# List of top-scoring protein chains for t2k-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 1fobA 334 1.12e-01 c.1.8.3 83255 1xx4A 261 8.49e-01 2ct8A 497 8.77e-01 1nxmA 197 8.89e-01 b.82.1.1 86385 1gv4A 528 9.74e-01 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1l2tA 235 1.52e+00 c.37.1.12 73514 1vyrA 364 1.53e+00 c.1.4.1 108906 1gvoA 364 1.54e+00 c.1.4.1 76357 1z47A 355 1.63e+00 1vypX 364 1.65e+00 c.1.4.1 108905 1h61A 364 1.67e+00 1oyc c.1.4.1 60657 2abbA 364 1.83e+00 2b99A 156 1.88e+00 1sg4A 260 2.03e+00 1kn0A 212 2.11e+00 d.50.1.3 77444 1hp1A 516 2.36e+00 d.114.1.1,d.159.1.2 70976,70977 2f5tX 233 2.40e+00 1ush 550 2.55e+00 1ush d.114.1.1,d.159.1.2 40923,42079 1yvkA 163 2.89e+00 1e7rA 321 3.19e+00 1bsvA c.2.1.2 29808 1m6iA 493 3.26e+00 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1te0A 318 3.39e+00 1bsvA 321 3.79e+00 1bsvA c.2.1.2 29809 1e6uA 321 4.07e+00 1bsvA c.2.1.2 29805 1bwsA 321 4.10e+00 1bsvA c.2.1.2 29812 1gfsA 321 4.14e+00 c.2.1.2 29811 1c9kA 180 4.57e+00 1c9kB c.37.1.11 32363 1w78A 422 4.75e+00 1f28A 297 6.45e+00 1bkpA d.117.1.1 59608 1vjoA 393 6.59e+00 c.67.1.3 100827 1ig3A 263 6.67e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 2b61A 377 6.86e+00 1obdA 306 6.93e+00 d.143.1.1 86767 1zhvA 134 7.37e+00 1a48 306 7.39e+00 1a48 d.143.1.1 41590 1t6kA 278 7.58e+00 1w44A 331 7.61e+00 1p5jA 372 7.74e+00 c.79.1.1 104067 1u1wA 298 8.45e+00 1m5tA 124 8.67e+00 c.23.1.1 78660 1ivyA 452 9.34e+00 1ivyA c.69.1.5 34654 1yprA 125 9.88e+00 3nul d.110.1.1 40888 1xubA 298 1.00e+01 1y9kA 157 1.01e+01 1cbuA 180 1.05e+01 1c9kB c.37.1.11 32360 1mtzA 293 1.06e+01 c.69.1.7 79467 1k77A 260 1.07e+01 c.1.15.5 72096 1z41A 338 1.10e+01 1mb3A 124 1.11e+01 c.23.1.1 78907 1z2lA 423 1.12e+01 1xqwA 293 1.14e+01 1bh6A 274 1.23e+01 1gci c.41.1.1 32487 1vp8A 201 1.26e+01 2gtrA 261 1.30e+01 1y10A 407 1.31e+01 1srrA 124 1.31e+01 1dz3A c.23.1.1 31110 1w5fA 353 1.32e+01 1jf8A 131 1.32e+01 c.44.1.1 66621 2reb 352 1.33e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1c9kB 180 1.35e+01 1c9kB c.37.1.11 32364 2cqnA 77 1.42e+01 1j9jA 247 1.43e+01 c.106.1.1 62758 1zn6A 227 1.48e+01 1h49A 512 1.48e+01 c.1.8.4 83477 2fsp 124 1.50e+01 1dz3A c.23.1.1 31119 1e55A 512 1.50e+01 1e70M c.1.8.4 28934 1j9lA 247 1.53e+01 c.106.1.1 62762 2gqrA 237 1.53e+01 1nekA 588 1.56e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1u9jA 358 1.61e+01 1yu6A 275 1.67e+01 2frnA 278 1.79e+01 1b0uA 262 1.82e+01 1b0uA c.37.1.12 32370 1n82A 331 1.85e+01 c.1.8.3 91703 1lt8A 406 1.88e+01 c.1.26.1 78186 1ko7A 314 1.91e+01 c.98.2.1,c.91.1.2 72797,72798 1vr3A 191 1.94e+01 1vf8A 377 1.94e+01 1jfvA 131 1.96e+01 c.44.1.1 66654 1ebuA 358 2.00e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1lnsA 763 2.02e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1pwhA 327 2.05e+01 c.79.1.1 95224 1e9lA 377 2.08e+01 1e9lA c.1.8.5,d.26.3.1 59395,59396 2b5dX 528 2.08e+01 1v60A 123 2.13e+01 1r0rE 274 2.16e+01 c.41.1.1 96735 1ipd 345 2.17e+01 1cnzA c.77.1.1 35038 1idm 343 2.17e+01 1cnzA c.77.1.1 35035 1avt 274 2.26e+01 1gci c.41.1.1 32488 1xaa 345 2.26e+01 1cnzA c.77.1.1 35033 2anuA 255 2.30e+01 1s72H 171 2.31e+01 d.41.4.1 105327 1z90A 469 2.43e+01 2ucz 165 2.44e+01 1u9aA d.20.1.1 38330 1qv9A 283 2.48e+01 c.127.1.1 96356 1yavA 159 2.52e+01 1i39A 225 2.54e+01 1ekeA c.55.3.1 61585 1z7bA 358 2.55e+01 2aa4A 289 2.62e+01 1s95A 333 2.69e+01 d.159.1.3 105375 1qvbA 481 2.72e+01 1qvbA c.1.8.4 28983 1jmvA 141 2.74e+01 c.26.2.4 66897 1u0sY 118 2.75e+01 c.23.1.1 107566 1gheA 177 2.78e+01 d.108.1.1 76222 1tmy 120 2.83e+01 1dbwA c.23.1.1 31083 2bepA 159 2.89e+01 1vmoA 163 2.96e+01 1vmoA b.77.1.1 27974 1tqzA 133 3.04e+01 1pm3A 78 3.05e+01 b.41.1.2 94889 1lv7A 257 3.07e+01 c.37.1.20 78232 1ac5 483 3.09e+01 1ac5 c.69.1.5 34653 1acf 125 3.09e+01 3nul d.110.1.1 40882 1b31A 302 3.10e+01 1taxA c.1.8.3 28892 1bg4 302 3.10e+01 1taxA c.1.8.3 28806 1wurA 220 3.14e+01 1hjsA 332 3.17e+01 c.1.8.3 83492 1lci 550 3.19e+01 1lci e.23.1.1 43349 1o97C 264 3.19e+01 c.26.2.3 81232 1h5vA 304 3.23e+01 c.1.8.3 70898 1z2iA 358 3.24e+01 1xp8A 366 3.53e+01 1ofuA 320 3.57e+01 c.32.1.1,d.79.2.1 86972,86973 1f2vA 219 3.60e+01 1f2vA c.23.17.1 59627 2fp8A 322 3.62e+01 1s9jA 341 3.64e+01 3nul 130 3.67e+01 3nul d.110.1.1 40891 1vl8A 267 3.67e+01 c.2.1.2 108733 1ydwA 362 3.71e+01 1prq 125 3.74e+01 3nul d.110.1.1 40883 1h3fA 432 3.75e+01 c.26.1.1,d.66.1.4 76631,76632 1cseE 274 3.75e+01 1gci c.41.1.1 32481 1dr8B 344 3.87e+01 1cnzA c.77.1.1 35052 1a04A 215 3.93e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1jkxA 212 3.93e+01 c.65.1.1 66813 1v33A 366 3.94e+01 d.264.1.1 100278 1lg2A 365 3.95e+01 c.1.8.5,d.26.3.1 77950,77951 1cnzA 363 3.99e+01 1cnzA c.77.1.1 35061 1w2xA 758 4.00e+01 c.14.1.4,c.14.1.4 109134,109135 1cr0A 296 4.01e+01 1cr1A c.37.1.11 32287 1v02A 565 4.12e+01 c.1.8.4 108194 1wleA 501 4.14e+01 1a0k 131 4.25e+01 3nul d.110.1.1 40892 1hkkA 364 4.29e+01 c.1.8.5,d.26.3.1 90634,90635 1g7eA 122 4.29e+01 1g7eA c.47.1.7 33055 1u94A 356 4.31e+01 c.37.1.11,d.48.1.1 107743,107744 1v5wA 343 4.40e+01 c.37.1.11 108387 1j8yF 297 4.43e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1um5H 217 4.43e+01 1wy5A 317 4.44e+01 1ojqA 212 4.55e+01 d.166.1.1 93146 1svfB 38 4.57e+01 1svfB h.3.2.1 45764 1qhdA 398 4.62e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 2b7oA 464 4.69e+01 1e4eA 343 4.77e+01 1iow c.30.1.2,d.142.1.1 59221,59222 1g291 372 4.90e+01 1g291 1hka 158 4.91e+01 1hka d.58.30.1 39433 1vqoH 171 4.94e+01 1pcxA 810 4.98e+01 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 1n2sA 299 5.03e+01 c.2.1.2 79857 1uyrA 737 5.04e+01 c.14.1.4,c.14.1.4 100188,100189 1wohA 305 5.17e+01 c.42.1.1 109446 1bqcA 302 5.24e+01 1bqcA c.1.8.3 28831 1wb4A 297 5.37e+01 1kv8A 216 5.40e+01 c.1.2.3 73054 1q6oA 216 5.40e+01 c.1.2.3 95986 1g7sA 594 5.42e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1pmi 440 5.45e+01 1pmi b.82.1.3 28114 1zclA 180 5.45e+01 2c31A 568 5.50e+01 1ciy 590 5.56e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1q7zA 566 5.63e+01 c.1.21.2,c.1.26.1 96090,96091 1oxsC 353 5.64e+01 b.40.6.3,c.37.1.12 87519,87520 1i1hA 219 5.64e+01 1f2vA c.23.17.1 61530 1qpbA 563 5.65e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 7odcA 424 5.68e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1i60A 278 5.70e+01 c.1.15.4 71118 1d7kA 421 5.72e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1oxxK 353 5.72e+01 b.40.6.3,c.37.1.12 93715,93716 1wznA 252 5.78e+01 1kutA 230 5.83e+01 d.143.1.1 73017 1wb0A 445 5.86e+01 1m0wA 491 5.91e+01 c.30.1.4,d.142.1.6 78363,78364 1ps9A 671 6.00e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1m3uA 264 6.02e+01 c.1.12.8 84784 1gklA 297 6.03e+01 c.69.1.2 65250 1phk 298 6.15e+01 1cdkA d.144.1.7 41635 2ffcA 353 6.17e+01 1y7lA 316 6.17e+01 1a3h 300 6.17e+01 7a3hA c.1.8.3 28819 7a3hA 303 6.20e+01 7a3hA c.1.8.3 28817 1orrA 347 6.20e+01 c.2.1.2 93460 1f9vA 347 6.26e+01 1bg2 c.37.1.9 59745 1w0dA 337 6.26e+01 1ltzA 297 6.34e+01 d.178.1.1 74254 1io2A 213 6.43e+01 1ekeA c.55.3.1 62612 1ufwA 95 6.46e+01 d.58.7.1 99358 1ezm 301 6.49e+01 1hyt d.92.1.2 58980 1pwxA 254 6.53e+01 c.2.1.2 95262 1ig0A 319 6.56e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 2biiA 424 6.59e+01 1thm 279 6.61e+01 1gci c.41.1.1 32544 2f5gA 133 6.61e+01 1e19A 314 6.63e+01 1b7bA c.73.1.1 34967 1q1lA 401 6.64e+01 d.258.1.1 95591 1z4eA 153 6.72e+01 1zmtA 254 6.76e+01 1gkkA 297 6.78e+01 c.69.1.2 65248 1zjjA 263 6.78e+01 1edqA 540 6.79e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2ffsA 157 6.83e+01 1ctn 540 6.84e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 3sil 379 6.85e+01 3sil b.68.1.1 27542 1fvuB 125 6.86e+01 1ixxB d.169.1.1 42346 2b6eA 146 6.92e+01 1ua4A 455 6.93e+01 c.72.1.3 99128 1qb7A 236 7.00e+01 1qb7A c.61.1.1 34087 1xfsA 178 7.07e+01 d.129.3.5 109589 2f4nA 273 7.08e+01 1yh6A 179 7.14e+01 2bllA 345 7.30e+01 1o0iA 138 7.49e+01 d.38.1.5 86532 1b73A 254 7.54e+01 1b74A c.78.2.1,c.78.2.1 35266,35267 1ebfA 358 7.55e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1i3kA 348 7.61e+01 1xel c.2.1.2 61595 1k9tA 540 7.67e+01 b.1.18.2,c.1.8.5,d.26.3.1 77298,77299,77300 1bbn 133 7.72e+01 1rcb a.26.1.2 16861 1hcxA 127 7.75e+01 b.109.1.1 65800 1cr1A 296 7.83e+01 1cr1A c.37.1.11 32286 1g71A 347 7.84e+01 1g71A d.264.1.1 43268 1zckA 154 7.84e+01 1e8yA 966 7.87e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1n0wA 243 7.88e+01 c.37.1.11 79772 1h1iB 350 7.96e+01 b.82.1.5 76470 1nnwA 252 8.00e+01 d.159.1.5 80674 2fo1D 85 8.02e+01 1h1iC 350 8.03e+01 b.82.1.5 76471 1qumA 285 8.03e+01 1qumA c.1.15.1 29393 1ek0A 170 8.03e+01 1ctqA c.37.1.8 32076 1xwiA 322 8.10e+01 1juhA 350 8.18e+01 b.82.1.5 71884 2ey4C 82 8.19e+01 1ne9A 335 8.23e+01 d.108.1.4,d.108.1.4 91839,91840 1h1iD 350 8.25e+01 b.82.1.5 76472 1pj5A 830 8.34e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1pea 385 8.34e+01 1pea c.93.1.1 35662 1ff9A 450 8.37e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1g6hA 257 8.39e+01 1gajA c.37.1.12 60318 1tm0A 350 8.42e+01 d.21.1.3 107147 1eiwA 111 8.44e+01 1eiwA c.23.3.1 31130 1eqkA 102 8.46e+01 1eqkA d.17.1.2 37998 1yuwA 554 8.47e+01 1gqnA 252 8.49e+01 c.1.10.1 90514 1o8uA 257 8.58e+01 c.14.1.3 81194 1szoA 257 8.65e+01 c.14.1.3 106164 1j8mF 297 8.65e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2ethA 154 8.71e+01 1kngA 156 8.74e+01 c.47.1.10 72777 1ek6A 348 8.76e+01 1xel c.2.1.2 29800 1qk8A 146 8.82e+01 1ewxA c.47.1.10 33061 2axyA 73 8.84e+01 1m2vB 926 8.84e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78497,78498,78499,78500,78501 1l9wA 252 8.89e+01 c.1.10.1 84570 1eut 605 8.89e+01 1eut b.1.18.2,b.18.1.1,b.68.1.1 21891,23712,27609