# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 2a9uA 144 1.02e-02 1yn9A 169 1.63e+00 2cwyA 94 1.92e+00 1mun 225 3.68e+00 1mun a.96.1.2 18744 1uhgA 385 3.89e+00 e.1.1.1 88491 1w68A 390 3.89e+00 a.25.1.2 109216 1ovaA 386 3.92e+00 1ovaA e.1.1.1 42619 1h0oA 390 4.50e+00 a.25.1.2 70845 1xsm 390 6.19e+00 1xsm a.25.1.2 16804 1h3nA 878 6.54e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1io2A 213 7.35e+00 1ekeA c.55.3.1 62612 1qlnA 883 7.61e+00 1cezA e.8.1.3 43111 1p7tA 731 8.19e+00 c.1.13.1 94319 1d8cA 723 8.29e+00 1d8cA c.1.13.1 29325 1cuk 203 9.16e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1lrv 244 9.50e+00 1lrv a.118.1.5 19146 2b1eA 564 9.54e+00 1zejA 293 1.06e+01 1lniA 96 1.08e+01 d.1.1.2 74046 1rgeA 96 1.09e+01 1rgeA d.1.1.2 36028 1k3pA 426 1.15e+01 a.103.1.1 77237 1yucA 255 1.27e+01 1gl2C 65 1.29e+01 h.1.15.1 65280 1u2wA 122 1.32e+01 1wa8A 99 1.39e+01 1i4mA 108 1.40e+01 d.6.1.1 66025 1jhgA 101 1.41e+01 1jhgA a.4.12.1 19009 1pylA 97 1.42e+01 d.1.1.2 104391 1tw9A 206 1.48e+01 a.45.1.1,c.47.1.5 107381,107382 2a65A 519 1.50e+01 1s9pA 227 1.51e+01 a.123.1.1 105384 2bb6A 414 1.58e+01 1wj7A 104 1.58e+01 1owcA 427 1.67e+01 a.103.1.1 104039 2c3mA 1231 1.67e+01 1i1rB 181 1.71e+01 1i1rB a.26.1.1 61548 2f94F 350 1.78e+01 1vrmA 325 1.88e+01 1mgrA 99 1.98e+01 d.1.1.2 79106 1pk5A 248 2.00e+01 a.123.1.1 88139 1kwfA 363 2.04e+01 a.102.1.2 73078 1tllA 688 2.10e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1hm6A 346 2.13e+01 1avc a.65.1.1 18147 1yv5A 374 2.14e+01 1a5t 334 2.16e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1deeG 54 2.16e+01 1fc2C a.8.1.1 16343 1kkhA 317 2.17e+01 d.14.1.5,d.58.26.3 72645,72646 1x8vA 455 2.20e+01 1xi1A 575 2.33e+01 1kekA 1231 2.36e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1r1uA 106 2.38e+01 a.4.5.5 104771 1pjqA 457 2.39e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1b0pA 1231 2.43e+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 2fiyA 309 2.47e+01 1q35A 320 2.48e+01 c.94.1.1 95661 1sqgA 429 2.55e+01 a.79.1.3,c.66.1.38 105912,105913 1oaa 259 2.56e+01 1oaa c.2.1.2 29829 1h5zA 455 2.62e+01 a.104.1.1 90622 1cem 363 2.63e+01 1cem a.102.1.2 18826 1w2yA 229 2.67e+01 a.204.1.1 109140 1yq7A 374 2.69e+01 1wwzA 159 2.73e+01 1ho8A 480 2.83e+01 1ho8A a.118.1.9 61107 2c5uA 375 2.85e+01 1y7yA 74 2.88e+01 2bcqA 335 2.89e+01 1vkeA 133 3.00e+01 a.152.1.2 108650 1f2eA 201 3.01e+01 1a0fA a.45.1.1,c.47.1.5 17745,33039 1u13A 455 3.07e+01 a.104.1.1 107578 1gmjA 84 3.07e+01 h.4.8.1 65310 1bed 181 3.13e+01 1fvkA c.47.1.13 90330 1xnfA 275 3.30e+01 1jk0B 345 3.31e+01 a.25.1.2 63143 1kb9A 431 3.33e+01 d.185.1.1,d.185.1.1 77311,77312 1rkpA 326 3.34e+01 a.211.1.2 97620 1hg4A 279 3.36e+01 1lbd a.123.1.1 19333 1y8aA 332 3.36e+01 1fpzA 212 3.36e+01 1fpzA c.45.1.1 59976 1l3sA 580 3.48e+01 c.55.3.5,e.8.1.1 84521,84522 2es4D 332 3.52e+01 1xwl 580 3.54e+01 1xwl c.55.3.5,e.8.1.1 33708,43001 1nk4A 580 3.55e+01 c.55.3.5,e.8.1.1 91923,91924 1gvhA 396 3.57e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1ab4 477 3.69e+01 1ab4 e.11.1.1 43251 1up6A 416 3.91e+01 c.2.1.5,d.162.1.2 107976,107977 1cipA 353 3.95e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1no1A 126 3.95e+01 a.179.1.1 85913 2fupA 168 3.96e+01 1khdA 345 3.98e+01 a.46.2.1,c.27.1.1 77400,77401 1u4bA 580 4.04e+01 c.55.3.5,e.8.1.1 107664,107665 1q2zA 120 4.19e+01 a.118.19.1 95656 1vgmA 378 4.20e+01 1up7A 417 4.20e+01 1om2A 95 4.21e+01 1om2A a.23.4.1 16520 1pmzA 86 4.24e+01 a.39.1.10 104195 1ujwB 135 4.27e+01 h.4.9.1 99472 1rktA 205 4.34e+01 a.4.1.9,a.121.1.1 97623,97624 1f45B 197 4.38e+01 1f45B a.26.1.1 59642 2h58A 330 4.39e+01 1ezvA 430 4.39e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 1nd4A 264 4.45e+01 d.144.1.6 91815 2ccmA 191 4.51e+01 1f20A 435 4.54e+01 b.43.4.1,c.25.1.4 64932,64933 1yb3A 175 4.58e+01 1h5uA 842 4.80e+01 1a8i c.87.1.4 60655 1a8i 842 4.87e+01 1a8i c.87.1.4 35490 2c1xA 456 4.88e+01 1rw2A 152 4.93e+01 a.118.19.1 97961 1vmaA 306 5.08e+01 a.24.13.1,c.37.1.10 108887,108888 1elwA 118 5.16e+01 1a17 a.118.8.1 19207 1uptB 60 5.24e+01 a.193.1.1 99768 1zzlA 351 5.25e+01 1ic8A 194 5.28e+01 a.4.1.1,a.35.1.1 76740,76741 1unkA 87 5.29e+01 1cei a.28.2.1 16935 1vkuA 100 5.32e+01 a.28.1.1 108690 1s8nA 205 5.34e+01 c.23.1.1 105374 1rztA 331 5.38e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1wpaA 114 5.42e+01 1odoA 408 5.50e+01 a.104.1.1 92783 1cei 94 5.51e+01 1cei a.28.2.1 16939 1kl9A 182 5.53e+01 b.40.4.5 72681 1zz2A 360 5.63e+01 1z7lA 276 5.71e+01 1mw5A 187 5.76e+01 d.259.1.1 91477 1x0vA 354 5.83e+01 1e9xA 455 5.83e+01 1ea1A a.104.1.1 18969 1af7 274 5.91e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1mp1A 111 5.91e+01 a.188.1.1 91382 2fuqA 747 5.94e+01 1xahA 354 5.99e+01 1hq1A 105 6.03e+01 1dulA a.36.1.1 17120 1bc5A 269 6.25e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1b3uA 588 6.33e+01 1b3uA a.118.1.2 19135 2cfuA 658 6.33e+01 1lshA 1056 6.37e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1colA 204 6.37e+01 1a87 f.1.1.1 43378 1mvcA 240 6.41e+01 a.123.1.1 79499 1gl2D 65 6.47e+01 h.1.15.1 65281 1y9qA 192 6.48e+01 1wzaA 488 6.53e+01 1jchA 551 6.57e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1k87A 669 6.58e+01 a.176.1.1,c.1.23.2 77286,77287 1o86A 589 6.60e+01 d.92.1.5 81177 1uzeA 589 6.63e+01 d.92.1.5 108174 1uixA 71 6.64e+01 h.1.27.1 99446 1sumB 235 6.69e+01 a.7.12.1 106025 1z91A 147 6.72e+01 1orjA 130 6.73e+01 a.24.19.1 93456 1hbnA 549 6.74e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1g8pA 350 6.80e+01 1g8pA c.37.1.20 60376 1mroA 548 6.80e+01 1mroA a.89.1.1,d.58.31.2 18525,39443 1s28A 132 6.89e+01 d.198.1.1 105223 1keaA 221 6.89e+01 a.96.1.2 68491 1vddA 228 6.90e+01 e.49.1.1 108519 1xrsA 516 6.93e+01 2bjcA 62 6.96e+01 1zhxA 438 6.99e+01 1u00A 227 6.99e+01 1mhyB 395 7.01e+01 1mtyB a.25.1.2 16781 1w27A 714 7.11e+01 1fpoA 171 7.17e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1evyA 366 7.17e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 2ar0A 541 7.34e+01 1or0A 160 7.34e+01 d.153.1.2 93445 2gfsA 372 7.48e+01 1ew4A 106 7.52e+01 1ew4A d.82.2.1 40023 1fm2A 169 7.54e+01 1fm2A d.153.1.2 59877 1uouA 474 7.59e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1p5sA 203 7.62e+01 a.40.1.1 94147 1ds1A 324 7.69e+01 1drtA b.82.2.2 28127 2utgA 70 7.82e+01 1utg a.101.1.1 18814 1tjoA 182 7.82e+01 1h5wA 309 7.89e+01 e.27.1.1 65635 2h1nA 567 7.94e+01 1mojA 182 8.00e+01 a.25.1.1 91367 1sly 618 8.04e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1x46A 150 8.04e+01 1svsA 353 8.09e+01 c.37.1.8 106051 1ez0A 510 8.10e+01 1eyyA c.82.1.1 35385 1utg 70 8.19e+01 1utg a.101.1.1 18813 3pviA 157 8.20e+01 3pviA c.52.1.6 33300 1z3xA 238 8.23e+01 2a1iA 146 8.28e+01 1avoB 140 8.29e+01 1avoB 1nznA 126 8.44e+01 a.118.8.1 92382 1r31A 428 8.46e+01 d.58.20.1,d.179.1.1 96897,96898 1y5iC 225 8.50e+01 2fk8A 318 8.51e+01 1kpsB 171 8.71e+01 a.118.12.1 68787 1vqrA 297 8.73e+01 1l9lA 74 8.77e+01 a.64.1.1 77827 2c12A 439 8.78e+01 2a9iA 113 8.78e+01 2b0jA 358 8.81e+01 1cm5A 759 8.95e+01 1cm5A c.7.1.1 30671