# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1zkiA 133 2.41e-23 2b6eA 146 1.59e-22 1o0iA 138 1.78e-22 d.38.1.5 86532 1vh5A 148 1.59e-21 d.38.1.5 100642 1wluA 136 1.68e-21 1j1yA 136 2.74e-21 d.38.1.5 90776 1yliA 153 4.77e-21 2fs2A 151 9.76e-21 1psuA 140 1.02e-20 d.38.1.5 88285 1u1zA 168 1.66e-20 d.38.1.6 107602 1vpmA 169 2.19e-20 2gvhA 288 3.32e-18 1q4uA 151 9.34e-18 d.38.1.5 95828 1ixlA 131 3.39e-17 d.38.1.5 90717 1t82A 155 7.20e-17 d.38.1.5 106639 2cyeA 133 1.12e-16 1z6bA 154 1.44e-16 1yocA 147 1.79e-16 1njkA 156 3.58e-16 d.38.1.1 85818 2av9A 147 3.04e-14 1sh8A 154 6.86e-14 d.38.1.5 105549 1s5uA 138 3.05e-13 d.38.1.1 98573 1z54A 132 3.09e-13 2gf6A 135 1.77e-11 2b3nA 159 8.73e-11 2aliA 158 2.95e-10 1lo7A 141 1.61e-09 d.38.1.1 74144 2cwzA 141 1.63e-09 1bvqA 141 1.90e-09 1bvqA d.38.1.1 38542 1iq6A 134 1.08e-08 d.38.1.4 76755 1tbuA 118 3.17e-08 2essA 248 8.75e-08 1mkaA 171 2.40e-07 1mkaA d.38.1.2 38543 1c8uA 285 1.45e-06 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bi0A 337 2.30e-06 1pn2A 280 4.85e-03 d.38.1.4,d.38.1.4 94930,94931 1yycA 174 7.05e-03 2b59A 187 4.51e-02 2bm3A 166 6.07e-02 2bc4A 211 3.50e-01 1sdjA 310 3.87e-01 d.21.1.2,d.21.1.2 98807,98808 1tcvA 287 3.91e-01 1qyaA 307 4.15e-01 d.21.1.2,d.21.1.2 104653,104654 1xkpC 143 6.32e-01 2f4lA 297 8.29e-01 1lshA 1056 1.06e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1b8oA 284 1.33e+00 1b8oA c.56.2.1 33762 1q52A 314 1.45e+00 c.14.1.3 95846 1cb0A 283 1.79e+00 1cb0A c.56.2.1 33790 1uvqA 197 2.14e+00 b.1.1.2,d.19.1.1 100062,100063 1w9hA 427 2.78e+00 1hdmA 201 2.83e+00 1iakA b.1.1.2,d.19.1.1 21583,38157 1ema 236 2.90e+00 1ema d.22.1.1 38339 2f6kA 307 3.33e+00 1o9gA 250 3.55e+00 c.66.1.29 86692 1g24A 211 3.61e+00 1g24A d.166.1.1 42270 1dmmA 131 3.72e+00 1opy d.17.4.3 38114 1opy 131 3.75e+00 1opy d.17.4.3 38113 1uwdA 103 3.94e+00 2gr8A 99 4.72e+00 1h3nA 878 4.72e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ieaA 192 4.73e+00 1iakA b.1.1.2,d.19.1.1 21631,38205 1te5A 257 5.16e+00 d.153.1.1 106795 1g2oA 268 5.66e+00 1b8oA c.56.2.1 60228 1xeuA 263 6.17e+00 2a9kB 223 6.30e+00 2eifA 136 6.40e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1yirA 408 6.41e+00 2bf6A 449 6.72e+00 1nnxA 109 7.19e+00 b.40.10.1 92013 1cr5A 189 7.19e+00 1cr5A b.52.2.3,d.31.1.1 26931,38465 1rmg 422 7.36e+00 1rmg b.80.1.3 28029 1zb9A 143 7.48e+00 2a15A 139 7.74e+00 1f39A 101 7.95e+00 1umuA b.87.1.1 28386 1x1nA 524 7.95e+00 1j1bA 420 7.98e+00 d.144.1.7 90758 1hnuA 280 8.16e+00 1hnoA c.14.1.3 61096 1s7jA 262 8.41e+00 d.21.1.2 98647 1o0wA 252 8.56e+00 a.149.1.1,d.50.1.1 80751,80752 2f7tA 227 8.61e+00 1kt6A 183 8.75e+00 b.60.1.1 84466 1pjhA 280 8.76e+00 c.14.1.3 94761 1w3jA 468 9.11e+00 c.1.8.4 109156 1s1fA 406 9.29e+00 1w6nA 134 9.40e+00 2mspA 126 9.47e+00 1mspA b.1.11.2 22335 1ve4A 206 9.57e+00 1iq4A 179 1.03e+01 1iq4A d.77.1.1 62641 1uspA 139 1.03e+01 d.227.1.1 99879 1l0wA 580 1.05e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1txqA 93 1.06e+01 1ihjA 98 1.10e+01 1pdr b.36.1.1 62382 1jjyA 636 1.11e+01 1jjyA 1su8A 636 1.12e+01 e.26.1.2 98999 1ydwA 362 1.13e+01 1vrbA 342 1.14e+01 1yr0A 175 1.14e+01 1qgvA 142 1.15e+01 1qgvA c.47.1.8 33056 1u6mA 199 1.16e+01 1zo2A 129 1.20e+01 1cwvA 492 1.23e+01 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1n2sA 299 1.24e+01 c.2.1.2 79857 1oh0A 131 1.26e+01 d.17.4.3 87004 1s31A 273 1.28e+01 1g38A 393 1.32e+01 2admA c.66.1.27 60235 1w66A 232 1.38e+01 1y6hA 177 1.39e+01 2d0eA 407 1.40e+01 4pfk 319 1.44e+01 3pfk c.89.1.1 35582 2d09A 407 1.44e+01 1u69A 163 1.45e+01 d.32.1.7 107699 1wcdJ 441 1.47e+01 1th5A 74 1.47e+01 1yvrA 538 1.49e+01 1gzwA 134 1.49e+01 b.29.1.3 90535 1hbq 183 1.52e+01 1aqb b.60.1.1 27078 1dqeA 137 1.54e+01 1dqeA a.39.2.1 17388 1g7sA 594 1.56e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2fimA 276 1.58e+01 2cu6A 103 1.59e+01 1tf4A 605 1.61e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1ab8A 220 1.62e+01 1azsA d.58.29.1 39414 1aqb 183 1.65e+01 1aqb b.60.1.1 27084 1xi1A 575 1.67e+01 1uv7A 110 1.69e+01 d.67.4.1 100040 1ry9A 145 1.72e+01 d.198.1.1 98094 1mpp 361 1.75e+01 2rmpA b.50.1.2 26856 2cbuA 468 1.78e+01 1zxxA 319 1.80e+01 1fsz 372 1.81e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1k4nA 192 1.83e+01 d.32.1.5 72059 1j98A 157 1.84e+01 1j98A d.185.1.2 62755 2fg1A 158 1.84e+01 1iakA 199 1.87e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1yq2A 1024 1.90e+01 1bowA 159 1.91e+01 1bowA d.60.1.1 39528 1xfrA 128 1.92e+01 1tiyA 164 1.94e+01 c.97.1.2 107012 1sltA 134 2.03e+01 1c1lA b.29.1.3 24186 1je0A 236 2.05e+01 c.56.2.1 66581 1xewY 172 2.13e+01 1b06A 210 2.13e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1w2iA 91 2.13e+01 d.58.10.1 109127 2d42A 249 2.14e+01 1nkgA 508 2.19e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1xk5A 204 2.19e+01 1oxdA 227 2.26e+01 d.22.1.1 93687 1wteA 272 2.26e+01 1yewA 382 2.28e+01 1uz1A 468 2.28e+01 1n82A 331 2.29e+01 c.1.8.3 91703 1k77A 260 2.34e+01 c.1.15.5 72096 1ur1A 378 2.39e+01 c.1.8.3 99804 1gsoA 431 2.42e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1t4wA 196 2.45e+01 b.2.5.2 106427 1oruA 195 2.46e+01 b.58.1.2 93464 1gy6A 127 2.47e+01 d.17.4.2 70736 1mqkL 120 2.48e+01 b.1.1.1 85054 1cbs 137 2.53e+01 1hmt b.60.1.2 27201 1gnxA 479 2.55e+01 c.1.8.4 76241 2b69A 343 2.56e+01 1ifc 132 2.59e+01 b.60.1.2 27173 2awkA 228 2.59e+01 1jztA 246 2.60e+01 c.104.1.1 63319 1ejxA 100 2.63e+01 d.8.1.1 83182 2a8yA 270 2.65e+01 2bl1A 172 2.67e+01 1yvoA 172 2.70e+01 1ndh 272 2.72e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1ounA 127 2.76e+01 1ounA d.17.4.2 38090 1id2A 106 2.78e+01 1aac b.6.1.1 62288 2afcA 168 2.82e+01 1wz8A 264 2.84e+01 1tyjA 170 2.88e+01 1w2wA 211 2.95e+01 c.124.1.5 109130 1unnC 115 3.10e+01 d.240.1.1 99680 1kutA 230 3.12e+01 d.143.1.1 73017 1tu1A 148 3.13e+01 d.107.1.3 107316 1vb3A 428 3.15e+01 3pmgA 561 3.21e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1qqp3 220 3.24e+01 1qqp3 1ns5A 155 3.26e+01 c.116.1.3 80705 1zyoA 191 3.27e+01 1iz6A 138 3.28e+01 b.34.5.2,b.40.4.5 76976,76977 1ztuA 341 3.35e+01 1wtaA 275 3.35e+01 1fqtA 112 3.40e+01 1fqtA b.33.1.1 24441 1o6vA 466 3.42e+01 b.1.18.15,c.10.2.1 81099,81100 1ttwA 138 3.46e+01 d.198.1.1 107308 1xp8A 366 3.47e+01 1ikpA 613 3.51e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2covD 104 3.52e+01 2bwqA 129 3.53e+01 1zhxA 438 3.54e+01 1ww7A 160 3.60e+01 1bbt3 220 3.68e+01 1qqp3 1gq6A 313 3.69e+01 c.42.1.1 70341 1ykwA 435 3.69e+01 1e25A 282 3.70e+01 1e25A e.3.1.1 42731 1ej6D 418 3.71e+01 i.7.1.1 45970 1jenA 267 3.81e+01 1jenA 2azpA 318 3.84e+01 1xovA 326 3.84e+01 1erjA 393 3.89e+01 1erjA b.69.4.1 27660 1hq0A 295 3.99e+01 1hzgA d.194.1.1 61122 1dceA 567 4.01e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1kypA 237 4.14e+01 d.22.1.1 73280 1wnhA 225 4.14e+01 1cs6A 382 4.15e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1jr7A 311 4.16e+01 b.82.2.3 63255 1uh5A 329 4.23e+01 c.2.1.2 107840 2c5uA 375 4.26e+01 1lid 131 4.26e+01 1hmt b.60.1.2 27184 1r1dA 247 4.32e+01 c.69.1.29 96813 1kdgA 546 4.33e+01 c.3.1.2,d.16.1.1 77337,77338 1umkA 275 4.35e+01 7taa 478 4.38e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1vs0A 310 4.38e+01 1xyn 178 4.41e+01 1axkA b.29.1.11 24322 1vbiA 344 4.50e+01 1q1rA 431 4.54e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1g5cA 170 4.58e+01 1g5cA c.53.2.1 60264 1qnnA 191 4.59e+01 1avmA a.2.11.1,d.44.1.1 15792,38755 2furA 209 4.60e+01 1r4vA 171 4.64e+01 a.197.1.1 97049 1whvA 100 4.67e+01 2g6yA 217 4.67e+01 1gk8I 140 4.71e+01 d.73.1.1 65242 1tuoA 464 4.80e+01 1zaiA 363 4.81e+01 1adoA 363 4.84e+01 1fbaA c.1.10.1 29124 1zthA 258 4.84e+01 1jeoA 180 4.87e+01 c.80.1.3 66611 1fm0D 81 4.90e+01 1fmaD d.15.3.1 37642 1nh8A 304 4.97e+01 c.94.1.1,d.58.5.3 80507,80508 2d27A 149 5.00e+01 1b4vA 504 5.01e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1o8vA 134 5.12e+01 b.60.1.2 86680 1mdc 133 5.20e+01 1hmt b.60.1.2 27198 2c5qA 240 5.31e+01 1v1aA 309 5.32e+01 c.72.1.1 100249 1enp 312 5.42e+01 1enp c.2.1.2 29906 1lylA 504 5.42e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1d7oA 297 5.44e+01 1enp c.2.1.2 29907 1dabA 539 5.46e+01 1dabA b.80.1.7 28049 1w7lA 422 5.47e+01 c.67.1.1 109226 2f5tX 233 5.48e+01 2ftbA 125 5.52e+01 1ir21 140 5.55e+01 1v7zA 260 5.57e+01 c.125.1.1 100488 1v7rA 186 5.58e+01 c.51.4.1 100482 1aqzA 149 5.66e+01 1aqzA d.1.1.3 36238 1qexA 288 5.72e+01 1qexA b.32.1.1 24425 1senA 164 5.75e+01 c.47.1.1 105465 1tuaA 191 5.78e+01 d.51.1.1,d.51.1.1 107321,107322 1xubA 298 5.79e+01 1fsu 492 5.86e+01 1auk c.76.1.2 35032 1kl9A 182 5.94e+01 b.40.4.5 72681 2bk7B 222 5.96e+01 2bo9B 222 5.96e+01 1o97C 264 6.08e+01 c.26.2.3 81232 1mxtA 504 6.08e+01 c.3.1.2,d.16.1.1 79671,79672 1n4wA 504 6.08e+01 c.3.1.2,d.16.1.1 91676,91677 1f2tB 148 6.26e+01 1f2tB 1nzyA 269 6.31e+01 1nzyA c.14.1.3 30903 1g7nA 131 6.33e+01 b.60.1.2 83274 1ymmA 191 6.33e+01 1azsB 212 6.34e+01 1azsA d.58.29.1 39423 2aboA 136 6.45e+01 1itbB 315 6.47e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1c8zA 265 6.50e+01 1c8zA d.23.1.1 38375 1tllA 688 6.50e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1dkuA 317 6.56e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1b5qA 472 6.58e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1xdnA 277 6.60e+01 1n9pA 207 6.70e+01 b.1.18.16 80343 1kzfA 230 6.76e+01 d.108.1.3 73354 1vapA 123 6.76e+01 1poa a.133.1.2 19548 1w3fA 315 6.79e+01 1exmA 405 6.80e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2beiA 170 6.84e+01 1uesA 191 6.88e+01 a.2.11.1,d.44.1.1 107798,107799 1w4rA 195 6.99e+01 1g87A 614 7.02e+01 a.102.1.2,b.2.2.2 83275,83276 2b5dX 528 7.04e+01 1nzjA 298 7.07e+01 c.26.1.1 92377 1xgsA 295 7.08e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1gai 472 7.14e+01 1ayx a.102.1.1 18819 2f96A 224 7.17e+01 1ha3A 405 7.21e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1tiqA 180 7.24e+01 d.108.1.1 107010 1ur4A 399 7.25e+01 2cx1A 187 7.25e+01 1ln1A 214 7.51e+01 d.129.3.2 74038 3ullA 132 7.59e+01 3ullA b.40.4.3 25282 1esxA 96 7.61e+01 1esxA j.11.1.1 59501 1e3mA 800 7.64e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1js3A 486 7.72e+01 c.67.1.6 67215 1k5nA 276 7.72e+01 b.1.1.2,d.19.1.1 77266,77267 1bxaA 105 7.86e+01 1aac b.6.1.1 22839 2pil 159 7.93e+01 2pil d.24.1.1 38376 2c78A 405 7.97e+01 1hjrA 158 8.00e+01 1hjrA c.55.3.6 33727 1zchA 255 8.02e+01 1p6pA 125 8.05e+01 b.60.1.2 87839 1sfdA 105 8.06e+01 b.6.1.1 105480 1cvrA 435 8.07e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1rewA 114 8.08e+01 g.17.1.2 97334 1l2tA 235 8.09e+01 c.37.1.12 73514 1qhxA 178 8.12e+01 1qhsA c.37.1.3 31936 2a84A 300 8.15e+01 1wnlA 235 8.20e+01 1h6tA 291 8.21e+01 b.1.18.15,c.10.2.1 65686,65687 1sftA 388 8.32e+01 1bd0A b.49.2.2,c.1.6.1 26482,28644 2fm8A 135 8.35e+01 1ylxA 103 8.35e+01 1d2eA 397 8.44e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2fpqA 444 8.45e+01 1qx4A 274 8.51e+01 b.43.4.2,c.25.1.1 104624,104625 1geeA 261 8.56e+01 c.2.1.2 90509 2atrA 138 8.57e+01 1twfK 120 8.57e+01 1eyeA 280 8.61e+01 1aj2 c.1.21.1 29672 1gcoA 261 8.61e+01 1ybvA c.2.1.2 29884 1bd0A 388 8.66e+01 1bd0A b.49.2.2,c.1.6.1 26480,28642 2f23A 156 8.74e+01 1zj8A 566 8.81e+01 1lyvA 306 8.81e+01 c.45.1.2 74348 1hn0A 1021 8.88e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1bk1 184 8.90e+01 1axkA b.29.1.11 24340 1orvA 728 8.93e+01 b.70.3.1,c.69.1.24 87354,87355 1am2 199 8.96e+01 1am2 b.86.1.2 28381 1sfjA 238 8.96e+01