# List of top-scoring protein chains for t06-100-30-n_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 1yndA 165 4.70e-24 2bitX 165 9.52e-24 1dywA 173 3.81e-23 2cpl b.62.1.1 27505 1xo7A 166 6.48e-23 2cfeA 162 7.62e-23 1ihgA 370 8.63e-23 2cpl a.118.8.1,b.62.1.1 62380,62381 2rmcA 182 1.65e-22 2cpl b.62.1.1 27491 1vdnA 162 1.77e-22 1zcxA 178 2.28e-22 1h0pA 182 3.13e-22 b.62.1.1 76450 1zkcA 197 2.79e-21 2a2nA 176 4.60e-21 2fu0A 160 1.61e-20 1v9tA 166 1.14e-18 b.62.1.1 108451 1lopA 164 2.45e-18 2cpl b.62.1.1 27510 1zx8A 136 2.99e-01 1bd0A 388 6.65e-01 1bd0A b.49.2.2,c.1.6.1 26480,28642 1erjA 393 6.80e-01 1erjA b.69.4.1 27660 1mxiA 160 7.06e-01 c.116.1.1 79646 1ta8A 332 9.81e-01 1pfo 500 1.62e+00 1pfo f.9.1.1 43826 1k07A 263 1.68e+00 d.157.1.1 77218 1jndA 420 2.06e+00 c.1.8.5,d.26.3.1 71757,71758 1jdw 423 2.14e+00 1jdw d.126.1.2 41129 2bcgG 453 2.25e+00 2as9A 210 2.34e+00 2gk3A 256 2.58e+00 1p1xA 260 2.58e+00 c.1.10.1 104060 1yfqA 342 3.03e+00 1ntyA 311 3.11e+00 a.87.1.1,b.55.1.1 103873,103874 1v7wA 807 3.53e+00 a.102.1.4,b.30.5.3 108411,108412 1bjt 793 3.57e+00 1bjt e.11.1.1 43249 1w0pA 781 3.73e+00 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1qv9A 283 3.92e+00 c.127.1.1 96356 1kdgA 546 4.57e+00 c.3.1.2,d.16.1.1 77337,77338 1vr0A 247 4.73e+00 2a46A 238 4.78e+00 1b77A 228 5.03e+00 1b77A d.131.1.2,d.131.1.2 41362,41363 1vj0A 380 5.03e+00 b.35.1.2,c.2.1.1 100786,100787 2bsxA 253 5.04e+00 2jdxA 385 5.16e+00 1jdw d.126.1.2 41139 1hp1A 516 5.18e+00 d.114.1.1,d.159.1.2 70976,70977 1lf7A 182 5.33e+00 b.60.1.1 73878 1rlr 761 5.76e+00 1rlr a.98.1.1,c.7.1.2 18753,30679 1pg4A 652 6.16e+00 e.23.1.1 88067 1l5aA 436 6.43e+00 c.43.1.2,c.43.1.2 75923,75924 1es5A 262 6.60e+00 1skf e.3.1.1 42679 2bvfA 459 6.96e+00 1hq0A 295 7.02e+00 1hzgA d.194.1.1 61122 1r64A 481 8.35e+00 b.18.1.20,c.41.1.1 97140,97141 1txvA 452 8.36e+00 1gkpA 458 8.88e+00 b.92.1.3,c.1.9.6 70231,70232 1c96A 753 9.06e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1udxA 416 9.17e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 2fd6U 276 9.19e+00 1uok 558 9.34e+00 1uok b.71.1.1,c.1.8.1 27801,28788 1vp4A 425 9.50e+00 1mnaA 298 9.79e+00 c.69.1.22 79322 1sw5B 275 9.91e+00 c.94.1.1 106070 1rx0A 393 1.02e+01 a.29.3.1,e.6.1.1 98007,98008 1vyrA 364 1.05e+01 c.1.4.1 108906 3pcgM 238 1.10e+01 3pchM b.3.6.1 22742 1e8yA 966 1.11e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1twfA 1733 1.11e+01 1dqiA 124 1.16e+01 1do6A b.1.13.1 22357 1gnxA 479 1.17e+01 c.1.8.4 76241 1j58A 385 1.18e+01 b.82.1.2 71531 1p9bA 442 1.20e+01 c.37.1.10 94385 1k7iA 479 1.22e+01 b.80.7.1,d.92.1.6 77281,77282 1lq9A 112 1.37e+01 d.58.4.3 78129 1ixh 321 1.38e+01 1ixh c.94.1.1 35761 2ew0A 192 1.38e+01 2c3mA 1231 1.39e+01 1sw5A 275 1.39e+01 c.94.1.1 106069 1vqvA 306 1.43e+01 1v2xA 194 1.45e+01 c.116.1.1 100274 1g6aA 271 1.45e+01 1btl e.3.1.1 42704 1v7pC 200 1.46e+01 c.62.1.1 108408 1z15A 344 1.48e+01 2ffcA 353 1.51e+01 1q9rB 222 1.55e+01 b.1.1.1,b.1.1.2 96307,96308 1zoxA 113 1.56e+01 1h6uA 308 1.57e+01 b.1.18.15,c.10.2.1 65688,65689 2fdsA 352 1.61e+01 1zlqA 502 1.64e+01 2givA 295 1.66e+01 1qx4A 274 1.72e+01 b.43.4.2,c.25.1.1 104624,104625 1yoeA 322 1.75e+01 1wu7A 434 1.76e+01 1hg8A 349 1.76e+01 b.80.1.3 65830 1ks8A 433 1.80e+01 a.102.1.2 77519 1vjvA 415 1.87e+01 d.3.1.9 108632 1fh0A 221 1.88e+01 1cs8A d.3.1.1 59832 1j71A 334 1.98e+01 1eagA b.50.1.2 62669 1u0fA 564 2.09e+01 2cunA 410 2.10e+01 1a0tP 413 2.12e+01 1a0tP f.4.3.2 43794 1nw1A 429 2.13e+01 d.144.1.8 86286 1wp5A 323 2.15e+01 1e5kA 201 2.15e+01 1fr9A c.68.1.8 34578 1gzcA 239 2.16e+01 b.29.1.1 70803 1r0mA 375 2.22e+01 c.1.11.2,d.54.1.1 104747,104748 1z0nA 96 2.23e+01 1e1oA 504 2.29e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1rdqE 350 2.29e+01 d.144.1.7 97314 1gycA 499 2.30e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1rsgA 516 2.31e+01 1wdnA 226 2.39e+01 1lst c.94.1.1 35816 1rwrA 301 2.39e+01 b.80.1.11 97990 1n82A 331 2.42e+01 c.1.8.3 91703 2b49A 287 2.42e+01 1ym0A 238 2.54e+01 1wvgA 359 2.54e+01 1fwxA 595 2.62e+01 b.6.1.4,b.69.3.1 60069,60070 2essA 248 2.64e+01 1elvA 333 2.67e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1idk 359 2.69e+01 1qcxA b.80.1.2 28025 2fiqA 420 2.69e+01 1vns 609 2.70e+01 1vns a.111.1.3 19061 1jmcA 246 2.71e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1pguA 615 2.74e+01 b.69.4.1,b.69.4.1 88069,88070 2a4dA 160 2.76e+01 1gjjA 168 2.78e+01 a.140.1.1,a.140.1.1 83291,83292 1e8cA 498 2.79e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1fjgE 162 2.84e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 1y7mA 164 2.84e+01 1y08A 323 2.87e+01 1xknA 355 2.88e+01 1vg0A 650 3.00e+01 c.3.1.3,d.16.1.6 108596,108597 1juvA 193 3.00e+01 c.71.1.1 90912 1efpB 252 3.01e+01 1efvB c.26.2.3 31636 1gcyA 527 3.01e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 1siqA 392 3.02e+01 a.29.3.1,e.6.1.1 105585,105586 1pj5A 830 3.08e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1nr0A 611 3.15e+01 b.69.4.1,b.69.4.1 86078,86079 1zoiA 276 3.17e+01 2blnA 305 3.22e+01 1oxwA 373 3.23e+01 c.19.1.3 87539 1w6sA 599 3.37e+01 1xf1A 926 3.43e+01 1z2lA 423 3.63e+01 1qe3A 489 3.63e+01 2bce c.69.1.1 34630 1gc0A 398 3.67e+01 c.67.1.3 70168 1vlbA 907 3.71e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1zd7A 159 3.80e+01 1yzxA 226 3.81e+01 2sli 679 3.91e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1olzA 663 3.92e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1ojjA 402 3.94e+01 b.29.1.10 93130 1jdc 429 3.94e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 2bx6A 350 3.95e+01 1wkyA 464 3.97e+01 2c1lA 358 4.06e+01 1j1nA 492 4.16e+01 c.94.1.1 83978 1ezwA 349 4.19e+01 1ezwA c.1.16.3 29558 1goiA 499 4.20e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1fs5A 266 4.22e+01 c.124.1.1 65044 1z4vA 532 4.24e+01 1pswA 348 4.26e+01 c.87.1.7 88287 1fy7A 278 4.32e+01 1fy7A d.108.1.1 40817 1tf5A 844 4.32e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1e6yA 569 4.39e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1xdwA 331 4.47e+01 1rcqA 357 4.51e+01 b.49.2.2,c.1.6.1 104882,104883 1xksA 450 4.57e+01 1h09A 338 4.59e+01 b.109.1.1,c.1.8.8 83420,83421 1g79A 218 4.60e+01 1ci0A b.45.1.1 25752 1jv1A 505 4.64e+01 c.68.1.5 71892 2cw6A 298 4.70e+01 1pa1A 310 4.70e+01 c.45.1.2 94404 1hm9A 468 4.73e+01 b.81.1.4,c.68.1.5 65866,65867 1k1aA 241 4.74e+01 d.211.1.1 67992 1vr5A 547 4.82e+01 1ig8A 486 4.85e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1sqgA 429 4.91e+01 a.79.1.3,c.66.1.38 105912,105913 1fecA 490 4.94e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1gg4A 452 4.95e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1ri6A 343 5.02e+01 b.69.11.1 97503 2fn0A 437 5.08e+01 1q0qA 406 5.09e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1wl4A 397 5.09e+01 1fn9A 365 5.09e+01 1fn9A d.196.1.1 59894 2bcjB 340 5.11e+01 1kktA 511 5.16e+01 a.102.2.1 68687 1r85A 379 5.16e+01 c.1.8.3 104839 1nf2A 268 5.17e+01 c.108.1.10 91849 1h5rA 293 5.19e+01 c.68.1.6 65623 1oyjA 231 5.20e+01 a.45.1.1,c.47.1.5 87597,87598 3htsB 102 5.26e+01 2hts a.4.5.22 16175 1w18A 493 5.35e+01 2cy5A 140 5.38e+01 1jlyA 304 5.41e+01 1jlyA b.42.3.1,b.42.3.1 25587,25588 1rqbA 539 5.44e+01 a.5.7.2,c.1.10.5 105057,105058 1lam 484 5.51e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1vl1A 232 5.53e+01 c.124.1.1 108707 2fgeA 995 5.55e+01 1evlA 401 5.56e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1rqpA 299 5.58e+01 b.141.1.1,c.132.1.1 97754,97755 1xdpA 687 5.69e+01 1sq2N 113 5.77e+01 b.1.1.1 105881 1ejeA 192 5.83e+01 1ejeA b.45.1.2 25757 1p4kA 295 5.84e+01 d.153.1.5 87772 1zjkA 403 5.84e+01 2ae5B 528 5.85e+01 1ojrA 274 5.86e+01 c.74.1.1 93147 1ukcA 522 5.87e+01 c.69.1.17 107911 1cliA 345 5.88e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2cbiA 594 5.91e+01 2cxnA 557 5.97e+01 1vq2A 193 6.07e+01 1kwfA 363 6.09e+01 a.102.1.2 73078 1dl5A 317 6.22e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1nkgA 508 6.36e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1zjcA 418 6.37e+01 1o7eA 276 6.38e+01 e.3.1.1 92622 1za0A 275 6.39e+01 1lniA 96 6.41e+01 d.1.1.2 74046 1xvxA 312 6.45e+01 2cy7A 396 6.47e+01 2ahuA 531 6.47e+01 1p77A 272 6.48e+01 c.2.1.7,c.58.1.5 94214,94215 1pz7A 204 6.48e+01 b.29.1.4 95405 1kqfA 1015 6.48e+01 b.52.2.2,c.81.1.1 72871,72872 1a9xB 379 6.59e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1wsrA 375 6.60e+01 1ewnA 219 6.65e+01 1bnkA b.46.1.2 25762 1yyqA 374 6.66e+01 1k92A 455 6.66e+01 c.26.2.1,d.210.1.1 68325,68326 1rypI 222 6.70e+01 d.153.1.4 41877 1vecA 206 6.73e+01 c.37.1.19 100575 1gsoA 431 6.79e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1tjxA 159 6.80e+01 1zx1A 231 6.86e+01 1q8iA 783 6.88e+01 c.55.3.5,e.8.1.1 96208,96209 1lshA 1056 7.01e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1w9zA 283 7.10e+01 1cdy 178 7.30e+01 1cdy b.1.1.1,b.1.1.3 19719,21658 1o7iA 119 7.35e+01 b.40.4.3 86642 2aqjA 538 7.39e+01 1hc7A 477 7.42e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1of5A 221 7.44e+01 d.17.4.2 86933 1krs 120 7.45e+01 1krs b.40.4.1 25256 1r8nA 185 7.55e+01 b.42.4.1 104851 1u9iA 519 7.60e+01 1s9jA 341 7.60e+01 1dqwA 267 7.62e+01 1dqwA c.1.2.3 28551 1kgsA 225 7.62e+01 a.4.6.1,c.23.1.1 68596,68597 1c7sA 858 7.77e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1rg8A 146 7.81e+01 1gd1O 334 7.82e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1mjuH 227 7.85e+01 b.1.1.1,b.1.1.2 91302,91303 1ta0A 197 7.88e+01 c.108.1.16 106729 1iicA 422 7.89e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1rk6A 496 7.91e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1wloA 136 8.01e+01 1gotB 340 8.11e+01 1tbgA b.69.4.1 27648 1ufaA 520 8.11e+01 a.8.3.3,c.6.2.4 99329,99330 1thm 279 8.15e+01 1gci c.41.1.1 32544 1a8s 273 8.16e+01 1brt c.69.1.12 34710 2agyA 361 8.18e+01 1cs6A 382 8.20e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 1pjxA 314 8.20e+01 b.68.6.1 104167 1vfjA 116 8.25e+01 1ur4A 399 8.30e+01 1pkhA 204 8.39e+01 b.85.4.1 94832 1f00I 282 8.41e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1nd4A 264 8.41e+01 d.144.1.6 91815 1kwaA 88 8.42e+01 1kwaA b.36.1.1 24772 1qwoA 442 8.44e+01 c.60.1.2 104620 1kv7A 488 8.57e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1ja1A 622 8.58e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1uhgA 385 8.58e+01 e.1.1.1 88491 1ggzA 148 8.59e+01 a.39.1.5 70176 1sg6A 393 8.68e+01 e.22.1.1 105522 1ia8A 289 8.71e+01 1ia8A d.144.1.7 62112 1wxxA 382 8.73e+01 1i12A 160 8.75e+01 1i21A d.108.1.1 61515 2cb2A 318 8.85e+01 1afwA 393 8.99e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 2atpB 115 9.00e+01