# 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 1mk4A 157 6.36e-03 d.108.1.1 84979 1ne9A 335 9.55e-03 d.108.1.4,d.108.1.4 91839,91840 1v93A 296 2.19e-02 c.1.23.1 100532 1sqhA 312 8.73e-02 d.108.1.5 98966 2aj6A 159 2.69e-01 2d4pA 141 3.58e-01 1z4eA 153 3.69e-01 1y1uA 585 5.74e-01 2fe7A 166 7.81e-01 2fp4B 395 1.11e+00 1u0mA 382 1.11e+00 c.95.1.2,c.95.1.2 107557,107558 1ho1A 242 1.67e+00 1ho1A c.1.24.1 61097 1tiqA 180 1.76e+00 d.108.1.1 107010 1dik 874 1.88e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1ru8A 232 1.90e+00 c.26.2.1 97849 1u9jA 358 2.13e+00 1maz 221 2.38e+00 1maz f.1.4.1 43393 1z7bA 358 2.47e+00 1vhsA 175 2.55e+00 d.108.1.1 100698 1s3zA 165 2.69e+00 d.108.1.1 105250 1uok 558 2.90e+00 1uok b.71.1.1,c.1.8.1 27801,28788 1od6A 160 3.19e+00 c.26.1.3 86836 1gw5S 142 3.32e+00 d.110.4.2 70633 1rj9A 304 3.36e+00 a.24.13.1,c.37.1.10 97553,97554 1qjcA 158 3.40e+00 1b6tA c.26.1.3 63328 1a53 247 3.45e+00 1a53 c.1.2.4 28564 1xqiA 195 3.48e+00 2ge3A 170 3.60e+00 1af3 196 3.78e+00 1maz f.1.4.1 43397 1m5wA 243 3.96e+00 c.1.24.1 84836 1eudB 396 4.00e+00 2scuB c.23.4.1,d.142.1.4 31150,41571 1kblA 873 4.06e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1zwwA 256 4.06e+00 1yvkA 163 4.14e+00 2cxaA 256 4.31e+00 1xtmA 175 4.33e+00 2bllA 345 4.38e+00 1xtlA 175 4.52e+00 1ha3A 405 4.64e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1s4iA 175 4.79e+00 2aeuA 374 4.81e+00 1y9kA 157 5.00e+00 1zbpA 273 5.23e+00 1k32A 1045 5.57e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1vqzA 341 5.61e+00 2fl4A 149 5.66e+00 1pq1A 196 5.70e+00 f.1.4.1 94986 1x8hA 228 5.72e+00 2c3zA 222 5.79e+00 1b0uA 262 5.80e+00 1b0uA c.37.1.12 32370 1x8gA 227 6.01e+00 1ad3A 452 6.18e+00 1ad3A c.82.1.1 35335 1u9iA 519 6.28e+00 1igs 248 6.45e+00 1a53 c.1.2.4 28565 1i1dA 161 6.57e+00 1i21A d.108.1.1 61526 1exqA 154 6.66e+00 1b9dA c.55.3.2 33646 2cy2A 174 6.82e+00 1n71A 180 6.85e+00 d.108.1.1 85370 1b87A 181 6.86e+00 1b87A d.108.1.1 40797 1tfuA 157 7.25e+00 c.26.1.3 106859 2bl1A 172 7.32e+00 1zbfA 142 7.41e+00 1yx1A 264 7.54e+00 1cjwA 166 8.30e+00 1cjwA d.108.1.1 40818 1zu4A 320 8.42e+00 1i12A 160 8.59e+00 1i21A d.108.1.1 61515 1je0A 236 8.63e+00 c.56.2.1 66581 2c71A 216 8.69e+00 2frnA 278 8.93e+00 1iicA 422 9.94e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1dkuA 317 1.07e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 2b67A 204 1.09e+01 1puiA 210 1.10e+01 c.37.1.8 88292 1ecpA 238 1.26e+01 1ecpA c.56.2.1 33775 1wnaA 131 1.30e+01 1yvoA 172 1.31e+01 1kpeA 126 1.32e+01 1kpf d.13.1.1 37508 1m65A 245 1.32e+01 c.6.3.1 84847 2a1hA 365 1.33e+01 1cfr 285 1.38e+01 1cfr c.52.1.7 33312 1ekfA 365 1.40e+01 1ekfA e.17.1.1 59445 2a4nA 182 1.43e+01 2ganA 190 1.58e+01 1lw7A 365 1.64e+01 c.26.1.3,c.37.1.1 74295,74296 1vk0A 206 1.64e+01 c.55.3.5 100839 1kpf 126 1.67e+01 1kpf d.13.1.1 37507 2bodX 286 1.67e+01 2f1rA 171 1.70e+01 1u9lA 70 1.75e+01 a.60.4.2 107751 1ktaA 365 1.76e+01 e.17.1.1 77533 1wdjA 187 1.76e+01 1p9qC 256 1.77e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 2b5gA 171 1.80e+01 1w0mA 226 1.85e+01 c.1.1.1 109027 1nu5A 370 1.85e+01 c.1.11.2,d.54.1.1 92183,92184 1k8kB 394 1.91e+01 c.55.1.1 68307 1jclA 260 2.00e+01 c.1.10.1 66501 1p1xA 260 2.01e+01 c.1.10.1 104060 1j6zA 376 2.02e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 7a3hA 303 2.08e+01 7a3hA c.1.8.3 28817 1q0sA 259 2.08e+01 c.66.1.28 95509 1wwzA 159 2.11e+01 1u46A 291 2.15e+01 d.144.1.7 107656 2gtrA 261 2.18e+01 1bo4A 168 2.19e+01 1bo4A d.108.1.1 40798 1z5bA 469 2.20e+01 1fxqA 267 2.35e+01 1d9eA c.1.10.4 60108 1ypxA 375 2.36e+01 1vypX 364 2.38e+01 c.1.4.1 108905 1exmA 405 2.42e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2c78A 405 2.42e+01 2fxuA 375 2.43e+01 1bykA 255 2.44e+01 1bykA c.93.1.1 35706 1v7rA 186 2.49e+01 c.51.4.1 100482 1ohlA 342 2.50e+01 c.1.10.3 87035 2reb 352 2.50e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1h7nA 342 2.51e+01 1b4kA c.1.10.3 60726 1z4rA 168 2.57e+01 1k9sA 237 2.64e+01 c.56.2.1 68359 1qz5A 375 2.65e+01 c.55.1.1,c.55.1.1 96614,96615 1vid 221 2.67e+01 1vid c.66.1.1 34178 1t6aA 126 2.68e+01 d.129.8.1 106555 1xp8A 366 2.70e+01 1yz7A 188 2.72e+01 1qo7A 394 2.80e+01 1qo7A c.69.1.11 34697 1vmeA 410 2.81e+01 c.23.5.1,d.157.1.3 108893,108894 1qf8A 182 2.84e+01 1qf8A g.41.4.1 45212 1bl3A 160 2.86e+01 1b9dA c.55.3.2 33655 1u94A 356 2.86e+01 c.37.1.11,d.48.1.1 107743,107744 2gs8A 317 2.87e+01 1fhuA 320 2.91e+01 1fhuA c.1.11.2,d.54.1.1 29234,38878 1ltqA 301 2.99e+01 c.108.1.9,c.37.1.1 78208,78209 1o8uA 257 3.01e+01 c.14.1.3 81194 1ad2 228 3.04e+01 1ad2 e.24.1.1 43353 1p0hA 318 3.07e+01 d.108.1.1 93866 1nvmB 312 3.12e+01 c.2.1.3,d.81.1.1 86251,86252 2a19A 175 3.12e+01 1hr6A 475 3.15e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2ge7A 108 3.16e+01 1szoA 257 3.21e+01 c.14.1.3 106164 3xis 387 3.22e+01 4xis c.1.15.3 29423 1b5tA 275 3.26e+01 1b5tA c.1.23.1 29676 1td5A 202 3.27e+01 d.110.2.2 106767 1h1dA 221 3.30e+01 c.66.1.1 83452 1y7pA 223 3.35e+01 1e3oC 160 3.38e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1wuaA 375 3.41e+01 1yz4A 160 3.46e+01 1jflA 228 3.47e+01 c.78.2.1,c.78.2.1 71656,71657 2ar0A 541 3.54e+01 1lvaA 258 3.55e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1mf7A 194 3.63e+01 c.62.1.1 84937 1kgdA 180 3.65e+01 c.37.1.1 68582 1vl2A 421 3.69e+01 c.26.2.1,d.210.1.1 108708,108709 1qwkA 317 3.71e+01 c.1.7.1 96482 2a5yB 549 3.71e+01 1o4wA 147 3.73e+01 c.120.1.1 86629 1pwhA 327 3.76e+01 c.79.1.1 95224 1y1nA 291 3.81e+01 1c4zA 358 3.86e+01 1c4zA d.148.1.1 41766 2dbyA 368 3.93e+01 1qlmA 316 3.95e+01 1qlmA d.147.1.1 41765 2abbA 364 3.98e+01 1muwA 386 4.12e+01 c.1.15.3 79495 1h61A 364 4.14e+01 1oyc c.1.4.1 60657 4xis 387 4.17e+01 4xis c.1.15.3 29421 1wz7A 111 4.18e+01 1zvdA 380 4.22e+01 1z41A 338 4.26e+01 1vliA 385 4.27e+01 b.85.1.1,c.1.10.6 108830,108831 1mldA 314 4.28e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1gz6A 319 4.31e+01 c.2.1.2 76410 1va6A 518 4.32e+01 1bia 321 4.37e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1atiA 505 4.38e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1jcxA 267 4.42e+01 c.1.10.4 66510 2ew8A 249 4.47e+01 1yemA 179 4.52e+01 2awdA 323 4.54e+01 1jljA 189 4.58e+01 c.57.1.1 63169 2rslA 140 4.59e+01 2rslA c.53.1.1 33345 1itg 166 4.63e+01 1b9dA c.55.3.2 33661 1t9hA 307 4.71e+01 1ihcA 188 4.73e+01 1di6A c.57.1.1 62379 1lu4A 136 4.77e+01 c.47.1.10 91124 1ve5A 311 4.88e+01 1ea5A 537 4.92e+01 2bce c.69.1.1 34592 1qwgA 251 4.94e+01 c.1.27.1 96473 1s99A 200 4.97e+01 1urjA 1136 4.98e+01 1px5A 349 4.99e+01 a.160.1.2,d.218.1.6 95277,95278 2a9kA 187 5.01e+01 1vsrA 136 5.03e+01 1vsrA c.52.1.15 33332 1sqiA 393 5.05e+01 d.32.1.3,d.32.1.3 105914,105915 1e8cA 498 5.07e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1pgvA 197 5.07e+01 c.10.1.1 88073 1np6A 174 5.08e+01 c.37.1.10 85954 1ujnA 348 5.09e+01 e.22.1.1 99460 1qstA 160 5.17e+01 1yghA d.108.1.1 40804 1t95A 240 5.22e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1l7dA 384 5.24e+01 c.2.1.4,c.23.12.2 77774,77775 1zu0A 529 5.25e+01 1usyA 275 5.25e+01 1nv8A 284 5.28e+01 c.66.1.30 86224 1lc5A 364 5.29e+01 c.67.1.1 73827 1w9gA 104 5.31e+01 1ubeA 349 5.31e+01 c.37.1.11,d.48.1.1 88412,88413 1v3vA 333 5.31e+01 b.35.1.2,c.2.1.1 108345,108346 1wfxA 186 5.33e+01 1fthA 122 5.38e+01 d.150.1.2 60028 1zceA 155 5.38e+01 2ab5A 269 5.42e+01 1auiB 169 5.54e+01 1auiB a.39.1.5 17325 1wpgA 994 5.54e+01 1s7jA 262 5.56e+01 d.21.1.2 98647 1s7hA 200 5.61e+01 d.58.48.2 105349 1mkp 144 5.63e+01 1vhrA c.45.1.1 32654 1hyvA 166 5.63e+01 1b9dA c.55.3.2 61424 1kcxA 518 5.67e+01 b.92.1.3,c.1.9.6 90953,90954 1tp9A 162 5.73e+01 1rdfA 267 5.84e+01 c.108.1.3 104884 1fwsA 267 5.88e+01 1d9eA c.1.10.4 60063 2abqA 306 5.90e+01 1aoa 275 5.94e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1e7uA 961 5.94e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1k3yA 221 5.98e+01 a.45.1.1,c.47.1.5 77245,77246 1eg5A 384 6.05e+01 1ecxA c.67.1.3 34429 1vg8A 207 6.07e+01 c.37.1.8 108606 1pvtA 238 6.09e+01 c.74.1.1 95189 1octC 156 6.10e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 2c27A 315 6.19e+01 1pdz 434 6.27e+01 4enl c.1.11.1,d.54.1.1 29215,38859 1e3jA 352 6.28e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1atlA 202 6.35e+01 1atlA d.92.1.9 40322 1pe1A 267 6.38e+01 c.1.10.4 94591 2f02A 323 6.40e+01 2bogX 286 6.41e+01 1y8oB 128 6.42e+01 1w8iA 156 6.47e+01 1ixcA 294 6.50e+01 a.4.5.37,c.94.1.1 83764,83765 1vdeA 454 6.52e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 2bgsA 344 6.52e+01 1ebfA 358 6.53e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1wo8A 126 6.58e+01 1ax4A 467 6.64e+01 1ax4A c.67.1.2 34391 1li5A 461 6.73e+01 a.27.1.1,c.26.1.1 73912,73913 1w4rA 195 6.78e+01 1gg3A 279 6.79e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1jpmA 366 6.83e+01 c.1.11.2,d.54.1.1 67031,67032 1xd8A 289 6.83e+01 1g4wR 383 6.87e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1h09A 338 6.89e+01 b.109.1.1,c.1.8.8 83420,83421 1t9iA 163 6.92e+01 1f28A 297 6.95e+01 1bkpA d.117.1.1 59608 1iazA 179 6.97e+01 1iazA b.97.1.1 62131 2bhuA 602 7.02e+01 1nw3A 416 7.02e+01 c.66.1.31 86288 2fi9A 128 7.18e+01 1oh0A 131 7.19e+01 d.17.4.3 87004 1cb8A 678 7.25e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1q35A 320 7.27e+01 c.94.1.1 95661 1swvA 267 7.29e+01 1al3 324 7.29e+01 1al3 c.94.1.1 35835 1cnv 299 7.30e+01 1cnv c.1.8.5 28989 1nf2A 268 7.31e+01 c.108.1.10 91849 1i2oA 316 7.32e+01 1onrA c.1.10.1 61574 1uqvA 85 7.34e+01 a.60.1.2 99798 1f8gA 384 7.34e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1wtyA 119 7.37e+01 1tjyA 316 7.38e+01 c.93.1.1 107062 1ta8A 332 7.38e+01 2astA 159 7.39e+01 1imjA 210 7.42e+01 c.69.1.23 71246 2ftwA 521 7.43e+01 1gx1A 160 7.48e+01 d.79.5.1 70675 1onrA 316 7.48e+01 1onrA c.1.10.1 29169 1f0yA 302 7.49e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1y7qA 98 7.51e+01 2cblA 305 7.53e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1vyrA 364 7.54e+01 c.1.4.1 108906 1u7lA 392 7.55e+01 1kzfA 230 7.61e+01 d.108.1.3 73354 1obbA 480 7.62e+01 c.2.1.5,d.162.1.2 86760,86761 1b0pA 1231 7.63e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1b8dA 164 7.63e+01 1cpcA a.1.1.3 15665 1z9hA 290 7.67e+01 1gu7A 364 7.71e+01 b.35.1.2,c.2.1.1 83321,83322 1zavA 180 7.71e+01 1wj5A 120 7.75e+01 2bswA 146 7.75e+01 2f46A 156 7.80e+01 1pnsC 206 7.86e+01 i.1.1.1 88170 1wlyA 333 7.87e+01 1olrA 224 7.87e+01 b.29.1.11 93330 1pou 71 7.88e+01 1au7A a.35.1.1 17020 1earA 147 7.89e+01 b.107.1.1,d.58.38.1 64875,64876 2c8vA 288 7.92e+01 2cw8A 537 7.92e+01 1tvjA 166 7.95e+01 1t3uA 104 7.95e+01 d.244.1.1 99120 2b0cA 206 7.95e+01 2au3A 407 7.99e+01 1vc4A 254 8.00e+01 c.1.2.4 100557 1drw 273 8.03e+01 1drw c.2.1.3,d.81.1.3 30057,39972 1yezA 68 8.06e+01 1zo0A 126 8.13e+01 1ido 192 8.22e+01 1ido c.62.1.1 34139 1mhqA 148 8.22e+01 a.118.9.2 84973 5nul 138 8.22e+01 5nul c.23.5.1 31191 1gvoA 364 8.27e+01 c.1.4.1 76357 2a10A 125 8.29e+01 1vhmA 195 8.34e+01 d.110.2.1 100691 1jzuA 157 8.36e+01 b.60.1.1 84271 1hjrA 158 8.38e+01 1hjrA c.55.3.6 33727 2b69A 343 8.44e+01 1j5vA 351 8.45e+01 c.72.1.1 71585 1zp4A 304 8.47e+01 1te6A 439 8.50e+01 c.1.11.1,d.54.1.1 106797,106798 2a61A 145 8.52e+01 1nzjA 298 8.52e+01 c.26.1.1 92377 1izcA 339 8.60e+01 c.1.12.5 83838 1tzzA 392 8.70e+01 2fz4A 237 8.73e+01 1yp1A 202 8.77e+01 1e79D 482 8.82e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1tf1A 198 8.82e+01 d.110.2.2 106826 1yrtA 364 8.82e+01 1y6zA 263 8.88e+01 1a79A 171 8.89e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1yvhA 329 8.94e+01 1ivzA 132 8.97e+01 d.58.41.1 76863 1u8zA 168 9.00e+01