# List of top-scoring protein chains for t06-100-30-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.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 2cg4A 152 1.89e-22 2cfxA 144 1.58e-20 1sfxA 109 3.24e-06 a.4.5.50 105505 2a61A 145 1.53e-05 1ulyA 192 2.37e-04 2fbiA 142 3.99e-04 2csbA 519 5.52e-04 1ub9A 100 6.96e-04 a.4.5.28 99159 2g7uA 257 1.35e-03 2fbhA 146 1.94e-03 1je8A 82 2.02e-03 a.4.6.2 77108 1lj9A 144 2.24e-03 a.4.5.28 78035 2b0lA 102 2.47e-03 1z91A 147 3.69e-03 1u2wA 122 3.70e-03 1p4xA 250 4.88e-03 a.4.5.28,a.4.5.28 87784,87785 1r1tA 122 5.16e-03 a.4.5.5 104769 1mkmA 249 5.98e-03 a.4.5.33,d.110.2.2 79242,79243 1zljA 78 6.40e-03 1lnwA 147 8.79e-03 a.4.5.28 78104 1lvaA 258 1.08e-02 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1bia 321 1.29e-02 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1in6A 334 1.62e-02 1hqcA a.4.5.11,c.37.1.20 62601,62602 1xd7A 145 1.88e-02 a.4.5.55 109566 1on2A 142 2.00e-02 a.4.5.24,a.76.1.1 87103,87104 2fxaA 207 2.03e-02 1hw5A 210 2.05e-02 2cgpA a.4.5.4,b.82.3.2 16098,28137 1in4A 334 2.16e-02 1hqcA a.4.5.11,c.37.1.20 62597,62598 1jgsA 138 2.31e-02 a.4.5.28 66683 1jhfA 202 2.32e-02 a.4.5.2,b.87.1.1 63057,63058 1sd4A 126 4.48e-02 a.4.5.39 105428 1y0uA 96 5.01e-02 2ethA 154 7.26e-02 1k78A 149 8.04e-02 a.4.1.5,a.4.1.5 68255,68256 1j75A 67 9.05e-02 a.4.5.19 62673 1qbjA 81 1.11e-01 1qbjA a.4.5.19 16155 1hw1A 239 1.25e-01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1zybA 232 1.27e-01 1aisB 200 1.50e-01 1aisB a.74.1.2,a.74.1.2 18384,18385 1fseA 74 1.80e-01 1fseA a.4.6.2 60000 1wi9A 72 2.09e-01 2fswA 107 2.40e-01 1r1uA 106 2.48e-01 a.4.5.5 104771 2cohA 202 2.49e-01 1hlvA 131 2.63e-01 a.4.1.7,a.4.1.7 65854,65855 1ufmA 84 3.36e-01 a.4.5.47 107816 1g2hA 61 3.61e-01 1g2hA a.4.1.12 60224 1uxtA 501 3.67e-01 c.82.1.1 108125 1j3mA 129 3.91e-01 d.129.7.1 103836 1xmkA 79 4.45e-01 1r7jA 95 4.82e-01 a.4.5.49 104836 1q2lA 939 5.50e-01 1xviA 275 6.69e-01 1bm9A 122 1.07e+00 1bm9A a.4.5.7 16116 1xsvA 113 1.23e+00 1rr7A 129 1.36e+00 a.4.1.14 105075 2f2eA 146 1.38e+00 1ixcA 294 1.62e+00 a.4.5.37,c.94.1.1 83764,83765 1t56A 216 1.67e+00 a.4.1.9,a.121.1.1 106428,106429 1s6lA 212 1.85e+00 2fu4A 83 1.87e+00 2a6cA 83 1.99e+00 1jhgA 101 2.05e+00 1jhgA a.4.12.1 19009 1qzzA 374 2.17e+00 a.4.5.29,c.66.1.12 96719,96720 2ab5A 269 2.18e+00 1mai 131 2.41e+00 1mai b.55.1.1 26951 1or7A 194 2.42e+00 a.4.13.2,a.177.1.1 87332,87333 1rkqA 282 2.54e+00 c.108.1.10 97621 1o54A 277 2.83e+00 c.66.1.13 92482 1jayA 212 2.95e+00 c.2.1.6 66478 1mgtA 174 3.12e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 1ne2A 200 3.27e+00 c.66.1.32 85586 1tbxA 99 3.75e+00 a.4.5.48 106748 2b9eA 303 3.83e+00 1pufB 73 3.90e+00 a.4.1.1 95132 1z7uA 112 3.93e+00 1stzA 338 3.94e+00 a.4.5.51,d.110.2.3 106009,106010 1u8bA 133 4.01e+00 2bj7A 138 4.10e+00 1utxA 66 4.18e+00 a.35.1.3 108034 1umqA 81 4.41e+00 a.4.1.12 99625 1gvdA 52 4.44e+00 a.4.1.3 83338 1qipA 183 4.75e+00 1qipA d.32.1.1 38470 1fipA 98 5.02e+00 1fipA a.4.1.12 18980 1m32A 366 5.22e+00 c.67.1.3 78508 2cujA 108 5.30e+00 1jh6A 189 5.33e+00 d.61.1.1 66707 2c5uA 375 5.85e+00 1us0A 316 5.91e+00 c.1.7.1 99850 2ae6A 166 6.07e+00 2afwA 329 6.66e+00 1uj6A 227 6.74e+00 c.124.1.4,d.58.40.1 107898,107899 2fokA 579 6.78e+00 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1i7dA 659 7.30e+00 1d6mA e.10.1.1 61886 2gmqA 118 7.46e+00 2ao9A 155 7.90e+00 1xn7A 78 7.97e+00 2g7gA 213 8.23e+00 1p0hA 318 8.31e+00 d.108.1.1 93866 1shyB 551 8.46e+00 b.69.12.1,g.16.2.1 105565,105566 1zx4A 192 8.52e+00 1bl0A 129 8.54e+00 1d5yA a.4.1.8,a.4.1.8 16053,16054 1r69 69 8.86e+00 1r69 a.35.1.2 17028 2esnA 310 9.01e+00 1q79A 514 9.07e+00 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1tc3C 51 9.23e+00 1tc3C a.4.1.2 16025 1xgsA 295 9.23e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1vk1A 242 9.32e+00 d.268.1.2 108634 1hqz1 141 9.52e+00 1jggA 60 9.67e+00 2hddA a.4.1.1 62950 1jc4A 148 9.77e+00 1jc4A d.32.1.4 62863 1z1dA 103 1.01e+01 1jd1A 129 1.01e+01 1qu9A d.79.1.1 62890 1fnnA 389 1.04e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1yb2A 275 1.05e+01 1xuuA 349 1.05e+01 1b0nA 111 1.05e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1zarA 282 1.25e+01 2abqA 306 1.27e+01 1wa3A 205 1.28e+01 2fq4A 192 1.28e+01 1u04A 771 1.28e+01 b.34.14.1,c.55.3.10 107539,107540 1kxoA 184 1.29e+01 b.60.1.1 84475 1zh5A 195 1.32e+01 2aj0A 71 1.33e+01 2cro 71 1.33e+01 1r69 a.35.1.2 17038 1kmqA 184 1.34e+01 c.37.1.8 84412 2bgcA 238 1.36e+01 1adr 76 1.37e+01 1r69 a.35.1.2 17042 1t0fA 276 1.39e+01 1dwkA 156 1.47e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1r71A 178 1.49e+01 a.4.14.1 104823 1neq 74 1.50e+01 1neq a.35.1.2 17063 2b5aA 77 1.50e+01 1fxlA 167 1.50e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1hr6A 475 1.51e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1sqeA 109 1.69e+01 d.58.4.5 105908 2gcfA 73 1.82e+01 1mi3A 322 1.86e+01 c.1.7.1 91274 1mtpA 323 1.86e+01 e.1.1.1 85107 2axoA 270 1.90e+01 1chuA 540 1.93e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 2bnmA 198 2.00e+01 2sga 181 2.00e+01 1qq4A b.47.1.1 25808 1k4nA 192 2.00e+01 d.32.1.5 72059 1y1pA 342 2.01e+01 1gnlA 544 2.03e+01 e.26.1.1 70287 1sqsA 242 2.08e+01 c.23.5.5 98968 1rloA 271 2.09e+01 1ozjA 144 2.09e+01 d.164.1.1 93846 1bjaA 95 2.12e+01 1bjaA a.4.5.9 16122 1res 43 2.14e+01 1ret a.4.1.2 16023 2c9wA 169 2.19e+01 1kqfB 294 2.20e+01 d.58.1.5,f.23.22.1 75900,75901 1gntA 553 2.21e+01 e.26.1.1 70290 1u0mA 382 2.23e+01 c.95.1.2,c.95.1.2 107557,107558 1rzsA 61 2.23e+01 a.35.1.2 105139 1js3A 486 2.24e+01 c.67.1.6 67215 1ym5A 300 2.26e+01 1u8sA 192 2.28e+01 d.58.18.5,d.58.18.5 107737,107738 1azo 232 2.32e+01 1azo c.52.1.14 33329 2c27A 315 2.36e+01 1abv 134 2.38e+01 1abv a.70.1.1 18317 2gefA 217 2.38e+01 1seiA 130 2.56e+01 1seiA d.140.1.1 41463 1oz9A 150 2.60e+01 d.92.1.15 93808 1ku3A 73 2.69e+01 a.4.13.2 73000 1rlmA 271 2.70e+01 1kfwA 435 2.79e+01 c.1.8.5,d.26.3.1 77376,77377 1fjlA 81 2.83e+01 2hddA a.4.1.1 16017 1o8bA 219 2.90e+01 c.124.1.4,d.58.40.1 81180,81181 1t95A 240 2.90e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1gxqA 106 2.90e+01 a.4.6.1 70721 1q1aA 289 2.92e+01 c.31.1.5 95561 1qfjA 232 2.94e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1akhA 61 3.01e+01 1akhA a.4.1.1 15980 1csn 298 3.01e+01 1csn d.144.1.7 41664 1qc7A 101 3.01e+01 1qc7A a.118.14.1 18456 1yc5A 246 3.05e+01 1kqpA 271 3.07e+01 c.26.2.1 72883 3pmgA 561 3.09e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1uekA 275 3.10e+01 d.14.1.5,d.58.26.5 88483,88484 1x89A 178 3.11e+01 2f06A 144 3.14e+01 1eyvA 156 3.14e+01 1eyvA a.79.1.1 18446 1mwqA 101 3.19e+01 d.58.4.7 91481 1zkcA 197 3.20e+01 1of8A 370 3.21e+01 c.1.10.4 92819 1gkpA 458 3.26e+01 b.92.1.3,c.1.9.6 70231,70232 1t0tV 248 3.37e+01 d.58.4.10 106229 1h5uA 842 3.38e+01 1a8i c.87.1.4 60655 1tk9A 188 3.40e+01 c.80.1.3 107082 1vqsA 116 3.40e+01 1neeA 138 3.41e+01 d.241.1.1,g.59.1.1 91841,91842 1zthA 258 3.46e+01 2czcA 334 3.49e+01 2guhA 214 3.53e+01 1zq9A 285 3.54e+01 1wa8B 95 3.65e+01 1j8fA 323 3.74e+01 1j8fA c.31.1.5 62738 5nul 138 3.74e+01 5nul c.23.5.1 31191 1lk5A 229 3.74e+01 c.124.1.4,d.58.40.1 73960,73961 1xubA 298 3.75e+01 1fexA 59 3.82e+01 a.4.1.3 59803 1qgoA 264 3.83e+01 1qgoA c.92.1.2 35596 1tkiA 321 3.84e+01 1tkiA d.144.1.7 41638 1omrA 201 3.87e+01 a.39.1.5 93349 2bgkA 278 3.92e+01 1r8hA 87 3.93e+01 d.58.8.1 97233 1ypfA 336 4.04e+01 2ftwA 521 4.07e+01 2f8mA 244 4.10e+01 2c5rA 67 4.19e+01 1ro2A 216 4.23e+01 d.264.1.2 97665 1ftrA 296 4.24e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1ta0A 197 4.25e+01 c.108.1.16 106729 1xyzA 347 4.26e+01 1taxA c.1.8.3 28804 1ecrA 309 4.28e+01 1ecrA e.2.1.1 42678 1sfuA 75 4.35e+01 a.4.5.19 105503 1oaoC 729 4.37e+01 e.26.1.3 86746 1ro0A 216 4.39e+01 d.264.1.2 97664 1onrA 316 4.41e+01 1onrA c.1.10.1 29169 2gauA 232 4.48e+01 1y74A 57 4.48e+01 1yt5A 258 4.52e+01 1fc3A 120 4.55e+01 1fc3A a.4.6.3 16237 1b3tA 147 4.62e+01 1b3tA d.58.8.1 39228 1p7tA 731 4.72e+01 c.1.13.1 94319 1tz0A 114 4.83e+01 d.58.4.5 107463 1t9iA 163 4.90e+01 1pmzA 86 4.94e+01 a.39.1.10 104195 1r9wA 145 4.95e+01 d.89.1.2 97264 1l7mA 211 4.96e+01 c.108.1.4 73664 2ffmA 91 4.96e+01 1wu7A 434 4.97e+01 1h1dA 221 5.00e+01 c.66.1.1 83452 1xi1A 575 5.02e+01 1mzbA 136 5.16e+01 a.4.5.42 91497 2pgd 482 5.17e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 2tct 207 5.17e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1rss 151 5.26e+01 1rss a.75.1.1 18392 1uarA 285 5.27e+01 c.46.1.2,c.46.1.2 107762,107763 2be4A 272 5.27e+01 1uz3A 102 5.27e+01 1heiA 451 5.29e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1hruA 188 5.38e+01 1hruA d.115.1.1 40926 1zhhB 242 5.43e+01 1yz4A 160 5.48e+01 2givA 295 5.49e+01 1gqaA 130 5.50e+01 a.24.3.2 76275 1lmb3 92 5.52e+01 1lmb3 2bjiA 277 5.55e+01 2cy2A 174 5.65e+01 1iujA 106 5.65e+01 d.58.4.5 90701 2etxA 209 5.71e+01 1t8tA 271 5.74e+01 c.37.1.5 106685 1naqA 112 5.77e+01 d.58.5.2 91761 1z0xA 220 5.78e+01 1mp8A 281 5.78e+01 d.144.1.7 91384 1y7yA 74 5.79e+01 1fy7A 278 5.82e+01 1fy7A d.108.1.1 40817 1ztpA 251 5.83e+01 1fxxA 482 5.89e+01 1fxxA c.55.3.5 33726 1xewX 182 5.90e+01 1zoiA 276 5.91e+01 1jkoC 52 5.96e+01 a.4.1.2 66809 1x1rA 178 5.97e+01 1a6jA 163 5.98e+01 1a6jA d.112.1.1 40915 1a32 88 6.12e+01 1a32 a.16.1.2 16384 1lopA 164 6.12e+01 2cpl b.62.1.1 27510 1u02A 239 6.15e+01 c.108.1.15 107538 1v2dA 381 6.16e+01 c.67.1.1 108281 1opc 110 6.21e+01 1opc a.4.6.1 16231 1vqtA 213 6.25e+01 2cxxA 190 6.26e+01 1j8uA 325 6.26e+01 d.178.1.1 71611 1gvhA 396 6.30e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2bs3C 256 6.33e+01 1r29A 127 6.34e+01 d.42.1.1 96856 2asfA 137 6.35e+01 1i1wA 303 6.35e+01 c.1.8.3 76732 2g3bA 208 6.35e+01 2ex3B 264 6.36e+01 1rfeA 162 6.45e+01 1v95A 130 6.46e+01 c.51.1.1 108435 1vmaA 306 6.49e+01 a.24.13.1,c.37.1.10 108887,108888 1j96A 323 6.59e+01 c.1.7.1 71616 1ppjA 446 6.59e+01 d.185.1.1,d.185.1.1 104252,104253 1fp2A 352 6.66e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1u9tA 354 6.69e+01 1e7uA 961 6.74e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1wrjA 156 6.82e+01 1zoxA 113 6.86e+01 1zs4A 83 6.92e+01 1yrtA 364 6.95e+01 1j7gA 144 6.96e+01 c.110.1.1 84130 1pmhX 185 6.97e+01 b.18.1.18 104193 2fkkA 206 7.02e+01 1nf3C 128 7.13e+01 b.36.1.1 85596 2c5lC 117 7.15e+01 1j5sA 463 7.16e+01 c.1.9.8 71580 2g7sA 194 7.18e+01 3pviA 157 7.20e+01 3pviA c.52.1.6 33300 1dxeA 256 7.20e+01 1dxeA c.1.12.5 29310 1ns5A 155 7.21e+01 c.116.1.3 80705 1a99A 344 7.23e+01 1pot c.94.1.1 35812 1jftA 340 7.26e+01 a.35.1.5,c.93.1.1 66652,66653 1vmbA 140 7.30e+01 1f0xA 571 7.30e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1lfpA 249 7.35e+01 e.39.1.1 73885 1d7uA 433 7.40e+01 2dkb c.67.1.4 34439 1m1hA 248 7.41e+01 b.114.1.1,d.58.42.1 78415,78416 1sq5A 308 7.47e+01 c.37.1.6 105882 1ohtA 215 7.47e+01 d.118.1.1 87036 1xu9A 286 7.58e+01 1v05A 96 7.60e+01 2if1 126 7.61e+01 2if1 d.64.1.1 39547 1cpcB 172 7.65e+01 1qgwC a.1.1.3 15644 1kgdA 180 7.66e+01 c.37.1.1 68582 1ad2 228 7.67e+01 1ad2 e.24.1.1 43353 1w9pA 433 7.75e+01 1whzA 70 7.84e+01 1d5yA 292 7.90e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1j1vA 94 7.93e+01 a.4.12.2 83981 1lj8A 493 8.09e+01 a.100.1.9,c.2.1.6 90392,90393 1np6A 174 8.13e+01 c.37.1.10 85954 2d0oA 610 8.13e+01 1ujnA 348 8.15e+01 e.22.1.1 99460 2ezh 75 8.16e+01 2ezh a.4.1.2 16029 1y66A 52 8.18e+01 1j5uA 136 8.19e+01 d.208.1.1 71584 2fytA 340 8.23e+01 1s1pA 331 8.35e+01 c.1.7.1 98350 2cw8A 537 8.39e+01 1hw6A 278 8.41e+01 1frb c.1.7.1 61296 1guuA 52 8.44e+01 a.4.1.3 83332 1o75A 415 8.46e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1z1lA 345 8.48e+01 2go8A 122 8.48e+01 1vi6A 208 8.51e+01 c.23.15.1 100736 1mw9X 592 8.55e+01 e.10.1.1 91480 1pufA 77 8.58e+01 a.4.1.1 95131 1dq3A 454 8.65e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1hy7A 173 8.66e+01 d.92.1.11 65957 1t4aA 84 8.67e+01 d.284.1.1 106404 1zcdA 388 8.67e+01 2arzA 247 8.70e+01 1sdoA 203 8.71e+01 c.52.1.21 98809 1yx1A 264 8.72e+01 1lq9A 112 8.76e+01 d.58.4.3 78129 2ftrA 108 8.79e+01 1fadA 99 8.83e+01 1fadA a.77.1.2 18428 2h21A 440 8.86e+01 1rkd 309 8.87e+01 1rkd c.72.1.1 34928 1dgnA 89 8.92e+01 1dgnA a.77.1.3 18436 1vkfA 188 8.96e+01 c.1.29.1 108656 1ymiA 334 8.99e+01