# List of top-scoring protein chains for t06-100-30-o_notor2-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 1v7lA 163 1.07e-03 1nbwA 607 1.78e-02 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1jbkA 195 7.40e-02 c.37.1.20 71631 1mx3A 347 1.38e-01 c.2.1.4,c.23.12.1 79638,79639 1wraA 308 1.45e-01 1vi4A 174 2.02e-01 c.8.7.1 100731 1qmeA 702 2.54e-01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 2g76A 335 3.39e-01 2c1iA 431 4.01e-01 2g8lA 299 4.33e-01 1fc6A 388 4.50e-01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1aquA 297 5.01e-01 1aquA c.37.1.5 31942 1vbkA 307 5.11e-01 2d0oA 610 5.17e-01 1o04A 500 5.38e-01 c.82.1.1 86508 2f8aA 208 5.48e-01 1yovA 537 6.19e-01 1hf2A 210 6.19e-01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1rxyA 253 6.34e-01 c.56.2.1 98065 1bg6 359 7.64e-01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1uarA 285 7.72e-01 c.46.1.2,c.46.1.2 107762,107763 1ufoA 238 7.87e-01 c.69.1.27 99344 1vddA 228 8.33e-01 e.49.1.1 108519 1rliA 184 8.53e-01 c.23.5.6 97647 2bibA 547 8.61e-01 1duvG 333 8.88e-01 1othA c.78.1.1,c.78.1.1 35228,35229 1dkuA 317 8.89e-01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wwkA 307 8.90e-01 1yqzA 438 9.04e-01 1f2vA 219 9.42e-01 1f2vA c.23.17.1 59627 1xf1A 926 9.61e-01 1ooeA 236 1.01e+00 c.2.1.2 87196 2gwhA 298 1.03e+00 1q5xA 161 1.03e+00 c.8.7.1 95947 2d13A 227 1.12e+00 1g0oA 283 1.28e+00 1ybvA c.2.1.2 60181 1p42A 270 1.28e+00 d.14.1.7,d.14.1.7 87754,87755 2c71A 216 1.41e+00 1bf6A 291 1.65e+00 1pscA c.1.9.3 29065 1hm9A 468 1.65e+00 b.81.1.4,c.68.1.5 65866,65867 1uxtA 501 1.73e+00 c.82.1.1 108125 2beiA 170 1.74e+00 1vi2A 300 1.76e+00 c.2.1.7,c.58.1.5 100726,100727 2furA 209 1.82e+00 1je0A 236 1.87e+00 c.56.2.1 66581 2dbqA 334 1.96e+00 1rifA 282 2.05e+00 c.37.1.23 97507 1in4A 334 2.06e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 3cox 507 2.23e+00 1b8sA c.3.1.2,d.16.1.1 30332,37863 1iugA 352 2.31e+00 c.67.1.3 90699 1euhA 475 2.35e+00 1euhA c.82.1.1 35369 1j8mF 297 2.44e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1nmoA 247 2.46e+00 c.135.1.1 91980 1g2iA 166 2.57e+00 1g2iA c.23.16.2 31438 1vyrA 364 2.62e+00 c.1.4.1 108906 1vhsA 175 2.64e+00 d.108.1.1 100698 2coeA 120 2.77e+00 1zosA 230 2.82e+00 1z85A 234 2.87e+00 1hw1A 239 3.00e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 2a6qA 86 3.16e+00 1iz5A 249 3.20e+00 d.131.1.2,d.131.1.2 83834,83835 1ja9A 274 3.26e+00 c.2.1.2 62817 1yavA 159 3.39e+00 2aa4A 289 3.54e+00 1h2kA 349 3.70e+00 b.82.2.6 76572 2btoA 473 3.76e+00 1k32A 1045 3.86e+00 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2bsxA 253 3.91e+00 1uz5A 402 4.01e+00 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1q45A 391 4.04e+00 c.1.4.1 95780 2fr1A 486 4.28e+00 1geeA 261 4.31e+00 c.2.1.2 90509 1bd3A 243 4.34e+00 1bd3A c.61.1.1 34098 1c30B 382 4.53e+00 c.8.3.1,c.23.16.1 30736,31413 1xvaA 292 4.59e+00 1xvaA c.66.1.5 34183 1dbwA 126 4.65e+00 1dbwA c.23.1.1 31095 1cl1A 395 4.69e+00 1cl2A c.67.1.3 34395 2cz2A 223 4.77e+00 1o69A 394 4.81e+00 c.67.1.4 92560 1vl2A 421 4.86e+00 c.26.2.1,d.210.1.1 108708,108709 1zemA 262 4.93e+00 1gs5A 258 4.94e+00 c.73.1.2 70395 1ko3A 230 5.01e+00 d.157.1.1 90974 1g3mA 294 5.11e+00 c.37.1.5 83268 1lzlA 323 5.21e+00 c.69.1.2 78306 1x6vA 630 5.25e+00 1gheA 177 5.27e+00 d.108.1.1 76222 1v8bA 479 5.28e+00 1xs5A 241 5.35e+00 1fmjA 351 5.41e+00 c.37.1.5 59879 1z7aA 308 5.41e+00 1qauA 112 5.46e+00 1qauA b.36.1.1 24779 1oaoC 729 5.49e+00 e.26.1.3 86746 1x3lA 440 5.58e+00 1rhs 296 5.60e+00 1rhs c.46.1.2,c.46.1.2 32703,32704 1t9hA 307 5.61e+00 1ek6A 348 5.66e+00 1xel c.2.1.2 29800 1q3eA 207 5.87e+00 b.82.3.2 95669 1in6A 334 5.87e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 2gasA 307 5.88e+00 2fhxA 246 5.93e+00 1y0bA 197 6.02e+00 2a84A 300 6.07e+00 1zm8A 259 6.11e+00 1tr9A 341 6.11e+00 1cs1A 386 6.18e+00 1ibjA c.67.1.3 34399 2etgA 296 6.26e+00 1z41A 338 6.36e+00 2f06A 144 6.39e+00 2ck3A 510 6.42e+00 2bu3A 254 6.45e+00 1llfA 534 6.58e+00 c.69.1.17 78094 2cc0A 195 6.73e+00 2gp4A 628 6.77e+00 2ganA 190 6.83e+00 1tksA 204 6.85e+00 d.115.1.2 107114 1vf1A 229 6.99e+00 1ww8A 439 7.03e+00 1wwzA 159 7.18e+00 1n4wA 504 7.18e+00 c.3.1.2,d.16.1.1 91676,91677 2c1lA 358 7.36e+00 1n0uA 842 7.46e+00 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1e19A 314 7.54e+00 1b7bA c.73.1.1 34967 1khtA 192 7.63e+00 c.37.1.1 84401 1y1pA 342 7.66e+00 1oi7A 288 7.69e+00 c.2.1.8,c.23.4.1 87049,87050 1k92A 455 7.78e+00 c.26.2.1,d.210.1.1 68325,68326 2fywA 267 7.81e+00 1ep3B 262 7.96e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 2f5uA 447 8.02e+00 1ez0A 510 8.15e+00 1eyyA c.82.1.1 35385 1a9xB 379 8.15e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 1g57A 217 8.26e+00 1g57A d.115.1.2 60253 2ex4A 241 8.34e+00 1gpmA 525 8.35e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1h8eA 510 8.53e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1pvvA 315 8.56e+00 c.78.1.1,c.78.1.1 95190,95191 1cbf 285 8.66e+00 1cbf c.90.1.1 35587 2czlA 272 8.84e+00 1mjfA 281 8.86e+00 c.66.1.17 79198 1ytlA 174 9.54e+00 2d5cA 263 9.61e+00 1vjpA 394 9.69e+00 c.2.1.3,d.81.1.3 100828,100829 1u9cA 224 9.69e+00 1ixcA 294 9.70e+00 a.4.5.37,c.94.1.1 83764,83765 1ustA 93 9.76e+00 a.4.5.13 99884 1j99A 293 9.86e+00 c.37.1.5 71618 1b00A 127 9.88e+00 3chy c.23.1.1 31122 1v71A 323 9.98e+00 1j5xA 342 1.00e+01 c.80.1.1 71591 1neu 124 1.02e+01 1neu b.1.1.1 19704 1xdnA 277 1.02e+01 2fdrA 229 1.02e+01 1syxB 86 1.03e+01 1sffA 426 1.03e+01 c.67.1.4 105482 2gupA 292 1.03e+01 2fz4A 237 1.06e+01 1odkA 235 1.07e+01 c.56.2.1 86863 1r3sA 367 1.07e+01 c.1.22.1 96963 1q0rA 298 1.08e+01 c.69.1.28 95508 2f02A 323 1.10e+01 1zbqA 327 1.12e+01 1tq4A 413 1.13e+01 c.37.1.8 107201 1k4iA 233 1.13e+01 d.115.1.2 72056 2aeeA 211 1.14e+01 1ro2A 216 1.15e+01 d.264.1.2 97665 2a33A 215 1.16e+01 1wl4A 397 1.19e+01 1wdnA 226 1.20e+01 1lst c.94.1.1 35816 2cybA 323 1.21e+01 1ouoA 210 1.23e+01 d.4.1.6 93554 1sheA 103 1.24e+01 d.274.1.1 105551 1n7hA 381 1.24e+01 c.2.1.2 80250 1sc6A 404 1.25e+01 1g8sA 230 1.25e+01 c.66.1.3 90507 2gwgA 350 1.25e+01 1o6dA 163 1.26e+01 c.116.1.3 92567 1fjhA 257 1.28e+01 1fjhB c.2.1.2 29870 1chmA 401 1.29e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 2cveA 191 1.30e+01 1zcbA 362 1.32e+01 1y0yA 353 1.32e+01 1mp8A 281 1.32e+01 d.144.1.7 91384 2fvgA 340 1.36e+01 2gpyA 233 1.38e+01 1nhkL 144 1.39e+01 1npk d.58.6.1 39142 1t0iA 191 1.42e+01 c.23.5.4 106209 2gn4A 344 1.43e+01 1u2pA 163 1.47e+01 1a8s 273 1.48e+01 1brt c.69.1.12 34710 1r6xA 395 1.48e+01 b.122.1.3,c.26.1.5 97167,97168 2axpA 173 1.49e+01 1m22A 503 1.50e+01 c.117.1.1 78464 1n3lA 372 1.51e+01 c.26.1.1 79966 1rqpA 299 1.54e+01 b.141.1.1,c.132.1.1 97754,97755 1jztA 246 1.54e+01 c.104.1.1 63319 2bgkA 278 1.55e+01 1o63A 219 1.55e+01 c.94.1.1 92540 1vjlA 164 1.55e+01 d.257.1.1 100822 2exrA 524 1.55e+01 2evaA 307 1.56e+01 2c46A 241 1.56e+01 2gjgA 248 1.56e+01 1am2 199 1.58e+01 1am2 b.86.1.2 28381 1jeoA 180 1.58e+01 c.80.1.3 66611 1iy8A 267 1.58e+01 c.2.1.2 83774 1k78A 149 1.59e+01 a.4.1.5,a.4.1.5 68255,68256 1c1yB 77 1.59e+01 1c1yB d.15.1.5 37618 1r64A 481 1.62e+01 b.18.1.20,c.41.1.1 97140,97141 1j96A 323 1.62e+01 c.1.7.1 71616 1li4A 432 1.63e+01 c.2.1.4,c.23.12.3 84616,84617 1i12A 160 1.65e+01 1i21A d.108.1.1 61515 1z1dA 103 1.65e+01 2gs5A 198 1.65e+01 1dxy 333 1.67e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1cliA 345 1.68e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1twiA 434 1.71e+01 b.49.2.3,c.1.6.1 107399,107400 1b0uA 262 1.71e+01 1b0uA c.37.1.12 32370 2f2eA 146 1.71e+01 1i4wA 353 1.72e+01 c.66.1.24 66028 1gkpA 458 1.75e+01 b.92.1.3,c.1.9.6 70231,70232 1giqA 413 1.75e+01 d.166.1.1,d.166.1.1 76224,76225 2gu2A 312 1.75e+01 1i24A 404 1.79e+01 c.2.1.2 83663 2d0iA 333 1.80e+01 1zzoA 136 1.81e+01 1vmeA 410 1.84e+01 c.23.5.1,d.157.1.3 108893,108894 1c3cA 429 1.85e+01 1c3cA a.127.1.1 19425 2acvA 463 1.85e+01 1q0xH 221 1.85e+01 b.1.1.1,b.1.1.2 95517,95518 1nnfA 309 1.86e+01 c.94.1.1 85903 1vhwA 253 1.87e+01 c.56.2.1 100706 1y8qB 640 1.88e+01 1cjcA 460 1.90e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1inlA 296 1.91e+01 c.66.1.17 66220 1k6dA 220 1.91e+01 c.124.1.2 72082 1ofdA 1520 1.92e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1zxxA 319 1.94e+01 2an3A 289 1.94e+01 2bbsA 290 1.95e+01 1gca 309 1.95e+01 1gca c.93.1.1 35659 1ycoA 279 2.00e+01 1mrzA 293 2.02e+01 b.43.5.1,c.26.1.3 91452,91453 1me8A 503 2.04e+01 c.1.5.1 79028 2atrA 138 2.04e+01 1lfwA 470 2.04e+01 c.56.5.4,d.58.19.1 77942,77943 1ijbA 202 2.06e+01 c.62.1.1 71229 1tmy 120 2.06e+01 1dbwA c.23.1.1 31083 1dk0A 188 2.08e+01 1b2vA d.35.1.1 38530 1gegA 256 2.08e+01 1ybvA c.2.1.2 29888 1w32A 348 2.11e+01 1h16A 759 2.13e+01 c.7.1.1 76462 2frnA 278 2.13e+01 1yp1A 202 2.14e+01 1iw0A 215 2.14e+01 a.132.1.1 83720 2alaA 391 2.14e+01 1s7kA 182 2.15e+01 2fdiA 211 2.16e+01 1bx1A 314 2.19e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1zdzA 302 2.21e+01 2bneA 241 2.23e+01 1u0sY 118 2.23e+01 c.23.1.1 107566 1uwzA 136 2.25e+01 c.97.1.1 108081 1yvhA 329 2.25e+01 1ro0A 216 2.26e+01 d.264.1.2 97664 1ur1A 378 2.27e+01 c.1.8.3 99804 1g2yA 32 2.28e+01 a.34.2.1 17003 1u2cA 246 2.28e+01 b.1.6.2,d.272.1.1 107610,107611 1lnsA 763 2.30e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1zvyA 136 2.31e+01 1wzdA 215 2.32e+01 1np3A 338 2.33e+01 a.100.1.2,c.2.1.6 85946,85947 1gmxA 108 2.34e+01 c.46.1.3 65355 1g3qA 237 2.34e+01 1hyqA c.37.1.10 60237 1vkfA 188 2.35e+01 c.1.29.1 108656 1lldA 319 2.35e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1z0jA 170 2.38e+01 2f1rA 171 2.40e+01 5nul 138 2.40e+01 5nul c.23.5.1 31191 1ln1A 214 2.41e+01 d.129.3.2 74038 1fnd 314 2.41e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1s3cA 141 2.42e+01 1jysA 242 2.44e+01 c.56.2.1 77216 1o58A 303 2.45e+01 c.79.1.1 92491 1w99A 558 2.46e+01 1e0cA 271 2.46e+01 1e0cA c.46.1.2,c.46.1.2 32717,32718 2gfaA 119 2.49e+01 2apoA 357 2.50e+01 1xovA 326 2.50e+01 1okgA 373 2.57e+01 c.46.1.2,c.46.1.2,d.26.1.3 93250,93251,93252 2cvhA 220 2.57e+01 1twyA 290 2.58e+01 1yvrA 538 2.59e+01 1b34B 118 2.60e+01 1b34B b.38.1.1 24797 1yrbA 262 2.61e+01 1u6eA 335 2.62e+01 2ew0A 192 2.65e+01 1lc0A 294 2.67e+01 c.2.1.3,d.81.1.4 73823,73824 1y81A 138 2.70e+01 1whzA 70 2.72e+01 1iv8A 720 2.74e+01 b.71.1.1,c.1.8.1 76842,76843 2d1yA 256 2.76e+01 1s12A 94 2.77e+01 1x9iA 302 2.78e+01 1tu5A 746 2.78e+01 1bxoA 323 2.79e+01 2er7E b.50.1.2 26805 1d2oA 187 2.79e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1yloA 348 2.81e+01 1d1gA 168 2.81e+01 1d1gA c.71.1.1 34889 8abp 306 2.82e+01 8abp c.93.1.1 35647 1l7dA 384 2.83e+01 c.2.1.4,c.23.12.2 77774,77775 1qhtA 775 2.84e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1mvoA 136 2.85e+01 c.23.1.1 79513 1t3iA 420 2.85e+01 c.67.1.3 106354 1cxqA 162 2.88e+01 1cxqA c.55.3.2 33621 2fb1A 226 2.88e+01 1sdsA 117 2.90e+01 d.79.3.1 105439 1jpaA 312 2.91e+01 d.144.1.7 67011 1auoA 218 2.91e+01 1auoA c.69.1.14 34716 2fe7A 166 2.93e+01 1w6uA 302 2.95e+01 1qlwA 328 2.97e+01 1qlwA c.69.1.15 34722 1hztA 190 2.99e+01 1i9aA d.113.1.2 61459 1i1qB 192 3.01e+01 1qdlB c.23.16.1 61544 2bh7A 261 3.03e+01 1kl1A 419 3.03e+01 c.67.1.4 72663 1qo7A 394 3.05e+01 1qo7A c.69.1.11 34697 1pwgA 349 3.05e+01 e.3.1.1 104340 1o88A 353 3.07e+01 b.80.1.1 81178 2a5yB 549 3.07e+01 1gky 187 3.08e+01 1gky c.37.1.1 31839 1yqsA 349 3.10e+01 1uf2A 1019 3.10e+01 e.28.1.2 99289 1uslA 170 3.11e+01 c.121.1.1 99871 1gtmA 419 3.11e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1qv1A 195 3.14e+01 a.39.1.5 96347 1y0nA 78 3.14e+01 2a3nA 355 3.15e+01 1qdeA 224 3.16e+01 1qvaA c.37.1.19 32410 1ctt 294 3.19e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 3ygsP 97 3.20e+01 3ygsP a.77.1.3 18435 1dleA 298 3.21e+01 1dleA b.47.1.2 26312 1m2kA 249 3.21e+01 c.31.1.5 84754 1ylkA 172 3.22e+01 1k3bB 164 3.23e+01 d.3.1.1 72015 1x7dA 350 3.24e+01 1ww7A 160 3.25e+01 1ywnA 316 3.26e+01 1yjsA 419 3.26e+01 1yh1A 359 3.28e+01 2fb5A 205 3.29e+01 1r0vA 305 3.32e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1e4fT 419 3.32e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1zoiA 276 3.33e+01 2gefA 217 3.36e+01 1zghA 260 3.37e+01 1uu1A 335 3.41e+01 c.67.1.1 99993 2b0tA 738 3.41e+01 1owfA 99 3.42e+01 a.55.1.1 87487 1ub3A 220 3.42e+01 c.1.10.1 88395 1t3qC 288 3.46e+01 d.87.2.1,d.145.1.3 106371,106372 2fvtA 135 3.46e+01 2c6cA 707 3.47e+01 2aqjA 538 3.49e+01 1w94A 156 3.50e+01 1q67A 231 3.51e+01 b.55.1.7 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