# List of top-scoring protein chains for t04-100-30-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 1gvoA 364 2.78e-01 c.1.4.1 76357 1z47A 355 2.91e-01 1h61A 364 3.49e-01 1oyc c.1.4.1 60657 2b99A 156 4.03e-01 1vyrA 364 4.17e-01 c.1.4.1 108906 1xx4A 261 4.57e-01 2abbA 364 4.96e-01 1vypX 364 5.13e-01 c.1.4.1 108905 1l2tA 235 5.27e-01 c.37.1.12 73514 1jf8A 131 5.50e-01 c.44.1.1 66621 1vp8A 201 7.69e-01 1e19A 314 8.16e-01 1b7bA c.73.1.1 34967 1mb3A 124 8.49e-01 c.23.1.1 78907 1fobA 334 9.17e-01 c.1.8.3 83255 1ekeA 230 9.75e-01 1ekeA c.55.3.1 33572 1tmy 120 1.03e+00 1dbwA c.23.1.1 31083 2c31A 568 1.14e+00 1b0uA 262 1.14e+00 1b0uA c.37.1.12 32370 1h6zA 913 1.17e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1sg4A 260 1.28e+00 1c9kA 180 1.32e+00 1c9kB c.37.1.11 32363 1ek0A 170 1.33e+00 1ctqA c.37.1.8 32076 1jmvA 141 1.35e+00 c.26.2.4 66897 1u0sY 118 1.37e+00 c.23.1.1 107566 1a04A 215 1.41e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1pvdA 537 1.46e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1z2lA 423 1.47e+00 1cnzA 363 1.49e+00 1cnzA c.77.1.1 35061 2reb 352 1.49e+00 2reb c.37.1.11,d.48.1.1 32282,38767 1hp1A 516 1.54e+00 d.114.1.1,d.159.1.2 70976,70977 1i39A 225 1.56e+00 1ekeA c.55.3.1 61585 2ct8A 497 1.80e+00 1u94A 356 1.89e+00 c.37.1.11,d.48.1.1 107743,107744 1k77A 260 1.97e+00 c.1.15.5 72096 7odcA 424 1.98e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1ush 550 2.01e+00 1ush d.114.1.1,d.159.1.2 40923,42079 1h49A 512 2.31e+00 c.1.8.4 83477 2b61A 377 2.32e+00 1eiwA 111 2.41e+00 1eiwA c.23.3.1 31130 1e55A 512 2.44e+00 1e70M c.1.8.4 28934 1bg4 302 2.50e+00 1taxA c.1.8.3 28806 1io2A 213 2.51e+00 1ekeA c.55.3.1 62612 1rvgA 305 2.53e+00 c.1.10.2 97920 1qo2A 241 2.63e+00 1qo2A c.1.2.1 28533 1yvkA 163 2.77e+00 1mzjA 339 2.91e+00 c.95.1.2,c.95.1.2 79700,79701 1gegA 256 2.93e+00 1ybvA c.2.1.2 29888 1uyrA 737 2.97e+00 c.14.1.4,c.14.1.4 100188,100189 1ep3A 311 3.01e+00 2dorA c.1.4.1 28597 1es9A 232 3.08e+00 1wab c.23.10.3 31340 2gzxA 265 3.11e+00 1qvbA 481 3.16e+00 1qvbA c.1.8.4 28983 1cr1A 296 3.19e+00 1cr1A c.37.1.11 32286 1ru8A 232 3.20e+00 c.26.2.1 97849 1lt8A 406 3.29e+00 c.1.26.1 78186 1wab 232 3.42e+00 1wab c.23.10.3 31341 1srrA 124 3.43e+00 1dz3A c.23.1.1 31110 2a67A 167 3.46e+00 1jjiA 311 3.52e+00 c.69.1.2 66766 1e9lA 377 3.56e+00 1e9lA c.1.8.5,d.26.3.1 59395,59396 1h3fA 432 3.71e+00 c.26.1.1,d.66.1.4 76631,76632 1phk 298 3.82e+00 1cdkA d.144.1.7 41635 2gclA 261 3.83e+00 1qv9A 283 3.91e+00 c.127.1.1 96356 2axyA 73 4.17e+00 2gshA 414 4.19e+00 1k66A 149 4.19e+00 c.23.1.1 90941 1q6oA 216 4.31e+00 c.1.2.3 95986 1r4pB 70 4.32e+00 b.40.2.1 97026 1p5jA 372 4.35e+00 c.79.1.1 104067 1lv7A 257 4.68e+00 c.37.1.20 78232 2az4A 429 4.70e+00 1qwgA 251 4.72e+00 c.1.27.1 96473 1qc7A 101 4.95e+00 1qc7A a.118.14.1 18456 2g76A 335 4.99e+00 1itg 166 5.23e+00 1b9dA c.55.3.2 33661 1yd7A 395 5.26e+00 1vf8A 377 5.26e+00 1kqpA 271 5.29e+00 c.26.2.1 72883 1r2qA 170 5.37e+00 c.37.1.8 96874 1q45A 391 5.38e+00 c.1.4.1 95780 1b6g 310 5.43e+00 1b6g c.69.1.8 34661 1mvoA 136 5.63e+00 c.23.1.1 79513 1dysA 348 5.74e+00 1bvwA c.6.1.1 30669 2ac4A 309 5.77e+00 2fexA 188 5.84e+00 1vc1A 110 5.89e+00 c.13.2.1 108493 1dbiA 280 5.97e+00 1gci c.41.1.1 32543 1ceo 343 6.24e+00 1ceo c.1.8.3 28808 1w5qA 337 6.26e+00 1yu6A 275 6.27e+00 1ofuA 320 6.35e+00 c.32.1.1,d.79.2.1 86972,86973 1ezm 301 6.36e+00 1hyt d.92.1.2 58980 1r0rE 274 6.56e+00 c.41.1.1 96735 1geeA 261 6.60e+00 c.2.1.2 90509 2b7oA 464 6.61e+00 1rhcA 330 6.63e+00 c.1.16.3 97468 1v02A 565 6.64e+00 c.1.8.4 108194 1xjdA 345 6.70e+00 1z41A 338 6.81e+00 1u4gA 301 6.83e+00 d.92.1.2 107670 1w2xA 758 6.83e+00 c.14.1.4,c.14.1.4 109134,109135 1dozA 309 6.88e+00 1ak1 c.92.1.1 35592 1ybdA 239 6.94e+00 1hyvA 166 6.96e+00 1b9dA c.55.3.2 61424 1jykA 254 6.97e+00 c.68.1.13 67458 2ac2A 309 7.02e+00 1howA 373 7.08e+00 1hcl d.144.1.7 41679 1ps9A 671 7.09e+00 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1mzhA 225 7.12e+00 c.1.10.1 79698 1xhcA 367 7.13e+00 1w78A 422 7.24e+00 1exqA 154 7.26e+00 1b9dA c.55.3.2 33646 1y9kA 157 7.29e+00 1ih8A 271 7.33e+00 2nsyA c.26.2.1 62377 1f1zA 273 7.33e+00 1f1zA a.4.5.27,c.52.1.16 16081,33334 1e7rA 321 7.34e+00 1bsvA c.2.1.2 29808 1f28A 297 7.56e+00 1bkpA d.117.1.1 59608 1kay 381 7.58e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1gheA 177 7.62e+00 d.108.1.1 76222 1ne9A 335 7.64e+00 d.108.1.4,d.108.1.4 91839,91840 1kv8A 216 7.65e+00 c.1.2.3 73054 1huqA 164 7.72e+00 1byuA c.37.1.8 32020 1bupA 386 7.75e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1u1wA 298 7.80e+00 1q7zA 566 7.92e+00 c.1.21.2,c.1.26.1 96090,96091 1ujpA 271 8.08e+00 c.1.2.4 99462 2ethA 154 8.24e+00 1vl6A 388 8.27e+00 c.2.1.7,c.58.1.3 108724,108725 1b4kA 337 8.33e+00 1b4kA c.1.10.3 29184 1ltzA 297 8.38e+00 d.178.1.1 74254 1s8nA 205 8.43e+00 c.23.1.1 105374 1gteA 1025 8.58e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1h5qA 265 8.61e+00 1cydA c.2.1.2 60643 1e6uA 321 8.63e+00 1bsvA c.2.1.2 29805 1oxxK 353 8.66e+00 b.40.6.3,c.37.1.12 93715,93716 1h7wA 1025 8.68e+00 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1in4A 334 8.89e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1itwA 741 9.04e+00 c.77.1.2 76793 1g71A 347 9.25e+00 1g71A d.264.1.1 43268 1yuwA 554 9.27e+00 1ydwA 362 9.38e+00 1w5nA 337 9.39e+00 1cseE 274 9.42e+00 1gci c.41.1.1 32481 1w8iA 156 9.45e+00 1ede 310 9.48e+00 1b6g c.69.1.8 34662 1w5fA 353 9.49e+00 2ftxB 64 9.69e+00 1pcxA 810 9.69e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1qfeA 252 9.88e+00 1qfeA c.1.10.1 29167 1ig3A 263 9.97e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1gcoA 261 1.00e+01 1ybvA c.2.1.2 29884 2h4vA 320 1.02e+01 1v8fA 276 1.03e+01 c.26.1.4 100503 1r1dA 247 1.04e+01 c.69.1.29 96813 1xewX 182 1.04e+01 1gqnA 252 1.06e+01 c.1.10.1 90514 1j8mF 297 1.06e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2bm8A 236 1.06e+01 2a1dD 329 1.07e+01 1n2sA 299 1.07e+01 c.2.1.2 79857 1ho1A 242 1.08e+01 1ho1A c.1.24.1 61097 1pm3A 78 1.08e+01 b.41.1.2 94889 1a0cA 438 1.09e+01 1a0cA c.1.15.3 29529 1s95A 333 1.09e+01 d.159.1.3 105375 1lhpA 312 1.09e+01 c.72.1.5 77960 1ac5 483 1.09e+01 1ac5 c.69.1.5 34653 1hkkA 364 1.12e+01 c.1.8.5,d.26.3.1 90634,90635 1umdA 367 1.13e+01 c.36.1.11 99599 1t6kA 278 1.14e+01 1vk9A 151 1.14e+01 c.139.1.1 108640 1zjjA 263 1.15e+01 1thm 279 1.15e+01 1gci c.41.1.1 32544 1ursA 402 1.16e+01 c.94.1.1 99833 1zarA 282 1.17e+01 1nu7D 282 1.17e+01 a.8.6.1,a.8.6.1 92191,92192 2ge3A 170 1.18e+01 2tpsA 227 1.22e+01 2tpsA c.1.3.1 28591 1b8gA 429 1.23e+01 1b8gA c.67.1.4 34499 2av4A 162 1.23e+01 1z4eA 153 1.24e+01 2cqnA 77 1.24e+01 1vhnA 318 1.24e+01 c.1.4.1 100693 1xrsA 516 1.24e+01 1ig8A 486 1.24e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1xubA 298 1.24e+01 1yavA 159 1.24e+01 1gzgA 337 1.25e+01 c.1.10.3 70805 2czdA 208 1.25e+01 2fukA 220 1.26e+01 1odzA 386 1.30e+01 c.1.8.3 86889 1tv8A 340 1.32e+01 c.1.28.3 107352 1pfkA 320 1.32e+01 3pfk c.89.1.1 35575 2feaA 236 1.33e+01 1uehA 253 1.37e+01 c.101.1.1 99259 1svdA 473 1.37e+01 1ynuA 473 1.37e+01 1v1pA 211 1.37e+01 b.40.2.2,d.15.6.1 108268,108269 1o58A 303 1.40e+01 c.79.1.1 92491 1vl8A 267 1.40e+01 c.2.1.2 108733 2c07A 285 1.40e+01 1wstA 417 1.40e+01 1g6hA 257 1.42e+01 1gajA c.37.1.12 60318 1q8yA 373 1.42e+01 d.144.1.7 96234 1c96A 753 1.43e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1nq6A 302 1.45e+01 c.1.8.3 92046 2a1fA 247 1.46e+01 1f9yA 158 1.47e+01 d.58.30.1 83249 1ccwA 137 1.47e+01 1be1 c.23.6.1 31238 1ivyA 452 1.48e+01 1ivyA c.69.1.5 34654 1kblA 873 1.50e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1efvB 255 1.50e+01 1efvB c.26.2.3 31634 1g5aA 628 1.52e+01 b.71.1.1,c.1.8.1 65152,65153 1bl3A 160 1.53e+01 1b9dA c.55.3.2 33655 1k1xA 659 1.54e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 2b5dX 528 1.55e+01 1gmlA 178 1.55e+01 c.8.5.2 70273 2fhxA 246 1.56e+01 2cwxA 430 1.57e+01 2gjgA 248 1.58e+01 1iirA 415 1.59e+01 1iirA c.87.1.5 62453 1ypfA 336 1.61e+01 1k1eA 180 1.62e+01 c.108.1.5 67995 1edqA 540 1.62e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1pwhA 327 1.62e+01 c.79.1.1 95224 1zcoA 262 1.63e+01 1qpoA 284 1.64e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1ufkA 254 1.65e+01 c.66.1.39 99340 1fmcA 255 1.65e+01 1cydA c.2.1.2 29856 2anuA 255 1.65e+01 1q6cA 495 1.66e+01 c.1.8.1 95970 2d2jA 329 1.66e+01 1t0fA 276 1.67e+01 2hcyA 347 1.67e+01 1yadA 221 1.70e+01 1ej2A 181 1.71e+01 1f9aA c.26.1.3 59414 2fywA 267 1.72e+01 1dd9A 338 1.72e+01 1dd9A e.13.1.1 43254 1zy9A 564 1.73e+01 2bllA 345 1.73e+01 1zs9A 261 1.75e+01 2cdcA 366 1.76e+01 1ka2A 499 1.77e+01 d.92.1.5 77305 1v4vA 376 1.77e+01 c.87.1.3 100313 1eqoA 158 1.78e+01 1hka 2d69A 430 1.79e+01 1fkx 349 1.80e+01 1a4mA c.1.9.1 29018 1m7yA 435 1.80e+01 c.67.1.4 78761 1bqcA 302 1.81e+01 1bqcA c.1.8.3 28831 1q74A 303 1.83e+01 c.134.1.1 96019 1z0jA 170 1.83e+01 1m3uA 264 1.83e+01 c.1.12.8 84784 2f9zC 159 1.83e+01 2bnjA 303 1.85e+01 1on0A 158 1.86e+01 d.108.1.1 87095 1lwjA 441 1.87e+01 b.71.1.1,c.1.8.1 74303,74304 1p4fA 293 1.87e+01 d.144.1.7 104063 2d13A 227 1.90e+01 1qtwA 285 1.92e+01 1qumA c.1.15.1 29392 1tqmA 282 1.93e+01 a.4.5.56,d.144.1.9 107236,107237 1jndA 420 1.93e+01 c.1.8.5,d.26.3.1 71757,71758 1j7nA 776 1.94e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 1zckA 154 1.95e+01 1bif 469 1.95e+01 1bif c.37.1.7,c.60.1.4 31961,34003 8acn 754 1.97e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1epuA 591 1.98e+01 1dn1A e.25.1.1 43358 1v6tA 255 1.99e+01 1r6xA 395 2.00e+01 b.122.1.3,c.26.1.5 97167,97168 2masA 314 2.02e+01 2masA c.70.1.1 34810 1in6A 334 2.02e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1z3eA 132 2.03e+01 2b81A 323 2.04e+01 1ma3A 253 2.04e+01 c.31.1.5 78883 1dkiA 371 2.06e+01 1dkiA d.3.1.1 37090 1nzjA 298 2.06e+01 c.26.1.1 92377 1y1oA 203 2.06e+01 1wzlA 585 2.06e+01 1auk 489 2.06e+01 1auk c.76.1.2 35030 1jx7A 117 2.06e+01 c.114.1.1 77195 2azpA 318 2.06e+01 1usgA 346 2.08e+01 c.93.1.1 99864 1ta3B 303 2.08e+01 c.1.8.3 106732 1m7xA 617 2.08e+01 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1ctn 540 2.08e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 1byb 495 2.10e+01 1byb c.1.8.1 28790 1t8tA 271 2.12e+01 c.37.1.5 106685 1g291 372 2.14e+01 1g291 1ciy 590 2.14e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1fjhA 257 2.15e+01 1fjhB c.2.1.2 29870 1gca 309 2.15e+01 1gca c.93.1.1 35659 1j31A 262 2.15e+01 d.160.1.2 90808 1qhfA 240 2.17e+01 1qhfA c.60.1.1 33960 1y80A 210 2.17e+01 1i1wA 303 2.18e+01 c.1.8.3 76732 1xttA 216 2.18e+01 1o4vA 183 2.19e+01 c.23.8.1 86628 1oxsC 353 2.20e+01 b.40.6.3,c.37.1.12 87519,87520 1u24A 337 2.22e+01 1u6tA 121 2.23e+01 1xi3A 215 2.24e+01 c.1.3.1 109601 1lldA 319 2.24e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1jksA 294 2.27e+01 d.144.1.7 71710 1to2E 281 2.27e+01 1cunA 213 2.28e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 1n2eA 300 2.29e+01 c.26.1.4 85268 1o66A 275 2.30e+01 c.1.12.8 92547 2bpqA 373 2.31e+01 1d3gA 367 2.32e+01 1d3gA c.1.4.1 28600 2b0mA 393 2.33e+01 1j5pA 253 2.33e+01 d.81.1.3,c.2.1.3 71577,83092 1ak5 503 2.33e+01 1ak5 c.1.5.1 28639 1m8jA 181 2.36e+01 c.26.1.3 84875 1lw7A 365 2.36e+01 c.26.1.3,c.37.1.1 74295,74296 1ur1A 378 2.37e+01 c.1.8.3 99804 1v71A 323 2.38e+01 1vmoA 163 2.39e+01 1vmoA b.77.1.1 27974 1o0yA 260 2.39e+01 c.1.10.1 80756 1q35A 320 2.40e+01 c.94.1.1 95661 1wg8A 285 2.40e+01 2dri 271 2.40e+01 2dri c.93.1.1 35637 1n13B 113 2.42e+01 1gu7A 364 2.46e+01 b.35.1.2,c.2.1.1 83321,83322 1p5dX 463 2.47e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1pea 385 2.49e+01 1pea c.93.1.1 35662 1y7lA 316 2.49e+01 1u2eA 289 2.50e+01 1hzyA 332 2.50e+01 1pscA c.1.9.3 61468 1gpuA 680 2.50e+01 c.36.1.10,c.36.1.6,c.48.1.1 65454,65455,65456 1lw6E 281 2.52e+01 c.41.1.1 74293 2ajrA 331 2.52e+01 2fi9A 128 2.52e+01 2ffjA 300 2.52e+01 1jflA 228 2.53e+01 c.78.2.1,c.78.2.1 71656,71657 1g8fA 511 2.53e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1v60A 123 2.55e+01 1uqtA 482 2.56e+01 c.87.1.6 99794 1sup 275 2.57e+01 1gci c.41.1.1 32510 2b8eA 273 2.59e+01 2cxxA 190 2.59e+01 1u5pA 216 2.60e+01 1j6oA 268 2.62e+01 c.1.9.12 77088 2dbqA 334 2.64e+01 2lbp 346 2.64e+01 2liv c.93.1.1 35709 1gvfA 286 2.68e+01 c.1.10.2 70599 1mtzA 293 2.68e+01 c.69.1.7 79467 2a6aA 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