# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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 2gu3A 136 1.07e-01 1n6zA 105 1.16e-01 d.263.1.1 85369 1gw5S 142 3.81e-01 d.110.4.2 70633 1ylxA 103 4.16e-01 d.82.5.1 123677 2cy5A 140 4.20e-01 b.55.1.2 131018 1vr4A 103 4.30e-01 d.230.5.1 120432 1aqcA 172 4.58e-01 1x11A b.55.1.2 26983 1y9wA 140 6.80e-01 d.108.1.1 122783 1v9yA 167 1.05e+00 d.110.3.2 108454 2g3aA 152 1.17e+00 d.108.1.1 134557 1ufzA 83 1.23e+00 a.5.9.1 107821 1ifqA 138 1.50e+00 1ifqA d.110.4.1 62350 1zk7A 467 1.53e+00 2fl4A 149 1.62e+00 d.108.1.1 133706 1iicA 422 1.86e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1s3sG 127 2.03e+00 d.15.1.2 98457 1yzsA 121 2.09e+00 2cx1A 187 2.35e+00 b.122.1.1,d.17.6.4 130967,130968 1x31D 99 2.42e+00 1uliB 187 2.46e+00 d.17.4.4 107923 1914 232 2.65e+00 1914 1iujA 106 2.72e+00 d.58.4.5 90701 1o7nB 194 3.16e+00 d.17.4.4 81164 1n9lA 109 3.27e+00 d.110.3.6 85468 1nwwA 149 3.60e+00 d.17.4.8 86306 1k5dB 201 3.64e+00 b.55.1.3 68169 1in0A 163 3.68e+00 d.58.49.1,d.58.49.1 83694,83695 1oa8A 133 3.79e+00 b.145.1.1 92698 1ty9A 222 3.83e+00 b.45.1.1 112827 2f57A 317 3.97e+00 1ru0A 105 3.98e+00 d.74.1.1 111937 2gi9A 56 4.00e+00 1y13A 181 4.12e+00 d.96.1.2 116319 1ecrA 309 4.30e+00 1ecrA e.2.1.1 42678 1zhhB 242 4.37e+00 5csmA 256 4.40e+00 5csmA a.130.1.2 19494 1vkcA 158 4.42e+00 d.108.1.1 113663 1sh8A 154 4.50e+00 d.38.1.5 105549 3grs 478 4.54e+00 3grs 1xw3A 110 4.56e+00 1t4oA 117 4.61e+00 d.50.1.1 106425 1wguA 136 4.67e+00 b.55.1.2 114623 1yduA 170 4.77e+00 b.162.1.1 123003 1scfA 273 4.84e+00 1exzA a.26.1.2 16873 1kveB 77 4.88e+00 1kveB 1ntvA 152 5.18e+00 b.55.1.2 86168 2igd 61 5.23e+00 2igd 1kshB 152 5.42e+00 b.1.18.8 72915 1vpkA 378 5.53e+00 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 1ospO 257 5.60e+00 1ospO b.76.1.1 27971 1pvgA 418 5.75e+00 d.14.1.3,d.122.1.2 95161,95162 1kgnA 329 5.91e+00 a.25.1.2 68584 2h4uA 145 5.91e+00 d.38.1.5 136082 2cfxA 144 6.01e+00 a.4.5.32,d.58.4.2 130395,130396 1zmeC 70 6.13e+00 1zmeC g.38.1.1,h.1.3.1 45081,45514 1vkkA 154 6.24e+00 d.109.1.2 108669 1v74A 107 6.36e+00 d.243.1.1 100442 2bmoB 194 6.48e+00 d.17.4.4 128806 1zx2A 147 6.69e+00 2c30A 321 6.88e+00 1vk8A 106 7.12e+00 d.58.48.1 108636 8rucI 123 7.31e+00 1rboC d.73.1.1 39629 1trb 320 8.08e+00 1trb 1jeyB 565 8.10e+00 1jeqB b.131.1.2,c.62.1.4 90372,90373 1o26A 232 8.15e+00 d.207.1.1 86566 1orc 71 8.20e+00 1orc 1t95A 240 8.21e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2a74A 643 8.26e+00 2b95A 106 8.30e+00 1sgoA 139 8.42e+00 d.82.3.1 98857 1dcoA 104 8.51e+00 1dcpA d.74.1.1 39680 1t6aA 126 8.75e+00 d.129.8.1 106555 2fckA 181 8.76e+00 d.108.1.1 133272 1voqa 90 9.22e+00 1grj 158 9.54e+00 1grj 1w79A 489 9.66e+00 e.3.1.3 120680 1r9fA 136 1.00e+01 d.255.1.1 97257 1o5uA 101 1.01e+01 b.82.1.8 92518 1uwvA 433 1.02e+01 b.40.4.12,c.66.1.40 100128,100129 2c1iA 431 1.05e+01 c.6.2.3,d.341.1.1 129636,129637 1jovA 270 1.10e+01 b.30.5.7 84192 1rsy 152 1.12e+01 1rsy 2fk4A 75 1.12e+01 1xj4A 119 1.12e+01 d.110.3.2 122027 1ngmB 72 1.13e+01 j.104.1.1 85687 1q7hA 153 1.14e+01 b.122.1.1,d.17.6.2 96042,96043 1ugiA 84 1.14e+01 1ugiA d.17.5.1 38125 1crzA 403 1.18e+01 1crzA b.68.4.1,c.51.2.1 27629,33211 1tn6B 437 1.20e+01 a.102.4.3 112528 1kllA 130 1.22e+01 d.32.1.2 72720 1w3oA 216 1.24e+01 b.45.1.1 114142 1pn2A 280 1.25e+01 d.38.1.4,d.38.1.4 94930,94931 1o08A 221 1.27e+01 c.108.1.6 86525 1t0hB 224 1.27e+01 c.37.1.1 106208 1erjA 393 1.31e+01 1erjA b.69.4.1 27660 1usmA 80 1.31e+01 d.74.1.1 99876 2cr4A 126 1.33e+01 1nrlA 316 1.34e+01 a.123.1.1 92091 1tyv 542 1.36e+01 1tyv 2cy2A 174 1.37e+01 d.108.1.1 131016 1vqoS 85 1.38e+01 d.12.1.1 120380 2evrA 246 1.46e+01 b.34.11.3,d.3.1.16 132440,132441 1ew4A 106 1.47e+01 1ew4A d.82.2.1 40023 2a1rA 430 1.50e+01 1v3wA 173 1.53e+01 b.81.1.5 100291 1u2kA 309 1.53e+01 a.93.1.3 112983 1t6sA 162 1.53e+01 a.4.5.60,a.4.5.60 112271,112272 1a32 88 1.54e+01 1a32 1dceA 567 1.54e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 2cq8A 110 1.54e+01 1yspA 181 1.56e+01 1ufwA 95 1.56e+01 d.58.7.1 99358 1vgjA 184 1.57e+01 1evhA 112 1.57e+01 1evhA b.55.1.4 26997 1ln1A 214 1.57e+01 d.129.3.2 74038 1fxxA 482 1.59e+01 1fxxA c.55.3.5 33726 1gz8A 299 1.59e+01 d.144.1.7 83405 2b1xB 172 1.59e+01 d.17.4.4 127677 3proC 166 1.62e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1zowA 313 1.63e+01 2fhzB 108 1.66e+01 d.243.1.2 133506 1bywA 110 1.66e+01 1bywA d.110.3.6 40912 1zbfA 142 1.69e+01 c.55.3.1 124850 1fecA 490 1.72e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1gzcA 239 1.75e+01 b.29.1.1 70803 2b4vA 468 1.80e+01 a.160.1.4,d.218.1.10 127864,127865 1wveC 80 1.80e+01 a.3.1.1 121335 1z4eA 153 1.82e+01 d.108.1.1 124431 2g6yA 217 1.83e+01 1r7mA 235 1.85e+01 d.95.2.1,d.95.2.1 111713,111714 1ze3D 125 1.86e+01 b.167.1.1 124976 1jcfA 344 1.87e+01 c.55.1.1,c.55.1.1 62878,62879 1x8dA 104 1.90e+01 1n91A 108 1.93e+01 d.206.1.1 80326 1ldjA 760 1.94e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1wh5A 80 1.94e+01 a.4.1.1 114633 1vrtA 560 1.94e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1e2wA 251 1.95e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2fkbA 180 1.95e+01 d.113.1.2 133650 1i3jA 116 1.97e+01 1i3jA d.285.1.1 61594 1dqtA 117 1.99e+01 1ah1 b.1.1.1 20653 1fxkB 109 2.00e+01 1fxkA a.2.5.1 15704 1qqp3 220 2.00e+01 1qqp3 2b49A 287 2.04e+01 1gxrA 337 2.05e+01 b.69.4.1 70722 1d0qA 103 2.06e+01 1d0qA g.41.3.2 45208 1ou8A 111 2.07e+01 b.136.1.1 93543 1s4bP 674 2.08e+01 d.92.1.5 105252 1twfK 120 2.09e+01 d.74.3.2 112736 1o8xA 146 2.14e+01 c.47.1.10 86681 1y10A 407 2.14e+01 1mzbA 136 2.18e+01 a.4.5.42 91497 1rewA 114 2.19e+01 g.17.1.2 97334 1yvoA 172 2.20e+01 d.108.1.1 124106 1vqoX 92 2.24e+01 d.29.1.1 120385 1mngA 203 2.28e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1qnaA 200 2.29e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 2d9kA 75 2.29e+01 1ly1A 181 2.29e+01 c.37.1.1 74334 1ifc 132 2.33e+01 1vp2A 208 2.34e+01 c.51.4.1 113933 2essA 248 2.35e+01 d.38.1.8,d.38.1.8 132346,132347 2a3qA 170 2.35e+01 a.204.1.2 126092 1y0hA 105 2.35e+01 d.58.4.11 116303 1l1lA 739 2.36e+01 c.7.1.4 73470 1gy7A 125 2.37e+01 d.17.4.2 70738 2fo3A 125 2.41e+01 d.20.1.1 133868 1g24A 211 2.42e+01 1g24A d.166.1.1 42270 1i2aA 219 2.42e+01 e.24.1.1 90660 1dwkA 156 2.43e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 2gjgA 248 2.43e+01 1h2wA 710 2.44e+01 b.69.7.1,c.69.1.4 76596,76597 1i12A 160 2.45e+01 1i21A d.108.1.1 61515 1l0qA 391 2.47e+01 b.1.3.1,b.69.2.3 77644,77645 1yhvA 297 2.49e+01 1u3eM 174 2.50e+01 d.4.1.3,d.285.1.1 107640,107641 1z9bA 135 2.53e+01 1t4nA 94 2.54e+01 d.50.1.1 106424 1a0p 290 2.55e+01 1a0p 1pme 380 2.55e+01 1hcl 1e4fT 419 2.57e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1obdA 306 2.60e+01 d.143.1.1 86767 1iwmA 186 2.60e+01 b.125.1.2 83758 2gx9A 129 2.62e+01 d.299.1.1 135828 2cg4A 152 2.63e+01 a.4.5.32,d.58.4.2 130417,130418 2dbbA 151 2.67e+01 1lfwA 470 2.68e+01 c.56.5.4,d.58.19.1 77942,77943 1q1vA 70 2.69e+01 a.159.4.1 104479 1i7nA 309 2.73e+01 c.30.1.5,d.142.1.3 83681,83682 1ymqA 261 2.74e+01 c.108.1.10 123707 1ylkA 172 2.77e+01 1tiqA 180 2.77e+01 d.108.1.1 107010 1wddS 128 2.85e+01 d.73.1.1 114532 1nhs 447 2.87e+01 1nhp 1s28A 132 2.88e+01 d.198.1.1 105223 1ko6A 187 2.89e+01 b.119.1.1 77471 1fzcA 87 2.90e+01 1fzcA h.1.8.1 45590 1b7yA 350 2.91e+01 1pysA d.104.1.1 40776 2blkA 122 2.94e+01 1zkkA 167 2.94e+01 2d93A 134 2.97e+01 1tqzA 133 3.01e+01 b.55.1.11 119327 1m8aA 70 3.03e+01 d.9.1.1 74579 2b9hA 353 3.03e+01 1g5hA 454 3.04e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1vr6A 350 3.06e+01 c.1.10.4 120439 1jh6A 189 3.06e+01 d.61.1.1 66707 1jmtA 104 3.07e+01 d.58.7.3 63180 1x47A 98 3.12e+01 d.50.1.1 121680 2bbkH 355 3.13e+01 2bbkH b.69.2.1 27634 1vdc 333 3.18e+01 1trb 1kgdA 180 3.20e+01 c.37.1.1 68582 1pc6A 146 3.21e+01 d.262.1.1 94430 1mjhA 162 3.24e+01 1mjhA c.26.2.4 31639 1rxqA 178 3.25e+01 a.213.1.1 105118 1tif 78 3.25e+01 1tif 1uebA 184 3.28e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1opjA 293 3.29e+01 d.144.1.7 87230 1yaxA 153 3.32e+01 1f3uB 171 3.40e+01 1f3uB b.65.1.1 27525 1z8uA 102 3.42e+01 a.7.11.1 124724 1fl2A 310 3.51e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1sq5A 308 3.55e+01 c.37.1.6 105882 1k04A 162 3.59e+01 a.24.14.1 67904 1t64A 377 3.62e+01 c.42.1.2 106543 1lvaA 258 3.62e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2c7hA 86 3.65e+01 1o5zA 442 3.66e+01 c.59.1.2,c.72.2.2 92530,92531 1zo2A 129 3.67e+01 1wi0A 113 3.67e+01 d.15.2.2 114657 1y96B 85 3.70e+01 1ksoA 101 3.75e+01 a.39.1.2 72926 1w6sB 74 3.76e+01 a.137.2.1 114285 1i2sA 282 3.79e+01 e.3.1.1 71104 1j1jA 240 3.82e+01 a.118.16.1 90762 1cdcA 99 3.85e+01 1cdcA b.1.1.1 19746 2ahqA 76 3.86e+01 2ahmA 88 3.86e+01 a.8.9.1 126760 1vjlA 164 3.87e+01 d.257.1.1 100822 2fp1A 166 3.89e+01 a.130.1.4 133891 1g6aA 271 3.90e+01 1btl e.3.1.1 42704 2b2nA 344 3.91e+01 c.37.1.19 127710 1k0hA 117 3.92e+01 b.106.1.2 71975 1z5sD 83 3.93e+01 1bif 469 3.97e+01 1bif 1xkpC 143 3.97e+01 d.198.1.1 122088 1ugjA 141 3.98e+01 b.41.1.3 107826 1j6rA 214 3.99e+01 d.173.1.2 71598 1whuA 104 4.03e+01 a.4.9.1 114651 1owfB 94 4.04e+01 a.55.1.1 87488 3cox 507 4.08e+01 1b8sA 2bkyX 89 4.09e+01 d.68.6.1 128717 1ash 150 4.11e+01 1ash 1vrmA 325 4.15e+01 d.96.2.1 120472 1jlvA 209 4.18e+01 a.45.1.1,c.47.1.5 71729,71730 1si2A 149 4.18e+01 b.34.14.1 105569 2cnqA 306 4.22e+01 d.143.1.1 130646 1uv7A 110 4.26e+01 d.67.4.1 100040 1uy4A 145 4.27e+01 b.18.1.10 108131 1h5wA 309 4.28e+01 e.27.1.1 65635 1js8A 394 4.29e+01 a.86.1.1,b.112.1.1 67219,67220 1g2rA 100 4.30e+01 1g2rA d.192.1.1 60231 1ojqA 212 4.32e+01 d.166.1.1 93146 2f0aA 98 4.33e+01 b.36.1.1 132661 1cqmA 101 4.39e+01 1ris d.58.14.1 39321 2fj6A 82 4.43e+01 a.60.15.1 133547 2a4dA 160 4.43e+01 d.20.1.1 126152 2fg9A 178 4.46e+01 b.45.1.1 133426 1b3tA 147 4.47e+01 1b3tA d.58.8.1 39228 2if1 126 4.50e+01 2if1 1s6cA 183 4.50e+01 a.39.1.5 98594 1d8hA 311 4.52e+01 1d8iA d.63.1.1 39544 1sseB 86 4.54e+01 2a8eA 220 4.55e+01 d.296.1.1 126397 1ueoA 63 4.56e+01 j.107.1.1 99269 1nnxA 109 4.57e+01 b.40.10.1 92013 1zupA 315 4.59e+01 c.55.3.11 125681 2trcP 217 4.62e+01 1b9yC c.47.1.6 33051 1ebfA 358 4.68e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1sc6A 404 4.71e+01 c.2.1.4,c.23.12.1,d.58.18.1 118932,118933,118934 1ryp1 222 4.77e+01 1ryp1 1xkpA 246 4.86e+01 a.243.1.3 122086 2d3jA 157 4.88e+01 1svdM 110 4.90e+01 d.73.1.1 119059 1ohtA 215 4.91e+01 d.118.1.1 87036 1k0eA 453 5.02e+01 d.161.1.1 67938 1zxkA 98 5.05e+01 1wchA 315 5.05e+01 c.45.1.2 114508 2gr8A 99 5.06e+01 d.24.1.4 135522 1sgvA 316 5.08e+01 b.122.1.1,d.265.1.2 98858,98859 1gps 47 5.08e+01 1gpt 1yn3A 98 5.10e+01 1yfbA 59 5.11e+01 b.129.1.3 123057 1x6oA 174 5.19e+01 b.34.5.2,b.40.4.5 109493,109494 1t98A 287 5.20e+01 a.4.5.65,a.47.6.1 119196,119197 1d2vA 104 5.24e+01 1d2vA a.93.1.2 18697 2g64A 140 5.26e+01 d.96.1.2 134694 1b77A 228 5.27e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1zd8A 227 5.31e+01 1u07A 90 5.33e+01 d.212.1.2 112902 1umgA 362 5.36e+01 d.280.1.1 107956 1m4uA 206 5.36e+01 g.17.1.7 78625 1c8cA 64 5.37e+01 1azpA b.34.13.1 59084 1vlaA 150 5.37e+01 d.227.1.2 108735 1dkzA 219 5.38e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1tzyC 136 5.40e+01 a.22.1.1 107532 1adr 76 5.41e+01 1r69 1zdnA 158 5.42e+01 d.20.1.1 124943 1bkb 136 5.43e+01 1bkb 1lq9A 112 5.50e+01 d.58.4.3 78129 1b3aA 67 5.51e+01 1b3aA d.9.1.1 37410 1xg0B 67 5.54e+01 d.184.1.1 115274 1j3mA 129 5.56e+01 d.129.7.1 103836 2gujA 155 5.56e+01 1khiA 176 5.57e+01 b.34.5.2,b.40.4.5 77408,77409 1pufA 77 5.58e+01 a.4.1.1 95131 1udxA 416 5.59e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1d4tA 104 5.60e+01 1d4tA d.93.1.1 40537 1k2xA 177 5.63e+01 d.153.1.5 90929 1jjvA 206 5.65e+01 c.37.1.1 71698 1ywyA 74 5.68e+01 b.55.2.1 124166 2a1vA 144 5.70e+01 d.198.3.1 126019 2a2lA 145 5.74e+01 d.110.9.1 126035 1nwzA 125 5.74e+01 d.110.3.1 86370 1txlA 215 5.75e+01 b.60.1.4 107429 2ak3A 226 5.75e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1ihoA 283 5.77e+01 1ihoA c.26.1.4 62390 1q7fA 286 5.77e+01 b.68.9.1 96036 1bob 320 5.77e+01 1bob 1gk8I 140 5.77e+01 d.73.1.1 65242 1v7bA 185 5.80e+01 a.4.1.9,a.121.1.1 119861,119862 1yj7A 171 5.82e+01 2gnqA 336 5.82e+01 1oo0A 147 5.82e+01 d.232.1.1 87182 1vclA 432 5.85e+01 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8.30e+01 1a15A d.9.1.1 37449 1sflA 238 8.30e+01 c.1.10.1 112077 2f8mA 244 8.36e+01 1v60A 123 8.38e+01 1u9yA 284 8.44e+01 c.61.1.2,c.61.1.2 119655,119656 1xhdA 173 8.50e+01 b.81.1.5 115295 2awpA 198 8.52e+01 1m1nB 522 8.52e+01 c.92.2.3 78418 1ov9A 50 8.62e+01 a.155.1.1 93591 1j3wA 163 8.64e+01 d.110.7.1 90833 1xi7A 61 8.65e+01 g.3.6.5 115348 1ek0A 170 8.72e+01 1ctqA c.37.1.8 32076 2ccmA 191 8.81e+01 1r1mA 164 8.83e+01 d.79.7.1 96820 1wdjA 187 8.84e+01 c.52.1.27 114536 1yx1A 264 8.91e+01 c.1.15.7 124169 1xniA 118 8.93e+01 b.34.9.1,b.34.9.1 115582,115583 1dhkB 223 8.99e+01 1led b.29.1.1 24157