# 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.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 2ap1A 327 8.78e-03 1g0uG 252 2.99e-02 d.153.1.4 41952 1rypA 243 6.02e-02 1pmaA d.153.1.4 41932 1gu7A 364 6.89e-01 b.35.1.2,c.2.1.1 83321,83322 1z5bA 469 8.43e-01 1o3yA 166 1.13e+00 c.37.1.8 86618 1fzqA 181 1.22e+00 1hurA c.37.1.8 32060 1u9aA 160 1.30e+00 1u9aA d.20.1.1 38333 1zd9A 188 1.34e+00 1yrvA 169 1.36e+00 1r8sA 164 1.47e+00 c.37.1.8 97247 1kshA 186 1.74e+00 c.37.1.8 72914 1rqlA 267 2.15e+00 c.108.1.3 97750 2grrA 161 2.33e+00 1wf9A 107 2.44e+00 1zoyC 140 2.51e+00 1pysA 350 2.52e+00 1pysA d.104.1.1 40775 1yg2A 179 2.85e+00 1ofgA 381 2.93e+00 1ofgA c.2.1.3,d.81.1.5 30064,39979 2fi9A 128 2.94e+00 1kr4A 125 3.09e+00 d.58.5.2 72889 1h6dA 433 3.13e+00 c.2.1.3,d.81.1.5 65656,65657 1jl5A 454 3.17e+00 c.10.2.6 66830 1r4aA 165 3.57e+00 c.37.1.8 96986 1fezA 256 3.69e+00 1fezA c.108.1.3 43343 1kvkA 395 4.06e+00 d.14.1.5,d.58.26.3 73060,73061 1b5pA 385 4.08e+00 c.67.1.1 90403 1xqaA 113 4.15e+00 1yirA 408 4.30e+00 2a3qA 170 4.79e+00 1b7yA 350 5.42e+00 1pysA d.104.1.1 40776 1ufiA 64 5.51e+00 a.30.4.1 99336 2h88C 140 5.51e+00 1nepA 130 5.63e+00 b.1.18.7 80440 1bjwA 382 5.69e+00 1bjwA c.67.1.1 34349 1nrjA 158 5.76e+00 d.110.4.4 86124 1exrA 148 5.86e+00 1cll a.39.1.5 17299 1swvA 267 6.26e+00 2a5dA 175 6.34e+00 2fjlA 150 6.50e+00 1h2kA 349 7.75e+00 b.82.2.6 76572 1fseA 74 8.06e+00 1fseA a.4.6.2 60000 1wzvA 155 8.06e+00 1jy2O 56 8.15e+00 h.1.8.1 67441 1z8uA 102 8.30e+00 2ahqA 76 8.49e+00 1uqvA 85 8.64e+00 a.60.1.2 99798 2b6hA 192 8.88e+00 2fbwC 141 9.07e+00 1uptA 171 9.42e+00 c.37.1.8 99767 1innA 166 1.00e+01 1j98A d.185.1.2 62608 1vjeA 166 1.00e+01 d.185.1.2 100807 1jsdA 319 1.05e+01 b.19.1.2 63258 1f20A 435 1.08e+01 b.43.4.1,c.25.1.4 64932,64933 1eqfA 280 1.08e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1r85A 379 1.09e+01 c.1.8.3 104839 1ymmA 191 1.14e+01 2a5lA 200 1.17e+01 1gd8A 118 1.18e+01 d.188.1.1 60445 1bbpA 173 1.21e+01 1bbpA b.60.1.1 27147 2b20A 403 1.21e+01 1d9cA 121 1.26e+01 1d9cA a.26.1.3 16901 1wp5A 323 1.31e+01 1w77A 228 1.31e+01 1ajsA 412 1.33e+01 1ajsA c.67.1.1 34276 1w0bA 102 1.35e+01 a.7.11.1 108985 2bpsA 81 1.45e+01 1wijA 140 1.46e+01 1u2eA 289 1.49e+01 1zwwA 256 1.55e+01 1ujwB 135 1.57e+01 h.4.9.1 99472 1a8y 367 1.58e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1l9hA 349 1.61e+01 f.13.1.2 73720 1lkkA 105 1.63e+01 1lckA d.93.1.1 40412 1z6uA 150 1.64e+01 1jj2L 194 1.68e+01 1ffkI d.12.1.2 63097 1u19A 349 1.70e+01 1o04A 500 1.74e+01 c.82.1.1 86508 1td6A 306 1.86e+01 1kxoA 184 1.88e+01 b.60.1.1 84475 1cuk 203 1.92e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1uujA 88 1.98e+01 a.221.1.1 108046 2aegA 268 2.09e+01 1wl9A 440 2.20e+01 2bwvA 440 2.20e+01 1az9 457 2.22e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1wxcB 134 2.24e+01 2c0rA 362 2.29e+01 1gg3A 279 2.30e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1go4A 205 2.32e+01 d.135.1.1 70292 2bydA 323 2.35e+01 1wad 112 2.35e+01 3cyr a.138.1.1 19658 1u1zA 168 2.36e+01 d.38.1.6 107602 1sxjE 354 2.36e+01 a.80.1.1,c.37.1.20 106089,106090 1w3uA 362 2.40e+01 2f46A 156 2.41e+01 1wg8A 285 2.42e+01 1uzcA 71 2.45e+01 a.159.2.1 100222 1sg7A 96 2.49e+01 2bjkA 516 2.51e+01 1akz 223 2.52e+01 3eugA c.18.1.1 31007 1z21A 112 2.57e+01 1lre 81 2.57e+01 1lre a.13.1.1 16376 1r0pA 312 2.68e+01 d.144.1.7 96734 1mr3F 181 2.68e+01 c.37.1.8 79422 1rrmA 386 2.69e+01 e.22.1.2 105081 2gl5A 410 2.78e+01 1sziA 247 2.78e+01 a.24.23.1 106159 1o26A 232 2.84e+01 d.207.1.1 86566 2gkpA 167 2.91e+01 1jggA 60 2.94e+01 2hddA a.4.1.1 62950 2fa8A 105 2.99e+01 1tllA 688 2.99e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1w9yA 319 3.01e+01 1miuA 738 3.03e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1q18A 332 3.04e+01 c.55.1.7,c.55.1.7 104470,104471 2bwfA 77 3.12e+01 1hzxA 349 3.20e+01 1f88A f.13.1.2 61466 1h4pA 408 3.21e+01 c.1.8.3 90617 1uptC 170 3.26e+01 c.37.1.8 99769 1xawA 140 3.28e+01 1s1qA 145 3.30e+01 d.20.1.2 98351 1xttA 216 3.34e+01 1ufzA 83 3.36e+01 a.5.9.1 107821 1v5sA 126 3.39e+01 d.129.6.1 108384 1rdfA 267 3.42e+01 c.108.1.3 104884 1qnrA 344 3.43e+01 1qnoA c.1.8.3 28834 1ggzA 148 3.46e+01 a.39.1.5 70176 1eyzA 392 3.46e+01 1ez1A b.84.2.1,c.30.1.1,d.142.1.2 28246,31653,41498 2c43A 323 3.47e+01 1re9A 414 3.48e+01 1ygmA 118 3.50e+01 1ov2A 99 3.54e+01 a.13.1.1 93580 1ytw 306 3.56e+01 1ytw c.45.1.2 32689 1mu5A 471 3.56e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1eqcA 394 3.60e+01 1cz1A c.1.8.3 28811 1sk4A 163 3.61e+01 d.118.1.1 105664 1lyvA 306 3.70e+01 c.45.1.2 74348 1d9uA 154 3.74e+01 1am7A d.2.1.4 59111 1sz2A 332 3.80e+01 1lox 662 3.83e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1fi2A 201 3.90e+01 1fi2A b.82.1.2 59845 1uzbA 516 3.95e+01 c.82.1.1 100220 1a17 166 3.99e+01 1a17 a.118.8.1 19206 1wmhA 89 4.01e+01 1wgxA 73 4.04e+01 1p5zB 263 4.07e+01 c.37.1.1 87815 1shuX 182 4.13e+01 c.62.1.1 98882 1o5iA 249 4.13e+01 c.2.1.2 92499 1w4tA 299 4.35e+01 2ajrA 331 4.42e+01 1vkkA 154 4.52e+01 d.109.1.2 108669 1g03A 134 4.53e+01 1qrjB a.73.1.1 60162 1jchA 551 4.55e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 2bycA 137 4.63e+01 1zfpE 98 4.64e+01 1griA d.93.1.1 40465 2ddrA 306 4.70e+01 2bogX 286 4.72e+01 1ls6A 295 4.73e+01 c.37.1.5 91115 2f3yA 148 4.81e+01 2acvA 463 4.84e+01 1xsjA 778 4.86e+01 2f2hA 773 4.92e+01 1zb1A 392 4.94e+01 1w23A 360 4.99e+01 1kl1A 419 5.03e+01 c.67.1.4 72663 1k1fA 72 5.16e+01 a.147.1.1 68007 2db9A 149 5.21e+01 1yzgA 179 5.21e+01 1ztpA 251 5.22e+01 1qmqA 414 5.22e+01 1phd a.104.1.1 18907 2fupA 168 5.24e+01 1dz4A 414 5.29e+01 1phd a.104.1.1 18903 1u7kA 131 5.40e+01 1a8d 452 5.55e+01 1a8d b.29.1.6,b.42.4.2 24262,25607 1eu8A 409 5.56e+01 1eu8A c.94.1.1 59502 1wpaA 114 5.57e+01 1w15A 153 5.65e+01 b.7.1.2 109041 1mlwA 301 5.79e+01 d.178.1.1 79289 1ayaA 101 5.85e+01 1qadA d.93.1.1 40460 1z02A 446 5.97e+01 1qksA 567 6.02e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1onwA 390 6.07e+01 b.92.1.7,c.1.9.13 87172,87173 1w6sB 74 6.09e+01 1qqgA 264 6.12e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 1qsdA 106 6.12e+01 1qsdA a.7.5.1 16335 1uvqA 197 6.14e+01 b.1.1.2,d.19.1.1 100062,100063 1ei7A 158 6.14e+01 1rmvA a.24.5.1 16584 2et1A 201 6.17e+01 1q2hA 69 6.26e+01 a.34.4.1 104498 1lyxA 248 6.28e+01 c.1.1.1 78304 1ax8 146 6.29e+01 1ax8 a.26.1.1 16844 2a2pA 129 6.29e+01 1t0iA 191 6.30e+01 c.23.5.4 106209 1eg3A 261 6.36e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1yx1A 264 6.41e+01 1uyrA 737 6.48e+01 c.14.1.4,c.14.1.4 100188,100189 2cglA 489 6.48e+01 1zvdA 380 6.51e+01 1z08A 170 6.52e+01 1stzA 338 6.55e+01 a.4.5.51,d.110.2.3 106009,106010 1u69A 163 6.63e+01 d.32.1.7 107699 1o5kA 306 6.67e+01 c.1.10.1 92504 1vjgA 218 6.71e+01 c.23.10.6 100810 1yrcA 414 6.78e+01 1fjgP 88 6.79e+01 1emwA d.27.1.1 38444 2bidA 197 6.81e+01 2bidA f.1.4.1 43398 2ffsA 157 6.82e+01 1yovA 537 6.91e+01 2aobA 99 6.92e+01 1o5xA 248 6.92e+01 c.1.1.1 92528 1nqzA 194 6.93e+01 d.113.1.1 86077 2dfkA 402 6.94e+01 1c4xA 285 7.01e+01 1c4xA c.69.1.10 34684 1q1vA 70 7.07e+01 a.159.4.1 104479 1fjrA 195 7.11e+01 1fjrA b.102.1.1 59855 1p5fA 189 7.13e+01 c.23.16.2 94142 1r1qA 100 7.21e+01 d.93.1.1 104763 1pzlA 237 7.23e+01 a.123.1.1 104393 1gvfA 286 7.26e+01 c.1.10.2 70599 1xkrA 206 7.37e+01 1ukxA 137 7.50e+01 d.20.1.3 107919 1am7A 158 7.50e+01 1am7A d.2.1.4 36981 1p8xA 344 7.53e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2avdA 219 7.58e+01 1kllA 130 7.58e+01 d.32.1.2 72720 1yjsA 419 7.60e+01 1g4yR 148 7.69e+01 1cll a.39.1.5 60252 1vd2A 89 7.73e+01 d.15.2.2 108517 1ail 73 7.74e+01 1ail a.16.1.1 16381 1pwxA 254 7.80e+01 c.2.1.2 95262 1dat 174 7.85e+01 2fha a.25.1.1 16677 2fh1A 344 7.88e+01 7aatA 401 7.94e+01 1ajsA c.67.1.1 34250 1mtyD 512 7.95e+01 1mhyD a.25.1.2 16742 1zmtA 254 7.95e+01 1gqeA 365 7.99e+01 e.38.1.1 70351 1ul7A 102 8.01e+01 d.129.6.1 99540 1sxrA 183 8.03e+01 d.118.1.1 106101 3nul 130 8.10e+01 3nul d.110.1.1 40891 1tn4 159 8.14e+01 1ncx a.39.1.5 17248 1deeG 54 8.16e+01 1fc2C a.8.1.1 16343 1f3z 161 8.21e+01 1gpr b.84.3.1 28273 1vmiA 355 8.30e+01 1wpiA 133 8.44e+01 1rm4A 337 8.44e+01 c.2.1.3,d.81.1.1 105000,105001 1qgtA 149 8.67e+01 1qgtA a.62.1.1 18135 2glzA 153 8.76e+01 1go4E 100 8.86e+01 h.1.22.1 70296 1s62A 106 8.95e+01 2ffeA 311 8.97e+01 1sjiA 350 8.97e+01