 317 5.70e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1axn 323 5.71e+01 1avc a.65.1.1 18149 1xtyA 120 5.71e+01 1x9iA 302 5.71e+01 2e2aA 105 5.72e+01 a.7.2.1 88499 1qkrA 188 5.76e+01 1qkrA a.24.9.1 16628 1lj5A 379 5.81e+01 e.1.1.1 73928 1v9nA 360 5.88e+01 1sdsA 117 5.97e+01 d.79.3.1 105439 1vi0A 206 6.10e+01 a.4.1.9,a.121.1.1 100720,100721 1zowA 313 6.10e+01 1xy7A 166 6.17e+01 2eulA 156 6.18e+01 1ldjA 760 6.21e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1zklA 353 6.25e+01 4eugA 229 6.25e+01 3eugA c.18.1.1 31019 1sek 378 6.26e+01 1sek e.1.1.1 42675 1nh8A 304 6.28e+01 c.94.1.1,d.58.5.3 80507,80508 2cxcA 144 6.31e+01 1o1xA 155 6.32e+01 c.121.1.1 86553 1ig3A 263 6.44e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1v7bA 185 6.45e+01 1x0rA 249 6.45e+01 2ca6A 386 6.48e+01 1urvA 190 6.49e+01 1b00A 127 6.51e+01 3chy c.23.1.1 31122 1i19A 561 6.51e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1v8cA 168 6.56e+01 d.15.3.1,d.129.5.1 100495,100496 1ceo 343 6.68e+01 1ceo c.1.8.3 28808 1nox 205 6.71e+01 1nox d.90.1.1 40242 1aocA 175 6.72e+01 1aocA g.17.1.5 44817 1s2dA 167 6.74e+01 c.23.14.1 98377 1hssA 124 6.74e+01 1bea a.52.1.2 17819 2cw9A 194 6.75e+01 2fg9A 178 6.78e+01 5nul 138 6.80e+01 5nul c.23.5.1 31191 1ejxA 100 6.83e+01 d.8.1.1 83182 1nlfA 279 6.84e+01 c.37.1.11 85850 1nowA 507 6.85e+01 c.1.8.6,d.92.2.1 85936,85937 1v95A 130 6.85e+01 c.51.1.1 108435 1wg8A 285 6.90e+01 1go4A 205 6.91e+01 d.135.1.1 70292 2aalA 131 6.91e+01 1xhkA 187 6.93e+01 2c78A 405 6.94e+01 1se7A 83 6.96e+01 1xviA 275 7.09e+01 1qsmA 152 7.10e+01 1qsmA d.108.1.1 40808 1lhpA 312 7.11e+01 c.72.1.5 77960 1l0wA 580 7.16e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 2bogX 286 7.19e+01 1sqhA 312 7.21e+01 d.108.1.5 98966 1enwA 114 7.30e+01 1enwA a.5.4.1 16291 1g57A 217 7.34e+01 1g57A d.115.1.2 60253 1vd6A 224 7.42e+01 1r9kA 172 7.49e+01 a.168.1.1 104869 1w5rA 278 7.53e+01 1js8A 394 7.53e+01 a.86.1.1,b.112.1.1 67219,67220 1zu4A 320 7.54e+01 1gx3A 284 7.57e+01 d.3.1.5 70678 1k3yA 221 7.60e+01 a.45.1.1,c.47.1.5 77245,77246 1qd9A 124 7.60e+01 1qu9A d.79.1.1 39758 1xffA 240 7.63e+01 d.153.1.1 109580 1ic2A 81 7.69e+01 h.1.5.1 62247 1wy0A 342 7.72e+01 1ra6A 461 7.73e+01 e.8.1.4 104879 1gs5A 258 7.75e+01 c.73.1.2 70395 1ng6A 148 7.79e+01 a.182.1.1 85670 1nxuA 333 7.82e+01 c.122.1.1 86389 1rypA 243 7.84e+01 1pmaA d.153.1.4 41932 2gasA 307 7.89e+01 1yxmA 303 7.91e+01 1no1A 126 7.92e+01 a.179.1.1 85913 1iloA 77 8.01e+01 c.47.1.1 66205 1y9qA 192 8.03e+01 1ta9A 450 8.05e+01 1n2zA 245 8.06e+01 c.92.2.2 79865 1gesA 450 8.19e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1uylA 236 8.19e+01 d.122.1.1 108147 1v7pC 200 8.19e+01 c.62.1.1 108408 1wveC 80 8.21e+01 1s0pA 176 8.21e+01 a.192.1.1 98300 1w19A 160 8.31e+01 1xmxA 385 8.32e+01 1i0lA 221 8.33e+01 c.61.1.1 71096 2go7A 207 8.34e+01 2ch0A 133 8.41e+01 2gaxA 135 8.45e+01 1yleA 342 8.46e+01 1ks9A 291 8.54e+01 a.100.1.7,c.2.1.6 68857,68858 2b8eA 273 8.56e+01 1mj3A 260 8.61e+01 c.14.1.3 79183 2axtE 84 8.65e+01 1dbhA 354 8.66e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1zvpA 133 8.69e+01 1ysrA 150 8.69e+01 1vimA 200 8.76e+01 c.80.1.3 100758 2bjiA 277 8.77e+01 1rreA 200 8.82e+01 d.14.1.10 97791