# List of top-scoring protein chains for t2k-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.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 1wolA 122 3.26e-16 1ufbA 127 5.31e-13 a.24.16.3 99331 1o3uA 135 3.46e-11 a.24.16.3 86615 1na3A 91 3.19e-01 k.38.1.1 85481 1a17 166 3.39e-01 1a17 a.118.8.1 19206 1ac5 483 1.62e+00 1ac5 c.69.1.5 34653 1i60A 278 1.62e+00 c.1.15.4 71118 2evrA 246 1.62e+00 1j9bA 141 1.63e+00 c.47.1.12 66459 1s3cA 141 1.84e+00 1u5dA 108 2.33e+00 1gs5A 258 2.60e+00 c.73.1.2 70395 1aj5A 173 2.67e+00 1alvA a.39.1.8 17367 1c3cA 429 3.05e+00 1c3cA a.127.1.1 19425 2avpA 70 3.86e+00 1gtxA 472 4.58e+00 1gtxA 1alvA 173 4.84e+00 1alvA a.39.1.8 17370 2avdA 219 4.96e+00 1yn9A 169 4.97e+00 1np8A 159 5.44e+00 a.39.1.8 92022 1zv1A 65 5.44e+00 1ohvA 472 5.75e+00 c.67.1.4 93031 2ag5A 246 6.73e+00 1gl2B 65 7.78e+00 h.1.15.1 65279 1usmA 80 7.92e+00 d.74.1.1 99876 1nhyA 219 8.37e+00 a.45.1.1,c.47.1.5 80520,80521 1fjgP 88 8.53e+00 1emwA d.27.1.1 38444 1w9yA 319 8.68e+00 1s0pA 176 8.96e+00 a.192.1.1 98300 1x42A 232 8.97e+00 1x1zA 252 9.24e+00 1e2aA 105 9.47e+00 1e2aA a.7.2.1 16322 1uasA 362 9.68e+00 b.71.1.1,c.1.8.1 88388,88389 1xq8A 140 9.86e+00 1dd5A 185 9.87e+00 1dd5A d.67.3.1 39564 1f60A 458 1.02e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2e2aA 105 1.04e+01 a.7.2.1 88499 1kblA 873 1.07e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1vizA 240 1.10e+01 c.1.4.1 100784 1wwpA 119 1.17e+01 1v3wA 173 1.20e+01 b.81.1.5 100291 1go3F 107 1.20e+01 a.60.8.2 65407 1is1A 185 1.22e+01 d.67.3.1 83704 1dvjA 246 1.23e+01 1dvjA c.1.2.3 28546 1n5dA 288 1.27e+01 c.2.1.2 80030 1km4A 247 1.28e+01 c.1.2.3 72740 1kamA 194 1.31e+01 c.26.1.3 72254 1j57A 143 1.32e+01 d.221.1.1 77079 1r2rA 248 1.41e+01 c.1.1.1 96875 1lqtA 456 1.45e+01 c.3.1.1,c.4.1.1 74198,74199 1sznA 417 1.48e+01 b.71.1.1,c.1.8.1 106162,106163 1elwA 118 1.48e+01 1a17 a.118.8.1 19207 1n7sB 68 1.52e+01 h.1.15.1 80272 1hu4A 288 1.53e+01 1hu4A 1ttzA 87 1.57e+01 c.47.1.1 107309 1yviA 149 1.59e+01 1wr2A 238 1.60e+01 1dvjC 246 1.62e+01 1dvjA c.1.2.3 28548 2b4zA 104 1.62e+01 1vpqA 273 1.78e+01 1cd9C 175 1.84e+01 1bgc a.26.1.1 16816 1jthB 77 1.85e+01 h.1.15.1 67271 2fh5A 185 1.86e+01 1jj2D 176 1.89e+01 1ffkD d.77.1.1 63088 1q60A 99 1.98e+01 1wjgA 137 1.99e+01 1wn0A 145 2.07e+01 3grx 82 2.08e+01 1aba c.47.1.1 32769 1tzvA 142 2.10e+01 a.79.1.1 107526 1hvvA 75 2.13e+01 1hvvA h.1.15.1 45639 2fmlA 273 2.13e+01 2au3A 407 2.14e+01 1rkbA 173 2.18e+01 1zvzB 25 2.18e+01 2cybA 323 2.21e+01 2ftzA 284 2.21e+01 3thiA 371 2.25e+01 2thiA c.94.1.1 35792 1v5xA 203 2.28e+01 c.1.2.4 100377 1q0sA 259 2.28e+01 c.66.1.28 95509 1fjgT 106 2.30e+01 1fjfT a.7.6.1 16338 1k4tA 592 2.31e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1t6uA 117 2.32e+01 a.24.22.1 106584 1np6A 174 2.35e+01 c.37.1.10 85954 1aiu 105 2.38e+01 1erv c.47.1.1 32746 1senA 164 2.39e+01 c.47.1.1 105465 1j6wA 175 2.44e+01 1j98A d.185.1.2 62663 1womA 271 2.47e+01 1lqaA 346 2.51e+01 c.1.7.1 84674 1tph1 247 2.57e+01 1amk 1kk1A 410 2.57e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2b7kA 200 2.57e+01 1o63A 219 2.63e+01 c.94.1.1 92540 1qysA 106 2.64e+01 k.41.1.1 96603 2fvtA 135 2.73e+01 1ribA 375 2.77e+01 1xikA a.25.1.2 16788 1sjiA 350 2.78e+01 1ibvB 229 2.83e+01 1k1fA 72 2.83e+01 a.147.1.1 68007 1qhdA 398 2.93e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1xrhA 351 3.01e+01 2cfuA 658 3.04e+01 1c1gD 284 3.06e+01 1c1gA h.1.5.1 45576 1m6jA 261 3.07e+01 c.1.1.1 78693 1c1gA 284 3.13e+01 1c1gA h.1.5.1 45573 1kfuS 184 3.20e+01 a.39.1.8 68574 1wm3A 72 3.22e+01 1b9pA 34 3.24e+01 1b9pA j.49.1.1 46328 1dmmA 131 3.25e+01 1opy d.17.4.3 38114 1avyA 74 3.27e+01 1avyB h.1.17.1 45656 1art 396 3.31e+01 1ajsA c.67.1.1 34285 1h1wA 289 3.33e+01 d.144.1.7 83460 1zybA 232 3.36e+01 1mxrA 375 3.49e+01 a.25.1.2 85197 2a6cA 83 3.55e+01 1c1gB 284 3.57e+01 1c1gB h.1.5.1 45574 1yc9A 442 3.61e+01 1mfqC 129 3.70e+01 a.36.1.1 79046 1u6mA 199 3.72e+01 1xpjA 126 3.75e+01 1erw 105 3.76e+01 1erv c.47.1.1 32745 1emwA 88 3.83e+01 1emwA d.27.1.1 38448 1focA 132 3.86e+01 1c52 a.3.1.1 15812 1z08A 170 3.87e+01 2c1xA 456 3.88e+01 1a8y 367 3.89e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 2cmwA 310 3.95e+01 1uu3A 310 3.98e+01 d.144.1.7 99999 1dn1B 267 3.98e+01 1dn1B a.47.2.1 17771 1ezvB 352 4.01e+01 1ezvB d.185.1.1,d.185.1.1 59543,59544 1akaA 401 4.02e+01 1ajsA c.67.1.1 34258 1k3sA 113 4.05e+01 d.198.1.1 68120 1jqcA 375 4.10e+01 1xikA a.25.1.2 63229 1oafA 261 4.11e+01 a.93.1.1 86734 1c1gC 284 4.17e+01 1c1gA h.1.5.1 45575 1ydwA 362 4.18e+01 1i45A 248 4.19e+01 1amk c.1.1.1 61665 1ryiA 382 4.23e+01 1k8kG 151 4.24e+01 a.118.13.1 68313 1xg7A 250 4.25e+01 2bsjA 133 4.29e+01 1erv 105 4.30e+01 1erv c.47.1.1 32743 1in0A 163 4.30e+01 d.58.49.1,d.58.49.1 83694,83695 1hzdA 272 4.31e+01 c.14.1.3 65969 1jvwA 167 4.32e+01 d.26.1.1 71907 2f9fA 177 4.37e+01 1kb9B 352 4.41e+01 d.185.1.1,d.185.1.1 77313,77314 2a2mA 258 4.44e+01 2crbA 97 4.45e+01 1sflA 238 4.50e+01 1oshA 232 4.51e+01 a.123.1.1 93496 1d7mA 101 4.57e+01 1d7mA h.1.10.1 45628 1biqA 375 4.67e+01 1xikA a.25.1.2 16786 1fewA 184 4.67e+01 1fewA a.7.4.1 16334 1opy 131 4.71e+01 1opy d.17.4.3 38113 1anv 356 4.86e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1xiyA 182 4.86e+01 1dv5A 80 4.87e+01 1dv5A a.28.1.3 59139 2a2oA 258 4.88e+01 2thiA 379 4.88e+01 2thiA c.94.1.1 35794 1ufoA 238 5.06e+01 c.69.1.27 99344 1spa 396 5.09e+01 1ajsA c.67.1.1 34291 1mldA 314 5.15e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1wd6A 123 5.17e+01 1pqzA 238 5.24e+01 b.1.1.2,d.19.1.1 104297,104298 1b4cA 92 5.33e+01 1b4cA a.39.1.2 17169 1ecfB 504 5.40e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 1dik 874 5.45e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2bhoA 130 5.48e+01 1aiaA 396 5.51e+01 1ajsA c.67.1.1 34306 1fsiA 189 5.52e+01 1fsiA d.61.1.1 39536 2f8xM 63 5.55e+01 1pyaB 228 5.58e+01 1pyaB 1k78A 149 5.60e+01 a.4.1.5,a.4.1.5 68255,68256 1o12A 376 5.63e+01 b.92.1.5,c.1.9.10 80758,80759 1v9dA 340 5.66e+01 a.207.1.1 100535 1ru3A 732 5.67e+01 e.26.1.3 97835 1hxmD 242 5.72e+01 b.1.1.1,b.1.1.2 61373,61374 1x9zA 188 5.78e+01 1qqfA 277 5.79e+01 1c3d a.102.4.4 18875 1wwuA 99 5.79e+01 1wq3A 322 5.82e+01 1cec 343 5.96e+01 1ceo c.1.8.3 28809 1wmaA 276 5.99e+01 1sfcB 83 6.04e+01 1sfcB h.1.15.1 45644 1xlyA 234 6.05e+01 2h03A 291 6.06e+01 1wcrA 103 6.15e+01 1agp 166 6.15e+01 1ctqA c.37.1.8 31985 2gaiA 633 6.22e+01 1w85A 368 6.26e+01 1t0tV 248 6.29e+01 d.58.4.10 106229 1yf3A 259 6.32e+01 1ea2A 131 6.33e+01 d.17.4.3 64860 1ceo 343 6.37e+01 1ceo c.1.8.3 28808 2awdA 323 6.38e+01 1f8aB 167 6.40e+01 1pinA b.72.1.1,d.26.1.1 27803,38432 2ex5A 207 6.40e+01 1fm4A 159 6.43e+01 1bv1 d.129.3.1 76186 2frvB 536 6.45e+01 1h2rL e.18.1.1 43291 1vp7A 100 6.68e+01 1nni1 174 6.69e+01 1i5pA 633 6.71e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1wt4A 73 6.76e+01 1x6vA 630 6.78e+01 1c02A 166 6.83e+01 1qspA a.24.10.2 16633 1g0sA 209 6.84e+01 1g0sA d.113.1.1 60187 2f02A 323 6.85e+01 1zavA 180 6.87e+01 1u5pA 216 6.88e+01 1ub3A 220 6.95e+01 c.1.10.1 88395 2bzoB 79 6.98e+01 2ghcX 261 7.00e+01 1n2aA 201 7.05e+01 a.45.1.1,c.47.1.5 91553,91554 1f4kA 122 7.11e+01 1bm9A a.4.5.7 59646 1wa3A 205 7.11e+01 1k8uA 90 7.11e+01 a.39.1.2 72181 2cxaA 256 7.16e+01 1ez3A 127 7.17e+01 1dn1B a.47.2.1 17768 1n7oA 721 7.17e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1xikA 375 7.21e+01 1xikA a.25.1.2 16784 5cytR 104 7.22e+01 1ycc a.3.1.1 15878 1g0hA 252 7.29e+01 1dk4A e.7.1.1 60171 1ukvY 206 7.30e+01 c.37.1.8 107918 1fhuA 320 7.37e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1yb3A 175 7.40e+01 1xewY 172 7.44e+01 1ireB 228 7.46e+01 b.34.4.4 76770 1wy1A 172 7.47e+01 1vk8A 106 7.49e+01 d.58.48.1 108636 7timA 247 7.49e+01 1amk c.1.1.1 28457 1c52 131 7.51e+01 1c52 a.3.1.1 15810 1cb7B 483 7.54e+01 1cb7B c.1.19.2 29648 1vlwA 217 7.57e+01 c.1.10.1 108868 2gyqA 175 7.60e+01 1ugpB 226 7.63e+01 b.34.4.4 107832 1ysmA 77 7.65e+01 1jf8A 131 7.66e+01 c.44.1.1 66621 1ecfA 504 7.66e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ky3A 182 7.68e+01 c.37.1.8 73193 1h10A 125 7.73e+01 b.55.1.1 83446 1gy8A 397 7.74e+01 c.2.1.2 83376 1x79B 112 7.74e+01 1d4oA 184 7.78e+01 1d4oA c.31.1.4 31748 1ig8A 486 7.78e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1a03A 90 7.78e+01 4icb a.39.1.2 17157 1ecxA 384 7.79e+01 1ecxA c.67.1.3 34431 1mek 120 7.88e+01 1erv c.47.1.2 32775 1unqA 125 7.89e+01 b.55.1.1 107968 1jfvA 131 7.89e+01 c.44.1.1 66654 1f89A 291 7.92e+01 d.160.1.1 64988 2bzgA 232 7.95e+01 2b0tA 738 7.97e+01 2hc1A 291 8.02e+01 2c5kT 95 8.08e+01 1sauA 115 8.14e+01 1sdwA 314 8.18e+01 b.121.1.2,b.121.1.2 98810,98811 1qb2A 109 8.22e+01 1qb2A a.36.1.1 17125 1qamA 244 8.23e+01 2ercA c.66.1.24 34220 1xkgA 312 8.25e+01 1jb9A 316 8.27e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1ccwB 483 8.36e+01 1cb7B c.1.19.2 29646 1adt 356 8.39e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 2cq2A 114 8.41e+01 1fuiA 591 8.42e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1om2A 95 8.42e+01 1om2A a.23.4.1 16520 1qc7A 101 8.42e+01 1qc7A a.118.14.1 18456 1yb2A 275 8.43e+01 1sr2A 116 8.45e+01 1sl8A 191 8.48e+01 1jagA 241 8.50e+01 c.37.1.1 66463 1neyA 247 8.56e+01 c.1.1.1 80449 1ctqA 166 8.56e+01 1ctqA c.37.1.8 31965 1jj7A 260 8.68e+01 c.37.1.12 63114 1fpzA 212 8.69e+01 1fpzA c.45.1.1 59976 1mvoA 136 8.73e+01 c.23.1.1 79513 2ashA 381 8.74e+01 1qs1A 462 8.75e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1azqA 66 8.76e+01 1azpA b.34.13.1 37469 1jh6A 189 8.78e+01 d.61.1.1 66707 1oh0A 131 8.78e+01 d.17.4.3 87004 1nz6A 101 8.80e+01 a.2.3.1 86441 2bshA 125 8.82e+01 1qspA 165 8.92e+01 1qspA a.24.10.2 16639 1v74A 107 8.96e+01 d.243.1.1 100442