# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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.soe.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 2pii 112 1.05e-21 2pii 2j9cA 119 3.11e-21 2eg2A 112 2.56e-20 2gw8A 114 5.91e-20 2ns1B 116 2.91e-19 3bzqA 114 4.46e-18 1vfjA 116 5.09e-18 d.58.5.1 113637 1gnkA 112 1.07e-17 2pii d.58.5.1 39073 2o66A 135 3.34e-17 1o51A 114 1.47e-05 d.58.5.4 92480 2dclA 127 1.91e-04 1t95A 240 1.22e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 3borA 237 1.36e+00 1vjqA 79 2.28e+00 k.43.1.1 100830 1vm7A 311 2.55e+00 c.72.1.1 108884 1p9qC 256 2.57e+00 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1pj5A 830 2.87e+00 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1xcbA 211 3.22e+00 a.4.5.38,c.2.1.12 109552,109553 2bm0A 691 3.64e+00 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 128748,128749,128750,128751,128752 1xg4A 295 4.00e+00 2nptB 100 4.41e+00 d.15.2.2 138449 2dejA 350 4.66e+00 2cz9A 350 4.90e+00 2dtjA 178 5.29e+00 1mp8A 281 5.55e+00 d.144.1.7 91384 2b9wA 424 5.71e+00 2dt9A 167 6.03e+00 2bkxA 242 6.34e+00 2g3mA 693 6.72e+00 2hfsA 332 7.02e+00 2z8pA 241 7.11e+00 2gagA 965 7.27e+00 1xqaA 113 7.32e+00 d.32.1.2 115837 1zrzA 364 7.84e+00 1kkhA 317 8.02e+00 d.14.1.5,d.58.26.3 72645,72646 2dt5A 211 8.10e+00 a.4.5.38,c.2.1.12 131708,131709 1wy7A 207 8.15e+00 c.66.1.32 121433 1hbnC 248 8.22e+00 1mroC d.58.31.1 60902 1mumA 295 8.27e+00 c.1.12.7 85108 1mroC 247 8.44e+00 1mroC d.58.31.1 39437 1nf2A 268 8.67e+00 c.108.1.10 91849 2ijmA 281 8.74e+00 2c60A 111 9.18e+00 d.15.2.2 129966 2js7A 160 9.57e+00 1pxgA 382 9.74e+00 c.1.20.1 95287 2bonA 332 9.96e+00 1zkcA 197 1.02e+01 b.62.1.1 125182 1zwyA 185 1.11e+01 c.51.4.3 125753 1jeoA 180 1.17e+01 c.80.1.3 66611 3bwgA 239 1.19e+01 1jffA 451 1.19e+01 c.32.1.1,d.79.2.1 62932,62933 2gphA 364 1.19e+01 1dar 691 1.20e+01 1dar 2dc1A 236 1.22e+01 2d59A 144 1.26e+01 c.2.1.8 131266 1tvoA 368 1.26e+01 1pud 386 1.26e+01 1pud 1bx1A 314 1.27e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 2cu1A 103 1.28e+01 d.15.2.2 130802 1yzhA 214 1.29e+01 c.66.1.53 124277 1rz1A 161 1.29e+01 b.45.1.2 98124 1jpaA 312 1.29e+01 d.144.1.7 67011 2fmpA 335 1.37e+01 a.60.6.1,a.60.12.1,d.218.1.2 133786,133787,133788 1fnc 314 1.38e+01 1fnc 3bgvA 313 1.42e+01 2h6dA 276 1.48e+01 1r5yA 386 1.48e+01 c.1.20.1 97134 1fndA 314 1.48e+01 b.43.4.2,c.25.1.1 25626,31516 1jg1A 235 1.51e+01 c.66.1.7 66661 1yb2A 275 1.52e+01 c.66.1.13 122868 2q8yA 241 1.52e+01 1so7A 382 1.57e+01 b.68.1.1 112106 1i2sA 282 1.59e+01 e.3.1.1 71104 1e3mA 800 1.59e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 2onfA 140 1.60e+01 2otnA 308 1.62e+01 1u7iA 136 1.64e+01 d.32.1.7 107724 2jsxA 95 1.65e+01 1y8cA 246 1.66e+01 c.66.1.43 116563 2i82A 217 1.67e+01 1y8qA 346 1.70e+01 1kr4A 125 1.73e+01 d.58.5.2 72889 1aop 497 1.78e+01 2aop 1aopA 497 1.78e+01 d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 2fg9A 178 1.80e+01 b.45.1.1 133426 1vlcA 366 1.80e+01 c.77.1.1 108743 3bfpA 194 1.82e+01 2p5mA 83 1.83e+01 1heiA 451 1.88e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1z9bA 135 1.89e+01 1vdhA 249 1.90e+01 d.58.4.10 108523 2ok3A 161 1.91e+01 1e6yC 247 1.94e+01 1mroC d.58.31.1 39441 2g30A 258 1.96e+01 b.1.10.1,d.105.1.1 134546,134547 2gb3A 409 1.99e+01 c.67.1.1 134903 2p7oA 133 2.00e+01 1sqgA 429 2.00e+01 a.79.1.3,c.66.1.38 105912,105913 1rhyA 202 2.09e+01 d.14.1.9,d.14.1.9 97491,97492 1nh8A 304 2.15e+01 c.94.1.1,d.58.5.3 80507,80508 1tv9A 335 2.18e+01 a.60.6.1,a.60.12.1,d.218.1.2 112675,112676,112677 1pt7A 437 2.22e+01 c.123.1.1 95093 1nvtA 287 2.22e+01 c.2.1.7,c.58.1.5 86270,86271 1u14A 172 2.23e+01 c.51.4.3 107579 1tvkA 440 2.26e+01 c.32.1.1,d.79.2.1 107362,107363 1wvfA 520 2.40e+01 d.58.32.1,d.145.1.1 121337,121338 2ej9A 237 2.46e+01 2raqA 97 2.48e+01 2ig8A 144 2.50e+01 1wyuA 438 2.51e+01 c.67.1.7 121452 1bpyA 335 2.51e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 1em8A 147 2.52e+01 c.128.1.1 90457 1gzsB 165 2.54e+01 a.168.1.1 76425 1sj1A 66 2.55e+01 d.58.1.4 105595 2d42A 249 2.56e+01 3bioA 304 2.57e+01 1ckiA 317 2.67e+01 1csn d.144.1.7 41660 1xxlA 239 2.74e+01 c.66.1.41 116203 2ckfB 174 2.74e+01 1mb4A 370 2.76e+01 c.2.1.3,d.81.1.1 78908,78909 1e42A 258 2.80e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 2hoeA 380 2.81e+01 a.4.5.63,c.55.1.10,c.55.1.10 136639,136640,136641 1rl6A 177 2.93e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 2ri0A 234 2.97e+01 1r8sA 164 2.99e+01 c.37.1.8 97247 1hurA 180 3.10e+01 1hurA c.37.1.8 32052 3cbuA 214 3.14e+01 1o3yA 166 3.16e+01 c.37.1.8 86618 2cpgA 45 3.18e+01 2cpgA a.43.1.3 17455 1vfsA 386 3.23e+01 b.49.2.2,c.1.6.1 108584,108585 2yu1A 451 3.23e+01 1rypJ 204 3.24e+01 d.153.1.4 41878 2pe8A 105 3.28e+01 2pebA 122 3.29e+01 1zpwX 90 3.35e+01 d.58.58.1 125478 2nuhA 118 3.36e+01 2daxA 152 3.41e+01 1w2iA 91 3.43e+01 d.58.10.1 109127 1ylxA 103 3.45e+01 d.82.5.1 123677 1xfxA 777 3.46e+01 1bsgA 266 3.47e+01 e.3.1.1 42729 1kaeA 434 3.56e+01 c.82.1.2 72247 2drhA 361 3.56e+01 2a35A 215 3.61e+01 c.2.1.2 126072 2iqhA 499 3.63e+01 1ufoA 238 3.64e+01 c.69.1.27 99344 1um0A 365 3.65e+01 d.258.1.1 107942 2apqA 139 3.76e+01 2i7rA 118 3.81e+01 d.32.1.2 137102 1pyaA 81 3.88e+01 1pyaA d.155.1.1 42026 1xfuA 747 3.88e+01 1fp2A 352 3.97e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1vzoA 355 3.98e+01 d.144.1.7 108971 2zfdA 226 4.03e+01 1khdA 345 4.03e+01 a.46.2.1,c.27.1.1 77400,77401 1k75A 434 4.04e+01 c.82.1.2 68253 2nrkA 173 4.06e+01 1f75A 249 4.06e+01 1f75A c.101.1.1 59662 2gbwB 174 4.16e+01 1wlsA 328 4.17e+01 1srvA 145 4.17e+01 1derA c.8.5.1 30817 2ex0A 399 4.20e+01 c.87.1.9 132494 2ghpA 292 4.25e+01 d.58.7.1,d.58.7.1,d.58.7.1 135184,135185,135186 2cw6A 298 4.27e+01 1q7eA 428 4.29e+01 c.123.1.1 96035 1y88A 199 4.31e+01 a.60.4.3,c.52.1.30 116560,116561 2elcA 329 4.35e+01 2npoA 207 4.41e+01 1yb3A 175 4.43e+01 d.296.1.2 122869 1vpkA 378 4.44e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 2abqA 306 4.46e+01 c.72.1.1 126528 2iksA 293 4.50e+01 2hnhA 910 4.56e+01 2rb9A 334 4.65e+01 1ss4A 153 4.66e+01 d.32.1.6 105976 1zsqA 528 4.66e+01 b.55.1.8,c.45.1.3 125616,125617 2depA 356 4.69e+01 2eenA 183 4.74e+01 2b6hA 192 4.82e+01 c.37.1.8 127994 1nv8A 284 4.85e+01 c.66.1.30 86224 2o5aA 125 4.95e+01 1lehA 364 4.98e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1r94A 118 5.00e+01 b.124.1.1 97251 1u0kA 288 5.05e+01 d.21.1.2,d.21.1.2 107547,107548 2ys1A 113 5.08e+01 1l5xA 280 5.09e+01 c.106.1.1 77718 1l3iA 192 5.13e+01 c.66.1.22 77676 2k29A 53 5.17e+01 1lw3A 657 5.19e+01 b.55.1.8,c.45.1.3 91152,91153 3csvA 333 5.24e+01 2uubJ 105 5.25e+01 d.58.15.1 139941 2tnfA 156 5.28e+01 2tnfA b.22.1.1 23880 1oxkB 134 5.29e+01 c.23.1.1 93691 1qh5A 260 5.29e+01 1qh5A d.157.1.2 42057 1lfpA 249 5.32e+01 e.39.1.1 73885 1j27A 102 5.39e+01 d.58.50.1 90778 1kzfA 230 5.54e+01 d.108.1.3 73354 1bg6 359 5.55e+01 1bg6 1bg6A 359 5.55e+01 a.100.1.5,c.2.1.6 18810,30214 2qeaA 160 5.58e+01 1zy4A 303 5.69e+01 1qzzA 374 5.72e+01 a.4.5.29,c.66.1.12 96719,96720 1cghA 224 5.82e+01 1a7s b.47.1.2 26290 1tw3A 360 5.83e+01 a.4.5.29,c.66.1.12 107373,107374 2ppqA 322 5.90e+01 1uwkA 557 5.91e+01 e.51.1.1 108065 1fs5A 266 5.96e+01 c.124.1.1 65044 1b77A 228 5.96e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1ysrA 150 5.99e+01 d.122.1.3 123981 2anyA 241 6.04e+01 1uhnA 189 6.04e+01 a.39.1.5 99399 2z0mA 337 6.09e+01 1zvkA 358 6.24e+01 2jgbA 195 6.30e+01 3c5oA 157 6.36e+01 3b6uA 372 6.37e+01 1oo0A 147 6.39e+01 d.232.1.1 87182 1m1nA 491 6.42e+01 c.92.2.3 78417 2yqzA 263 6.42e+01 1v37A 177 6.55e+01 c.60.1.1 113497 2o1sA 621 6.58e+01 1zysA 273 6.59e+01 2hbaA 52 6.59e+01 1q9uA 130 6.68e+01 d.129.7.1 96314 1tkiA 321 6.70e+01 1tkiA d.144.1.7 41638 2o3iA 405 6.71e+01 1btl 263 6.73e+01 1btl 1m40A 263 6.75e+01 e.3.1.1 74437 1ermA 263 6.80e+01 1btl e.3.1.1 42690 1ozhA 566 6.80e+01 c.31.1.3,c.36.1.5,c.36.1.9 93833,93834,93835 2ivmA 150 6.81e+01 1j3mA 129 6.83e+01 d.129.7.1 103836 1ur1A 378 6.83e+01 c.1.8.3 99804 1ejdA 419 6.85e+01 1uae d.68.2.2 39576 3chy 128 6.86e+01 3chy 1f35A 162 6.86e+01 1f35A b.94.1.1 59628 2fblA 153 6.98e+01 d.63.1.2 133249 1jbeA 128 7.00e+01 3chy c.23.1.1 62845 1yh2A 175 7.02e+01 d.20.1.1 123158 1ri7A 171 7.05e+01 a.4.5.32,d.58.4.2 97504,97505 2hpwA 233 7.05e+01 3bpuA 88 7.12e+01 1t0bA 252 7.13e+01 c.23.16.6 106199 1hh1A 143 7.14e+01 1gefA c.52.1.18 61036 1wn2A 121 7.20e+01 2r25B 133 7.23e+01 1brt 277 7.24e+01 1brt 1brtA 277 7.24e+01 c.69.1.12 34699 1gd8A 118 7.33e+01 d.188.1.1 60445 1u8tA 129 7.36e+01 c.23.1.1 113192 2furA 209 7.38e+01 b.45.1.1 134185 2f1fA 164 7.42e+01 d.58.18.6,d.58.18.6 132760,132761 1wvqA 167 7.44e+01 1bykA 255 7.51e+01 1bykA c.93.1.1 35706 2bjkA 516 7.53e+01 2qyvA 487 7.60e+01 2j9lA 185 7.75e+01 1v7rA 186 7.78e+01 c.51.4.1 100482 1wi6A 88 7.80e+01 d.58.7.1 120974 3bijA 285 7.89e+01 2p4qA 497 7.98e+01 2jepA 395 7.99e+01