# 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 1xxlA 239 3.03e-17 1vl5A 260 4.62e-17 c.66.1.41 108720 1l3iA 192 9.02e-17 c.66.1.22 77676 1wznA 252 4.87e-16 2as0A 396 1.11e-15 1ve3A 227 2.86e-15 1wxxA 382 5.44e-15 1vlmA 219 8.16e-15 c.66.1.41 108836 2gh1A 301 1.04e-14 1l1eA 287 1.06e-14 c.66.1.18 73454 1g38A 393 1.54e-14 2admA c.66.1.27 60235 1ufkA 254 3.85e-14 c.66.1.39 99340 2fk8A 318 9.01e-14 1qzzA 374 9.53e-14 a.4.5.29,c.66.1.12 96719,96720 1nv8A 284 1.30e-13 c.66.1.30 86224 1sqgA 429 2.14e-13 a.79.1.3,c.66.1.38 105912,105913 1im8A 244 2.96e-13 c.66.1.14 66212 1ixkA 315 4.00e-13 c.66.1.38 90716 1dusA 194 5.26e-13 1dusA c.66.1.4 34182 1dl5A 317 5.55e-13 1dl5A c.66.1.7,d.197.1.1 64720,64721 2avdA 219 6.09e-13 1o54A 277 8.29e-13 c.66.1.13 92482 1yzhA 214 9.84e-13 1i9gA 280 1.01e-12 c.66.1.13 62090 2fytA 340 1.12e-12 1m6yA 301 1.35e-12 a.60.13.1,c.66.1.23 78716,78717 2fhpA 187 1.76e-12 1xvaA 292 2.24e-12 1xvaA c.66.1.5 34183 1f3lA 321 3.07e-12 1g6q2 c.66.1.6 59630 2ar0A 541 3.43e-12 1jg1A 235 3.92e-12 c.66.1.7 66661 1wy7A 207 4.83e-12 2f8lA 344 6.62e-12 1uwvA 433 1.02e-11 b.40.4.12,c.66.1.40 100128,100129 1ri5A 298 1.63e-11 c.66.1.34 97502 1wg8A 285 1.64e-11 2frnA 278 2.30e-11 2esrA 177 3.02e-11 2fpoA 202 3.77e-11 1zq9A 285 4.42e-11 1xdzA 240 8.38e-11 1xtpA 254 9.77e-11 1ne2A 200 1.32e-10 c.66.1.32 85586 1yb2A 275 2.06e-10 1i1nA 226 2.23e-10 c.66.1.7 71102 1h1dA 221 3.18e-10 c.66.1.1 83452 2ex4A 241 6.86e-10 1qamA 244 8.57e-10 2ercA c.66.1.24 34220 1inlA 296 8.79e-10 c.66.1.17 66220 1o9gA 250 9.62e-10 c.66.1.29 86692 1ej0A 180 4.18e-09 1ej0A c.66.1.2 34179 1uirA 314 8.64e-09 c.66.1.17 99429 1zdzA 302 2.22e-08 1fp1D 372 4.38e-08 1fpqA a.4.5.29,c.66.1.12 59939,59940 1mjfA 281 4.40e-08 c.66.1.17 79198 1nt2A 210 5.71e-08 c.66.1.3 86149 1fp2A 352 6.16e-08 1fpxA a.4.5.29,c.66.1.12 59941,59942 2aotA 292 8.19e-08 1zx0A 236 9.57e-08 1g8sA 230 1.38e-07 c.66.1.3 90507 2bzgA 232 1.80e-07 1nw3A 416 2.95e-07 c.66.1.31 86288 1jvbA 347 4.21e-07 b.35.1.2,c.2.1.1 77181,77182 2b9eA 303 4.40e-07 1g8aA 227 4.67e-07 c.66.1.3 90506 1uufA 369 5.36e-07 b.35.1.2,c.2.1.1 100006,100007 1bc5A 269 6.72e-07 1af7 a.58.1.1,c.66.1.8 17929,34204 1af7 274 7.64e-07 1af7 a.58.1.1,c.66.1.8 17928,34203 1qyrA 252 9.84e-07 c.66.1.24 104657 2dpmA 284 1.66e-06 2dpmA c.66.1.28 34246 1wlyA 333 3.78e-06 1g55A 343 6.48e-06 1g55A c.66.1.26 34247 1zcjA 463 6.85e-06 2bm8A 236 1.00e-05 1eg2A 319 1.63e-05 1eg2A c.66.1.11 34249 1u2zA 433 1.65e-05 c.66.1.31 107626 1zkdA 387 2.47e-05 2bgkA 278 2.90e-05 2an3A 289 4.01e-05 2a14A 263 4.02e-05 1g0oA 283 4.26e-05 1ybvA c.2.1.2 60181 1y9aA 360 5.43e-05 1bg6 359 7.95e-05 1bg6 a.100.1.5,c.2.1.6 18810,30214 2c7pA 327 1.38e-04 1f8fA 371 1.48e-04 b.35.1.2,c.2.1.1 83246,83247 1yf3A 259 3.09e-04 1fmcA 255 3.13e-04 1cydA c.2.1.2 29856 2gdzA 267 3.40e-04 1wmaA 276 3.99e-04 1l9kA 305 4.46e-04 c.66.1.25 84569 1m6eX 359 4.76e-04 c.66.1.35 91188 1zemA 262 5.16e-04 1xu9A 286 5.99e-04 1ja9A 274 7.34e-04 c.2.1.2 62817 1zejA 293 7.94e-04 2ag5A 246 8.30e-04 1kolA 398 8.30e-04 b.35.1.2,c.2.1.1 77474,77475 1pjcA 361 1.17e-03 1sayA c.2.1.4,c.23.12.2 30101,31361 1v3vA 333 1.18e-03 b.35.1.2,c.2.1.1 108345,108346 1h2bA 359 1.22e-03 b.35.1.2,c.2.1.1 90543,90544 2ew2A 316 1.26e-03 1i4wA 353 1.50e-03 c.66.1.24 66028 1jtvA 327 1.60e-03 c.2.1.2 84230 1xg5A 279 2.25e-03 1fcdA 401 2.86e-03 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1yqdA 366 4.48e-03 1p77A 272 4.68e-03 c.2.1.7,c.58.1.5 94214,94215 1ydwA 362 4.77e-03 1nytA 271 5.43e-03 c.2.1.7,c.58.1.5 86417,86418 1spxA 278 6.10e-03 c.2.1.2 98958 1iy8A 267 6.21e-03 c.2.1.2 83774 1g60A 260 7.87e-03 c.66.1.11 70151 1n8kA 374 8.94e-03 b.35.1.2,c.2.1.1 80298,80299 1rjdA 334 9.11e-03 c.66.1.37 97558 2cbuA 468 1.06e-02 1zmoA 244 1.11e-02 1cydA 244 1.22e-02 1cydA c.2.1.2 29825 1hxhA 253 1.23e-02 c.2.1.2 76725 1obbA 480 1.25e-02 c.2.1.5,d.162.1.2 86760,86761 1pl8A 356 1.61e-02 b.35.1.2,c.2.1.1 94878,94879 2g5cA 281 2.44e-02 1jae 471 2.81e-02 1smd b.71.1.1,c.1.8.1 27773,28760 1y7lA 316 3.02e-02 1zedA 484 3.06e-02 1f8rA 498 3.07e-02 1f8rA c.3.1.2,d.16.1.5 30410,37974 1u3wA 374 3.08e-02 1uwkA 557 3.12e-02 e.51.1.1 108065 1jbeA 128 3.32e-02 3chy c.23.1.1 62845 1li4A 432 3.80e-02 c.2.1.4,c.23.12.3 84616,84617 1v5eA 590 3.81e-02 1vj1A 363 3.84e-02 b.35.1.2,c.2.1.1 100794,100795 1dljA 402 3.85e-02 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1zk4A 251 3.91e-02 1vj0A 380 4.14e-02 b.35.1.2,c.2.1.1 100786,100787 1gc0A 398 4.16e-02 c.67.1.3 70168 1omoA 322 4.47e-02 c.2.1.13 104017 1x13A 401 4.48e-02 1ddgA 374 4.62e-02 1amoA b.43.4.1,c.25.1.4 25671,31559 1w6uA 302 4.71e-02 1oc2A 348 4.94e-02 c.2.1.2 92765 1nvmA 345 5.24e-02 a.5.7.1,c.1.10.5 86249,86250 1l7dA 384 5.77e-02 c.2.1.4,c.23.12.2 77774,77775 1x7dA 350 5.77e-02 1ve1A 304 5.96e-02 1yb5A 351 6.14e-02 1onrA 316 6.42e-02 1onrA c.1.10.1 29169 1tmy 120 6.53e-02 1dbwA c.23.1.1 31083 1c96A 753 6.70e-02 1amj c.8.2.1,c.83.1.1 30727,35403 1e4iA 447 7.14e-02 1e70M c.1.8.4 59225 1oxkB 134 7.29e-02 c.23.1.1 93691 2b69A 343 7.48e-02 1zbqA 327 8.75e-02 1w5qA 337 9.20e-02 1vl2A 421 9.53e-02 c.26.2.1,d.210.1.1 108708,108709 1g8kA 825 9.58e-02 1g8jA b.52.2.2,c.81.1.1 26920,35328 1ed8A 449 1.03e-01 1b8jA c.76.1.1 34988 1gegA 256 1.05e-01 1ybvA c.2.1.2 29888 1u0sY 118 1.05e-01 c.23.1.1 107566 1ooeA 236 1.10e-01 c.2.1.2 87196 1cs1A 386 1.13e-01 1ibjA c.67.1.3 34399 1gpjA 404 1.14e-01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 2b4aA 138 1.27e-01 1xt8A 292 1.34e-01 1o4sA 389 1.40e-01 c.67.1.1 86620 1p3dA 475 1.41e-01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1sb8A 352 1.60e-01 c.2.1.2 105410 1zk7A 467 1.65e-01 2cdcA 366 1.73e-01 1kgsA 225 1.84e-01 a.4.6.1,c.23.1.1 68596,68597 2g1uA 155 1.84e-01 1p2hA 571 2.02e-01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1zmtA 254 2.03e-01 2ae2A 260 2.04e-01 1bdb c.2.1.2 29945 1vefA 395 2.19e-01 1zd3A 555 2.22e-01 1v02A 565 2.29e-01 c.1.8.4 108194 2gaiA 633 2.40e-01 1eny 268 2.63e-01 1eny c.2.1.2 29910 2bllA 345 2.74e-01 1bw0A 416 2.77e-01 1bw0A c.67.1.1 34385 1lssA 140 2.79e-01 c.2.1.9 74246 1h6dA 433 2.80e-01 c.2.1.3,d.81.1.5 65656,65657 1vk3A 615 2.87e-01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 2gasA 307 2.91e-01 2ew8A 249 2.92e-01 1gdeA 389 3.03e-01 c.67.1.1 60456 1pwxA 254 3.10e-01 c.2.1.2 95262 2aq8A 269 3.22e-01 1vjoA 393 3.23e-01 c.67.1.3 100827 1h5qA 265 3.25e-01 1cydA c.2.1.2 60643 1c1dA 355 3.41e-01 1bw9A c.2.1.7,c.58.1.1 30270,33918 1bdb 277 3.44e-01 1bdb c.2.1.2 29874 1ewkA 490 3.48e-01 1ewkA c.93.1.1 35712 1wu7A 434 3.59e-01 1c0pA 363 3.76e-01 1an9A c.4.1.2,d.16.1.3 30647,37934 1pzgA 331 3.81e-01 c.2.1.5,d.162.1.1 95425,95426 1t2dA 322 3.84e-01 c.2.1.5,d.162.1.1 99084,99085 1k7hA 476 3.90e-01 c.76.1.1 72101 1sbyA 254 4.01e-01 2gn4A 344 4.16e-01 1up7A 417 4.27e-01 1ga8A 311 4.33e-01 1ga8A c.68.1.4 34516 2fuvA 549 4.37e-01 1yixA 265 4.37e-01 2b8nA 429 4.38e-01 1zmdA 474 4.39e-01 1t5hX 504 4.52e-01 e.23.1.1 106449 1repC 251 4.55e-01 1repC a.4.5.10,a.4.5.10 16125,16126 1yxmA 303 4.57e-01 1ss9A 311 4.58e-01 c.68.1.4 105978 1lc0A 294 4.59e-01 c.2.1.3,d.81.1.4 73823,73824 1y1pA 342 4.72e-01 1vpt 348 4.91e-01 3mag c.66.1.25 34207 2ga9A 297 4.92e-01 2g0wA 296 5.18e-01 1g94A 448 5.22e-01 b.71.1.1,c.1.8.1 65169,65170 1gy8A 397 5.22e-01 c.2.1.2 83376 1zp4A 304 5.46e-01 1g3qA 237 5.50e-01 1hyqA c.37.1.10 60237 1hx0A 496 5.55e-01 b.71.1.1,c.1.8.1 61346,61347 1z41A 338 5.56e-01 1k7jA 206 5.79e-01 d.115.1.1 72103 1j8mF 297 5.85e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1lldA 319 6.00e-01 3ldh c.2.1.5,d.162.1.1 30177,42144 2bmfA 451 6.36e-01 2ajrA 331 6.39e-01 2c2aA 258 6.44e-01 1sc6A 404 6.52e-01 1zjcA 418 6.57e-01 2bryA 497 6.81e-01 1o6zA 303 6.87e-01 c.2.1.5,d.162.1.1 81107,81108 2b4lA 268 6.89e-01 1cl1A 395 6.93e-01 1cl2A c.67.1.3 34395 1yzfA 195 6.95e-01 1ykwA 435 7.01e-01 1nhs 447 7.03e-01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1zsyA 357 7.05e-01 1ejdA 419 7.40e-01 1uae d.68.2.2 39576 1fjhA 257 7.45e-01 1fjhB c.2.1.2 29870 1c7sA 858 7.55e-01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1p2fA 220 7.56e-01 a.4.6.1,c.23.1.1 87720,87721 1vc4A 254 7.57e-01 c.1.2.4 100557 2c07A 285 7.65e-01 1v7zA 260 7.82e-01 c.125.1.1 100488 1w7lA 422 7.83e-01 c.67.1.1 109226 1tt7A 330 8.05e-01 1v8bA 479 8.05e-01 1o98A 511 8.48e-01 c.105.1.1,c.76.1.3 86684,86685 2ez3A 302 8.57e-01 1cr1A 296 8.58e-01 1cr1A c.37.1.11 32286 1xp8A 366 8.91e-01 1m32A 366 8.96e-01 c.67.1.3 78508 1xf1A 926 9.39e-01 1ne9A 335 9.39e-01 d.108.1.4,d.108.1.4 91839,91840 1smd 496 9.42e-01 1smd b.71.1.1,c.1.8.1 27768,28755 1uwsA 489 9.50e-01 c.1.8.4 108073 1k92A 455 9.51e-01 c.26.2.1,d.210.1.1 68325,68326 1d0qA 103 9.64e-01 1d0qA g.41.3.2 45208 1x74A 360 9.79e-01 1jdw 423 1.05e+00 1jdw d.126.1.2 41129 1b6g 310 1.09e+00 1b6g c.69.1.8 34661 1dxy 333 1.10e+00 1dxy c.2.1.4,c.23.12.1 30094,31354 2fr1A 486 1.12e+00 1eu8A 409 1.13e+00 1eu8A c.94.1.1 59502 1q1rA 431 1.15e+00 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1i60A 278 1.17e+00 c.1.15.4 71118 1al3 324 1.22e+00 1al3 c.94.1.1 35835 2jdxA 385 1.34e+00 1jdw d.126.1.2 41139 1r9lA 309 1.35e+00 c.94.1.1 97262 1u8fO 335 1.39e+00 1heiA 451 1.39e+00 1heiA c.37.1.14,c.37.1.14 32463,32464 1nvmB 312 1.40e+00 c.2.1.3,d.81.1.1 86251,86252 1qdeA 224 1.42e+00 1qvaA c.37.1.19 32410 1zjrA 211 1.45e+00 1hl9A 449 1.46e+00 b.71.1.3,c.1.8.11 90650,90651 1vmeA 410 1.47e+00 c.23.5.1,d.157.1.3 108893,108894 1pfvA 551 1.47e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1t9bA 677 1.51e+00 1hdcA 253 1.52e+00 1e6wA c.2.1.2 29862 1odkA 235 1.53e+00 c.56.2.1 86863 1yksA 440 1.54e+00 2fh7A 595 1.64e+00 3pmgA 561 1.65e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1hdoA 206 1.66e+00 1he2A c.2.1.2 60965 2d13A 227 1.67e+00 1pvvA 315 1.68e+00 c.78.1.1,c.78.1.1 95190,95191 1nm2A 317 1.69e+00 c.19.1.1,d.58.23.1 80654,80655 1sw5B 275 1.70e+00 c.94.1.1 106070 1jztA 246 1.72e+00 c.104.1.1 63319 1qz9A 416 1.75e+00 c.67.1.3 96621 1vemA 516 1.78e+00 2c1iA 431 1.81e+00 1nw1A 429 1.83e+00 d.144.1.8 86286 1ni9A 338 1.85e+00 e.7.1.2 85739 1wqaA 455 1.85e+00 1o04A 500 1.89e+00 c.82.1.1 86508 1u8xX 472 1.91e+00 c.2.1.5,d.162.1.2 107741,107742 1f0yA 302 1.91e+00 2hdhA a.100.1.3,c.2.1.6 18793,30197 1s8nA 205 1.94e+00 c.23.1.1 105374 1srrA 124 1.96e+00 1dz3A c.23.1.1 31110 1gpmA 525 1.98e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ys7A 233 2.03e+00 1jfrA 262 2.08e+00 1jfrA c.69.1.16 34724 1bn7A 294 2.08e+00 1bn6A c.69.1.8 34677 1nmoA 247 2.11e+00 c.135.1.1 91980 1h0hA 977 2.11e+00 b.52.2.2,c.81.1.1 76435,76436 1jb9A 316 2.11e+00 1fnc b.43.4.2,c.25.1.1 62840,62841 1ec7A 446 2.14e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 2cbiA 594 2.21e+00 1oaa 259 2.21e+00 1oaa c.2.1.2 29829 1mo9A 523 2.24e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1xb4A 202 2.24e+00 1nffA 260 2.26e+00 c.2.1.2 80457 1sw5A 275 2.31e+00 c.94.1.1 106069 2bjbA 462 2.32e+00 1zgzA 122 2.33e+00 1el5A 389 2.34e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 1jl0A 334 2.35e+00 1jenA d.156.1.1 63155 1ayl 541 2.39e+00 1ayl c.91.1.1,c.109.1.1 64718,64719 1oc7A 364 2.42e+00 c.6.1.1 86794 1gg4A 452 2.43e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1jl1A 155 2.43e+00 c.55.3.1 66821 7aatA 401 2.44e+00 1ajsA c.67.1.1 34250 1np3A 338 2.46e+00 a.100.1.2,c.2.1.6 85946,85947 1qsgA 265 2.50e+00 1eny c.2.1.2 29935 1cbf 285 2.52e+00 1cbf c.90.1.1 35587 1yxyA 234 2.52e+00 1vkfA 188 2.57e+00 c.1.29.1 108656 1y9wA 140 2.57e+00 1uu1A 335 2.58e+00 c.67.1.1 99993 1oi2A 366 2.59e+00 c.119.1.2 103802 1iukA 140 2.59e+00 c.2.1.8 83712 1ojrA 274 2.61e+00 c.74.1.1 93147 1vpkA 378 2.63e+00 1g6sA 427 2.70e+00 1eps d.68.2.2 39584 1vkpA 383 2.71e+00 d.126.1.6 108686 1i1wA 303 2.73e+00 c.1.8.3 76732 2f1kA 279 2.76e+00 2a35A 215 2.78e+00 1pvdA 537 2.87e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1wdnA 226 2.90e+00 1lst c.94.1.1 35816 1gox 370 2.96e+00 1gox c.1.4.1 28607 1o66A 275 3.00e+00 c.1.12.8 92547 1mb3A 124 3.02e+00 c.23.1.1 78907 1bs0A 384 3.04e+00 1bs0A c.67.1.4 34490 2citA 282 3.09e+00 2b3yA 888 3.15e+00 1tz9A 367 3.16e+00 c.1.15.6 107466 1poiA 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