# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 2g2uB 165 3.29e-14 d.98.1.1 134541 1jtgB 165 4.69e-14 d.98.1.1 67267 1h6vA 499 1.04e-02 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2h36X 112 1.05e-01 2iorA 235 2.70e-01 1j7jA 178 3.80e-01 c.61.1.1 84131 1gq6A 313 7.74e-01 c.42.1.1 70341 1p9qC 256 7.83e-01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 2joyA 96 8.64e-01 1b72B 87 8.72e-01 1akhA a.4.1.1 16001 1pufB 73 8.78e-01 a.4.1.1 95132 2gu3A 136 8.97e-01 1t95A 240 9.89e-01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2fikA 287 1.28e+00 b.1.1.2,d.19.1.1 133524,133525 2bkkA 264 1.43e+00 2yvyA 278 1.45e+00 1vz0A 230 1.96e+00 a.4.14.1,d.268.1.1 108929,108930 2eqaA 352 2.04e+00 1knwA 425 2.15e+00 b.49.2.3,c.1.6.1 90969,90970 1jhdA 396 2.16e+00 b.122.1.3,c.26.1.5 66712,66713 1hruA 188 2.46e+00 1hruA d.115.1.1 40926 2akrA 285 2.47e+00 b.1.1.2,d.19.1.1 126931,126932 1br1B 150 2.70e+00 1wdcC a.39.1.5 17309 1jofA 365 2.80e+00 b.69.10.1 71775 2nvmA 126 2.95e+00 d.326.1.1 138631 1vzyA 291 2.96e+00 d.193.1.1,g.81.1.1 114042,114043 1fxlA 167 3.10e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 2pfsA 150 3.11e+00 1hbzA 498 3.30e+00 1cf9A e.5.1.1 60937 1j7lA 264 3.31e+00 d.144.1.6 62697 1a0rP 245 3.41e+00 1b9yC c.47.1.6 33054 1msk 331 3.57e+00 1msk 2p10A 286 3.68e+00 2v6oA 596 3.80e+00 2b5aA 77 4.10e+00 a.35.1.3 127882 2c0dA 221 4.23e+00 1mx0A 472 4.31e+00 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1w78A 422 4.42e+00 2dekA 265 4.60e+00 c.90.1.1 131430 1wh8A 111 4.64e+00 a.35.1.7 114636 1w7jB 151 4.90e+00 a.39.1.5 120690 1gweA 503 5.14e+00 e.5.1.1 70667 1vlaA 150 5.21e+00 d.227.1.2 108735 2z6rA 265 5.29e+00 1mskA 331 5.62e+00 d.173.1.1 42495 2fueA 262 5.71e+00 c.108.1.10 134119 1ush 550 5.98e+00 1ush 1wdvA 152 6.02e+00 d.116.1.1 114539 2hzcA 87 6.13e+00 2pebA 122 6.38e+00 1qlwA 328 6.43e+00 1qlwA c.69.1.15 34722 2dumA 170 6.49e+00 2iskA 230 6.62e+00 1oeyA 83 6.62e+00 d.15.2.2 92800 1mvwC 147 6.65e+00 i.15.1.1 79525 2trcP 217 6.84e+00 1b9yC c.47.1.6 33051 1mu5A 471 7.07e+00 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1imjA 210 7.27e+00 c.69.1.23 71246 1vkmA 297 7.28e+00 c.138.1.1 108670 1vl2A 421 7.38e+00 c.26.2.1,d.210.1.1 108708,108709 2p3hA 101 7.65e+00 1ztcA 221 7.88e+00 d.157.1.11 125635 2dhqA 146 8.08e+00 2dhqA c.23.13.1 31382 1io7A 368 8.32e+00 1f4tA a.104.1.1 18971 1g0oA 283 8.56e+00 1ybvA c.2.1.2 60181 2va8A 715 8.62e+00 2i0xA 85 9.07e+00 2madH 373 9.34e+00 2bbkH b.69.2.1 27639 2amyA 246 9.37e+00 c.108.1.10 127026 1whzA 70 9.43e+00 d.50.3.2 114656 2gfaA 119 9.75e+00 b.34.9.1,b.34.9.1 135089,135090 1lmb3 92 1.01e+01 1lmb3 1zkiA 133 1.01e+01 d.38.1.5 125199 2j7tA 302 1.02e+01 1gqvA 135 1.03e+01 d.5.1.1 70376 1hp1A 516 1.03e+01 d.114.1.1,d.159.1.2 70976,70977 2hkjA 469 1.05e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 1a4pA 96 1.06e+01 1b4cA a.39.1.2 17176 2zhgA 154 1.09e+01 1mgtA 174 1.10e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1kjwA 295 1.10e+01 b.34.2.1,c.37.1.1 68643,68644 1v5sA 126 1.14e+01 d.129.6.1 108384 1aj8A 371 1.16e+01 1aj8A a.103.1.1 18900 1a99A 344 1.16e+01 1pot c.94.1.1 35812 1ucrA 78 1.18e+01 a.4.5.45 99188 2i10A 202 1.22e+01 a.4.1.9,a.121.1.1 136960,136961 1gvjA 146 1.31e+01 a.4.5.21 90525 1rzmA 338 1.34e+01 c.1.10.4 105137 1l3kA 196 1.37e+01 d.58.7.1,d.58.7.1 73539,73540 1nogA 177 1.41e+01 a.25.2.2 85923 2bszA 278 1.42e+01 d.3.1.5 129131 1ha1 184 1.42e+01 1ha1 1vr6A 350 1.42e+01 c.1.10.4 120439 1mzbA 136 1.43e+01 a.4.5.42 91497 1r6jA 82 1.46e+01 b.36.1.1 97151 2qr7A 342 1.47e+01 2r2iA 198 1.48e+01 2j5aA 110 1.50e+01 2f9dA 125 1.50e+01 d.58.7.1 133159 1mpgA 282 1.50e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1b8aA 438 1.52e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1y81A 138 1.53e+01 c.2.1.8 122731 1b8iB 63 1.54e+01 1akhA a.4.1.1 16011 3cgxA 242 1.55e+01 1c3pA 375 1.63e+01 1c3pA c.42.1.2 32606 2vc4A 267 1.72e+01 1h05A 146 1.73e+01 c.23.13.1 76433 2e50A 225 1.73e+01 1j2rA 199 1.78e+01 c.33.1.3 90788 1oqcA 125 1.79e+01 a.24.15.1 87264 2ejeA 114 1.82e+01 2gqpA 236 1.85e+01 d.122.1.1 135513 2o8xA 70 1.88e+01 2obdA 476 1.89e+01 1oheA 348 1.89e+01 c.45.1.1,c.45.1.1 87013,87014 1dqnA 230 1.97e+01 1dqnA c.61.1.1 34067 1oohA 126 2.00e+01 a.39.2.1 93383 1q3eA 207 2.04e+01 b.82.3.2 95669 1iugA 352 2.09e+01 c.67.1.3 90699 2e9qA 459 2.10e+01 1q1vA 70 2.11e+01 a.159.4.1 104479 1wzcA 249 2.12e+01 c.108.1.10 121491 1t9iA 163 2.13e+01 d.95.2.1 112360 1e0cA 271 2.15e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 2j3mA 572 2.16e+01 2pjoA 268 2.19e+01 1b9xC 246 2.20e+01 1b9yC c.47.1.6 33053 1sfeA 180 2.24e+01 a.4.2.1,c.55.7.1 16073,33748 2coiA 386 2.31e+01 1r9jA 673 2.31e+01 c.36.1.6,c.36.1.10,c.48.1.1 111722,111723,111724 6mhtA 327 2.32e+01 6mhtA c.66.1.26 34226 2r9zA 463 2.37e+01 2phcB 225 2.38e+01 1jpdX 324 2.43e+01 c.1.11.2,d.54.1.1 67014,67015 1fm0E 150 2.47e+01 1fmaE d.41.5.1 38629 2bf5A 98 2.52e+01 d.137.1.1 128405 1yifA 533 2.55e+01 b.29.1.23,b.67.2.1 123283,123284 1g9zA 152 2.58e+01 1bp7A d.95.2.1 60408 2hxtA 441 2.58e+01 1jhgA 101 2.63e+01 1jhgA a.4.12.1 19009 1tv8A 340 2.67e+01 c.1.28.3 107352 2hyjA 200 2.67e+01 1e2tA 284 2.68e+01 1e2tA d.3.1.5 37121 2g0wA 296 2.73e+01 c.1.15.4 134503 2hl7A 84 2.77e+01 2qe6A 274 2.79e+01 2fb2A 340 2.82e+01 1u07A 90 2.88e+01 d.212.1.2 112902 2hh8A 149 2.90e+01 3bpzA 202 2.91e+01 2dbnA 461 2.94e+01 1dqpA 230 2.99e+01 1dqnA c.61.1.1 34069 1jk3A 158 3.04e+01 d.92.1.11 66790 3b4dA 96 3.06e+01 1r69 69 3.06e+01 1r69 1r69A 69 3.06e+01 a.35.1.2 17028 2id3A 225 3.09e+01 a.4.1.9,a.121.1.1 137261,137262 2qolA 376 3.12e+01 2ihyA 279 3.20e+01 1r6uA 437 3.21e+01 c.26.1.1 97163 2brqA 97 3.23e+01 b.1.18.10 129008 1jkoC 52 3.26e+01 a.4.1.2 66809 1w6nA 134 3.27e+01 b.29.1.3 114275 2ip2A 334 3.28e+01 1u2fA 90 3.30e+01 1u2fA d.58.7.1 39168 1mjhA 162 3.31e+01 1mjhA c.26.2.4 31639 2bjfA 329 3.32e+01 1hh2P 344 3.38e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 2pigA 334 3.39e+01 1rzsA 61 3.41e+01 a.35.1.2 105139 2c60A 111 3.41e+01 d.15.2.2 129966 1uasA 362 3.54e+01 b.71.1.1,c.1.8.1 88388,88389 2psbA 320 3.63e+01 3bcgA 215 3.63e+01 2an9A 207 3.70e+01 c.37.1.1 127037 2hkuA 215 3.72e+01 1grx 85 3.72e+01 1kte 1prxA 224 3.75e+01 1prxA c.47.1.10 33076 1x2gA 337 3.75e+01 1yumA 242 3.77e+01 1gesA 450 3.87e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 3cerA 343 3.87e+01 1d7qA 143 3.91e+01 1d7qA b.40.4.5 25331 1l0iA 78 3.95e+01 a.28.1.1 77643 1hfc 169 3.98e+01 1hfc 3bqpA 80 4.00e+01 1jenA 267 4.11e+01 1jenA 1kcbA 340 4.11e+01 b.6.1.3,b.6.1.3 90951,90952 2jz2A 66 4.13e+01 3colA 196 4.14e+01 2g7sA 194 4.14e+01 a.4.1.9,a.121.1.1 134737,134738 2optA 234 4.24e+01 2qqrA 118 4.24e+01 1l3lA 234 4.31e+01 a.4.6.2,d.110.5.1 73541,73542 1yi8A 351 4.32e+01 1c44A 123 4.32e+01 1qndA d.106.1.1 40795 1e6cA 173 4.33e+01 1shkA c.37.1.2 59296 1idpA 172 4.36e+01 d.17.4.1 83685 2z5lA 511 4.36e+01 1yeyA 444 4.36e+01 c.1.11.2,d.54.1.1 116664,116665 2hdvA 111 4.37e+01 1nif 340 4.39e+01 1nif 2z0tA 109 4.40e+01 2izpA 303 4.45e+01 a.250.1.1 137826 2q7nA 488 4.47e+01 3c4sA 66 4.50e+01 1xzoA 174 4.53e+01 c.47.1.10 122474 2z2mA 168 4.56e+01 2vjvA 159 4.58e+01 1f42A 306 4.62e+01 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 2c9wA 169 4.62e+01 1t6t1 118 4.62e+01 2h27A 73 4.67e+01 a.4.13.2 135993 1wr8A 231 4.74e+01 c.108.1.10 114836 2g50A 530 4.75e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1hfcA 169 4.78e+01 d.92.1.11 40335 1plqA 258 4.79e+01 d.131.1.2,d.131.1.2 41388,41389 1qntA 176 4.81e+01 1sfe a.4.2.1,c.55.7.1 16074,33749 2o0mA 345 4.83e+01 1s6lA 212 4.83e+01 2a9dA 372 4.83e+01 b.1.18.6,d.176.1.1 126431,126432 1pbyB 337 4.87e+01 b.69.2.2 94422 1zdsA 336 4.89e+01 b.6.1.3,b.6.1.3 124952,124953 2bceA 585 4.92e+01 c.69.1.1 34625 2zc3A 168 4.92e+01 1yb3A 175 5.01e+01 d.296.1.2 122869 2a6mA 155 5.02e+01 d.58.57.1 126287 1fp1D 372 5.06e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 2jejA 358 5.08e+01 d.240.1.1,e.8.1.7 138284,138285 3c1mA 473 5.09e+01 1ugiA 84 5.09e+01 1ugiA d.17.5.1 38125 2bw4A 340 5.12e+01 b.6.1.3,b.6.1.3 129320,129321 1zkeA 83 5.12e+01 a.30.6.1 125186 2g29A 417 5.15e+01 2c7pA 327 5.15e+01 c.66.1.26 130080 1xewX 182 5.21e+01 c.37.1.12 115235 2glfA 450 5.22e+01 2d13A 227 5.23e+01 c.26.2.1 131121 2igsA 219 5.23e+01 2nlvA 112 5.25e+01 d.326.1.1 138362 2bce 581 5.26e+01 2bce 1ogqA 313 5.30e+01 c.10.2.8 86996 2ehsA 77 5.31e+01 1plq 258 5.39e+01 1plq 2ab5A 269 5.42e+01 1vyiA 112 5.42e+01 d.293.1.1 114032 3nul 130 5.43e+01 3nul 1t8kA 77 5.46e+01 a.28.1.1 106666 1rb9 53 5.52e+01 1rb9 2gbaA 105 5.54e+01 1rb9A 52 5.56e+01 g.41.5.1 45214 2i0kA 561 5.60e+01 2f9cA 334 5.61e+01 b.81.1.7 133158 1ao5A 237 5.63e+01 5ptp b.47.1.2 26334 2hy5C 102 5.64e+01 c.114.1.2 136867 1wznA 252 5.64e+01 c.66.1.43 121525 1z08A 170 5.67e+01 c.37.1.8 124303 1a3aA 148 5.67e+01 1a3aA d.112.1.1 40917 3nulA 130 5.70e+01 d.110.1.1 40891 1j1jA 240 5.73e+01 a.118.16.1 90762 1eh6A 207 5.73e+01 1sfe a.4.2.1,c.55.7.1 16076,33751 1i0dA 332 5.78e+01 1pscA c.1.9.3 61487 1v4pA 157 5.85e+01 d.67.1.2 113533 1nox 205 5.86e+01 1nox 1noxA 205 5.86e+01 d.90.1.1 40242 2eigA 234 5.88e+01 1z00B 84 5.92e+01 a.60.2.5 124295 2hd1A 326 5.98e+01 a.211.1.2 136338 1zuhA 168 6.03e+01 2oqkA 117 6.03e+01 2ob3A 330 6.04e+01 1whxA 111 6.09e+01 d.58.7.1 114654 1squA 155 6.15e+01 d.252.1.1 98971 2onsA 314 6.19e+01 2iwxA 214 6.20e+01 d.122.1.1 137758 2jw5A 106 6.22e+01 2o2kA 355 6.24e+01 2c2aA 258 6.26e+01 a.30.2.1,d.122.1.3 129662,129663 2o70A 174 6.26e+01 2p1mA 163 6.26e+01 1xg2B 153 6.27e+01 1sjdA 368 6.31e+01 c.1.11.2,d.54.1.1 105632,105633 1m15A 357 6.32e+01 a.83.1.1,d.128.1.2 78368,78369 1o08A 221 6.34e+01 c.108.1.6 86525 1e3oC 160 6.34e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 2j0nA 200 6.35e+01 a.250.1.1 137899 1mi3A 322 6.36e+01 c.1.7.1 91274 2r0yA 311 6.41e+01 1i6xA 209 6.42e+01 a.4.5.4,b.82.3.2 83673,83674 1yoeA 322 6.44e+01 1igwA 434 6.45e+01 c.1.12.7 62370 1ok8A 394 6.53e+01 b.1.18.4,f.10.1.1 93236,93237 1tuhA 156 6.59e+01 d.17.4.11 107345 2ie7A 318 6.63e+01 a.65.1.1 137293 1p8kZ 254 6.64e+01 d.95.2.1,d.95.2.1 94361,94362 2scpA 174 6.70e+01 2scpA a.39.1.5 17256 2sasA 185 6.76e+01 a.39.1.5 17258 1lm7A 248 6.78e+01 d.211.2.1 74031 1wijA 140 6.82e+01 a.140.5.1 114674 1n6zA 105 6.83e+01 d.263.1.1 85369 2sas 185 6.88e+01 2sas 2qvkA 192 6.93e+01 2gx9A 129 7.05e+01 d.299.1.1 135828 1y8cA 246 7.06e+01 c.66.1.43 116563 2g17A 337 7.08e+01 c.2.1.3,d.81.1.1 134512,134513 2amwA 83 7.10e+01 2gu1A 361 7.12e+01 1js8A 394 7.22e+01 a.86.1.1,b.112.1.1 67219,67220 2a6cA 83 7.27e+01 a.35.1.13 126236 1yb2A 275 7.38e+01 c.66.1.13 122868 2yzhA 171 7.39e+01 1jx4A 352 7.39e+01 d.240.1.1,e.8.1.7 90378,90379 1fmb 104 7.40e+01 1fmb 1fmbA 104 7.41e+01 b.50.1.1 26777 2oziA 98 7.49e+01 2d2jA 329 7.54e+01 c.1.9.3 131175 1qy5A 269 7.55e+01 d.122.1.1 96573 3c86A 328 7.59e+01 1d3vA 323 7.59e+01 1d3vA c.42.1.1 32559 1ux6A 350 7.60e+01 b.29.1.16,g.75.1.1 100145,100146 1i9zA 347 7.72e+01 1i9yA d.151.1.2 62102 1vsd 152 7.74e+01 1cxqA 2nxbA 123 7.79e+01 2ot3A 274 7.81e+01 a.222.1.1 139311 1vhvA 268 7.81e+01 c.90.1.1 100704 1ad3A 452 7.88e+01 1ad3A c.82.1.1 35335 1odfA 290 7.91e+01 c.37.1.6 92782 1dmuA 299 7.93e+01 1dmuA c.52.1.4 33294 1ug3A 339 8.00e+01 a.118.1.14,a.118.1.14 119671,119672