# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1g2qA 187 1.30e-15 c.61.1.1 65117 1dkuA 317 6.19e-15 1dkuA c.61.1.2 34118 c.61.1.2 34119 1l1qA 186 8.46e-15 c.61.1.1 77653 1o57A 291 1.12e-13 unknown_sccs -249 c.61.1.1 -7960 1ecfA 504 1.14e-13 1ecfB c.61.1.1 34053 d.153.1.1 41820 1opr 213 1.67e-13 1opr c.61.1.1 34091 1lh0A 213 3.03e-13 c.61.1.1 73896 1oroA 213 6.54e-13 1opr c.61.1.1 34093 1qb7A 236 1.07e-12 1qb7A c.61.1.1 34087 1bzyA 217 5.20e-12 1qk3A c.61.1.1 34071 1cjbA 231 1.60e-10 1qk3A c.61.1.1 34079 1hgxA 183 2.91e-10 1tc1A c.61.1.1 34027 1fsgA 233 3.98e-10 1qk3A c.61.1.1 34029 1tc1A 220 4.36e-10 1tc1A c.61.1.1 34083 1a3c 181 5.49e-10 1a3c c.61.1.1 34095 1o5oA 221 2.37e-09 c.61.1.1 -7954 1nulA 152 3.32e-08 1nulA c.61.1.1 34011 1dqpA 230 5.73e-06 1dqnA c.61.1.1 34069 1dqnA 230 7.15e-06 1dqnA c.61.1.1 34067 1bd3A 243 4.48e-05 1bd3A c.61.1.1 34098 1kq3A 376 8.80e-02 e.22.1.2 68790 1to6A 371 1.54e-01 1usgA 346 8.35e-01 c.93.1.1 -8635 1uasA 362 9.85e-01 b.71.1.1 88388 c.1.8.1 88389 1d2nA 272 1.01e+00 1d2nA c.37.1.20 32428 1nsf 273 1.01e+00 1d2nA c.37.1.20 32429 1jq5A 370 1.11e+00 e.22.1.2 67084 1e5dA 402 1.18e+00 1e5dA c.23.5.1 31208 d.157.1.3 42061 1mk4A 157 1.24e+00 d.108.1.1 84979 1vj1A 363 1.37e+00 b.35.1.2 -3728 c.2.1.1 -5752 1j7xA 302 1.65e+00 c.14.1.2 66425 1cf9A 753 1.66e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1on3A 523 1.80e+00 c.14.1.4 87107 c.14.1.4 87108 1rj9A 304 2.23e+00 a.24.13.1 -631 c.37.1.10 -7129 1jnyA 435 2.39e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1p80A 753 2.41e+00 c.23.16.3 -6547 e.5.1.1 -11840 1g5aA 628 2.57e+00 b.71.1.1 65152 c.1.8.1 65153 1jv1A 505 2.76e+00 c.68.1.5 71892 1i60A 278 2.85e+00 c.1.15.4 71118 1f0kA 364 2.87e+00 1f0kA c.87.1.2 35465 1tmy 120 3.03e+00 1dbwA c.23.1.1 31083 1o97D 320 3.09e+00 c.26.2.3 81233 c.31.1.2 81234 1cg2A 393 3.09e+00 1cg2A c.56.5.4 33844 d.58.19.1 39360 1f6dA 376 3.15e+00 1f6dA c.87.1.3 35467 1o2dA 371 3.25e+00 e.22.1.2 86591 1q9iA 571 3.26e+00 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1dljA 402 3.29e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1exmA 405 3.45e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1byb 495 3.46e+00 1byb c.1.8.1 28790 1jjeA 222 3.47e+00 1a7tA d.157.1.1 63117 1jdpA 441 3.57e+00 c.93.1.1 62906 1pea 385 3.58e+00 1pea c.93.1.1 35662 1e39A 571 3.71e+00 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1o97C 264 3.74e+00 c.26.2.3 81232 1el5A 389 3.75e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1v3hA 495 3.93e+00 1q6cA 495 4.05e+00 c.1.8.1 -5300 1lk5A 229 4.22e+00 unknown_sccs 73960 d.58.40.1 73961 1fjgB 256 4.50e+00 1fjfB c.23.15.1 31400 1cf2O 337 4.90e+00 1b7gO c.2.1.3 29994 d.81.1.1 39909 1dekA 241 5.13e+00 1dekA c.37.1.1 31842 1o58A 303 5.21e+00 c.79.1.1 -8503 1brt 277 5.27e+00 1brt c.69.1.12 34699 1fs5A 266 5.29e+00 unknown_sccs 65044 1hdoA 206 5.41e+00 1he2A c.2.1.2 60965 1nriA 306 5.47e+00 c.80.1.3 86123 1uj6A 227 5.50e+00 1iirA 415 5.91e+00 1iirA c.87.1.5 62453 1auoA 218 5.93e+00 1auoA c.69.1.14 34716 1b06A 210 5.94e+00 1avmA a.2.11.1 15740 d.44.1.1 38737 1ha3A 405 6.16e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1l7mA 211 6.31e+00 c.108.1.4 73664 1fp2A 352 6.31e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1jeoA 180 6.50e+00 c.80.1.3 66611 1rpnA 335 6.86e+00 c.2.1.2 -5759 1nslA 184 7.02e+00 d.108.1.1 86137 1us5A 314 7.26e+00 c.94.1.1 -8686 1pixA 587 7.36e+00 c.14.1.4 -6282 1vjnA 220 7.41e+00 unknown_sccs -11458 1lwjA 441 7.45e+00 b.71.1.1 74303 c.1.8.1 74304 1va4A 279 7.53e+00 1nu0A 138 7.53e+00 unknown_sccs -7658 1k2yX 463 7.83e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1lx7A 253 7.93e+00 c.56.2.1 74329 1j97A 211 7.96e+00 1f5sA c.108.1.4 62753 1db3A 372 7.96e+00 1db3A c.2.1.2 29813 1broA 277 8.00e+00 1brt c.69.1.12 34700 2bc2A 227 8.03e+00 1a7tA d.157.1.1 42031 1vimA 200 8.05e+00 c.80.1.3 -8532 1whtB 153 8.33e+00 1whtB 1v74A 107 8.39e+00 unknown_sccs -9319 1eonA 245 8.54e+00 1rvaA c.52.1.2 33238 1bw0A 416 8.81e+00 1bw0A c.67.1.1 34385 1whsB 153 8.86e+00 1whtB 1qopB 396 8.91e+00 2tysB c.79.1.1 35270 2lbp 346 8.97e+00 2liv c.93.1.1 35709 1p5dX 463 9.04e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1rxyA 253 9.26e+00 c.56.2.1 -7834 4pgaA 337 9.32e+00 4pgaA c.88.1.1 35565 1h2eA 207 9.59e+00 c.60.1.1 70857 1pg5A 299 9.62e+00 2pfkA 320 9.80e+00 3pfk c.89.1.1 35577 1sx5A 244 9.83e+00 c.52.1.2 -7551 1kzyC 259 9.92e+00 c.15.1.4 73383 c.15.1.4 73384 1m1nB 522 1.01e+01 c.92.2.3 78418 1vi6A 208 1.02e+01 c.23.15.1 -6489 1q8iA 783 1.04e+01 c.55.3.5 -7635 e.8.1.1 -11885 1oaoA 674 1.06e+01 e.26.1.2 86744 1gewA 356 1.10e+01 1gewA c.67.1.1 60470 1gmxA 108 1.10e+01 c.46.1.3 65355 1bxoA 323 1.11e+01 2er7E b.50.1.2 26805 3tgl 269 1.12e+01 3tgl c.69.1.17 34733 1poiA 317 1.13e+01 1poiA unknown_sccs 34153 1pjqA 457 1.14e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1fg7A 356 1.14e+01 1gewA c.67.1.1 59819 1m3uA 264 1.16e+01 c.1.12.8 84784 1io2A 213 1.17e+01 1ekeA c.55.3.1 62612 1ffa 214 1.19e+01 1cex unknown_sccs 31289 1dc1A 323 1.21e+01 1dc1A c.52.1.11 33321 1cex 214 1.22e+01 1cex unknown_sccs 31285 1ewkA 490 1.25e+01 1ewkA c.93.1.1 35712 1p99A 295 1.26e+01 c.94.1.1 -8697 1rxxA 421 1.26e+01 unknown_sccs -10982 1b25A 619 1.27e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1fts 295 1.30e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1lba 146 1.33e+01 1lba d.118.1.1 41062 1fxmA 302 1.38e+01 1taxA 1jjtA 228 1.38e+01 1a7tA d.157.1.1 63139 1m2xA 223 1.39e+01 d.157.1.1 84764 1nbwB 117 1.40e+01 c.51.3.2 80396 1garA 212 1.40e+01 2gar c.65.1.1 34162 1im5A 180 1.42e+01 unknown_sccs 66211 1ktbA 405 1.43e+01 b.71.1.1 72960 c.1.8.1 72961 1v1rA 400 1.45e+01 1jysA 242 1.45e+01 c.56.2.1 77216 1kao 167 1.48e+01 1ctqA c.37.1.8 32014 1jx4A 352 1.48e+01 unknown_sccs -10188 unknown_sccs -11898 1qv9A 283 1.50e+01 unknown_sccs -6888 1rvaA 244 1.54e+01 1rvaA c.52.1.2 33240 1st9A 143 1.57e+01 c.47.1.10 -7503 1qh5A 260 1.57e+01 1qh5A d.157.1.2 42057 1q1gA 276 1.58e+01 c.56.2.1 -7846 1on0A 158 1.61e+01 d.108.1.1 87095 1qh8A 478 1.61e+01 1qguA c.92.2.3 35633 1jbeA 128 1.63e+01 3chy c.23.1.1 62845 1pwhA 327 1.65e+01 c.79.1.1 -8524 3chy 128 1.66e+01 3chy c.23.1.1 31038 1kssA 571 1.67e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1ps9A 671 1.67e+01 c.1.4.1 -5206 1rpjA 288 1.68e+01 2dri c.93.1.1 35656 1pmmA 466 1.72e+01 c.67.1.6 -8159 1uok 558 1.72e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1e19A 314 1.73e+01 1b7bA c.73.1.1 34967 2dri 271 1.73e+01 2dri c.93.1.1 35637 1r6xA 395 1.73e+01 b.122.1.3 -5125 c.26.1.5 -6620 1olsA 400 1.77e+01 c.36.1.11 -6959 1hkhA 279 1.78e+01 c.69.1.12 -8342 1i1wA 303 1.81e+01 c.1.8.3 76732 1mb3A 124 1.81e+01 c.23.1.1 78907 1uu1A 335 1.82e+01 c.67.1.1 -8146 1g0cA 364 1.84e+01 7a3hA c.1.8.3 60165 1g8lA 411 1.85e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1m7yA 435 1.88e+01 c.67.1.4 78761 1j0aA 325 1.90e+01 c.79.1.1 83871 1q16A 1247 1.91e+01 b.52.2.2 -4337 c.81.1.1 -8547 1ko3A 230 1.92e+01 d.157.1.1 -11454 1b8gA 429 1.95e+01 1b8gA c.67.1.4 34499 1uf5A 303 1.97e+01 1i1qA 520 1.99e+01 1qdlA d.161.1.1 61543 1eq2A 310 1.99e+01 1eq2A c.2.1.2 29814 1bqcA 302 2.00e+01 1bqcA c.1.8.3 28831 1erzA 303 2.01e+01 1erzA d.160.1.2 59498 1l2uA 245 2.02e+01 c.1.2.3 73516 1amp 291 2.03e+01 1amp c.56.5.4 33837 1lokA 291 2.03e+01 c.56.5.4 78122 1p1jA 533 2.03e+01 c.2.1.3 87687 d.81.1.3 87688 1lfwA 470 2.05e+01 c.56.5.4 77942 d.58.19.1 77943 1ptf 88 2.06e+01 1ptf d.94.1.1 40549 1n62B 809 2.07e+01 d.41.1.1 80092 d.133.1.1 80093 1mqoA 227 2.07e+01 1m3sA 186 2.12e+01 c.80.1.3 78573 1qw9A 502 2.12e+01 b.71.1.2 -4677 c.1.8.3 -5348 1kl7A 514 2.13e+01 c.79.1.1 72678 1e5xA 486 2.13e+01 c.79.1.1 59283 1hjxA 362 2.19e+01 c.1.8.5 83512 d.26.3.1 83513 1uumA 372 2.19e+01 c.1.4.1 -5193 1g2oA 268 2.20e+01 1b8oA c.56.2.1 60228 1q7sA 117 2.21e+01 unknown_sccs -7522 1qj2B 809 2.27e+01 1qj2B 1cjxA 357 2.28e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1ewqA 765 2.31e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1jf9A 408 2.34e+01 1c0nA c.67.1.3 62931 1vjpA 394 2.34e+01 c.2.1.3 -5897 d.81.1.3 -10480 1j99A 293 2.35e+01 c.37.1.5 71618 1em8A 147 2.36e+01 unknown_sccs -7272 1cv8 174 2.39e+01 1cv8 d.3.1.1 37089 1zrn 232 2.41e+01 1qq5A c.108.1.1 43323 1fc6A 388 2.45e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1nt4A 391 2.48e+01 c.60.1.2 -7942 1efvB 255 2.49e+01 1efvB c.26.2.3 31634 1nnlA 225 2.52e+01 c.108.1.4 85906 1rpxA 230 2.52e+01 1rpxA c.1.2.2 28536 1oi7A 288 2.52e+01 c.2.1.8 87049 c.23.4.1 87050 1owqA 361 2.53e+01 1byi 224 2.56e+01 1byi c.37.1.10 32199 1l3iA 192 2.56e+01 c.66.1.22 77676 1g3mA 294 2.59e+01 c.37.1.5 83268 1j2rA 199 2.61e+01 unknown_sccs -6799 1nfjA 89 2.64e+01 d.68.6.1 -10285 1o98A 511 2.72e+01 c.105.1.1 86684 c.76.1.3 86685 1qlwA 328 2.76e+01 1qlwA c.69.1.15 34722 1iupA 282 2.80e+01 c.69.1.10 76815 1aisB 200 2.80e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1scuA 288 2.80e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1vk4A 298 2.84e+01 c.72.1.1 -8414 1j8mF 297 2.86e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1m7gA 211 2.89e+01 c.37.1.4 78724 1aky 221 2.90e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1iyeA 309 2.92e+01 e.17.1.1 83786 1gs5A 258 2.94e+01 c.73.1.2 70395 1m4zA 238 2.96e+01 b.34.12.1 78630 1dv1A 449 2.96e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1evlA 401 2.98e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1b8oA 284 3.03e+01 1b8oA c.56.2.1 33762 1gmlA 178 3.03e+01 c.8.5.2 70273 2bvwA 362 3.04e+01 1bvwA c.6.1.1 30666 1qvbA 481 3.05e+01 1qvbA c.1.8.4 28983 1e58A 249 3.05e+01 1qhfA c.60.1.1 59262 1t82A 155 3.06e+01 1jflA 228 3.09e+01 c.78.2.1 71656 c.78.2.1 71657 1h65A 270 3.13e+01 c.37.1.8 65640 1gudA 288 3.13e+01 c.93.1.1 83326 1ne7A 289 3.13e+01 unknown_sccs -6858 1fpzA 212 3.16e+01 1fpzA c.45.1.1 59976 1bg6 359 3.17e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1dciA 275 3.18e+01 1dciA c.14.1.3 30918 1reqB 637 3.21e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1lci 550 3.21e+01 1lci e.23.1.1 43349 1pwxA 254 3.27e+01 c.2.1.2 -5858 1d9tA 289 3.27e+01 1deaA 7aatA 401 3.29e+01 1ajsA c.67.1.1 34250 1pieA 419 3.29e+01 d.14.1.5 -9075 unknown_sccs -10120 1jcfA 344 3.32e+01 c.55.1.1 62878 c.55.1.1 62879 1ixlA 131 3.33e+01 d.38.1.5 -9705 1nv8A 284 3.33e+01 c.66.1.30 86224 1i6wA 181 3.37e+01 1i6wA c.69.1.18 61859 1mqeA 207 3.40e+01 d.113.1.1 -10884 1soxA 466 3.41e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1v93A 296 3.46e+01 c.1.23.1 -5654 1knwA 425 3.50e+01 b.49.2.3 -4274 c.1.6.1 -5229 1qj4A 257 3.50e+01 1qj4A c.69.1.20 34796 1ex2A 189 3.53e+01 1ex2A c.51.4.2 33225 1gzsB 165 3.55e+01 a.168.1.1 76425 1f7uA 607 3.57e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1ngvA 534 3.59e+01 c.111.1.2 85698 1l8nA 679 3.61e+01 c.1.8.10 84564 d.92.2.2 84565 1m40A 263 3.64e+01 e.3.1.1 74437 1g0hA 252 3.65e+01 1dk4A e.7.1.1 60171 1upaA 573 3.65e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1tk9A 188 3.66e+01 1mdoA 393 3.68e+01 c.67.1.4 79013 1qysA 106 3.70e+01 unknown_sccs -13432 1jkxA 212 3.75e+01 c.65.1.1 66813 1i1kA 309 3.80e+01 1daaA e.17.1.1 61533 1d4oA 184 3.81e+01 1d4oA c.31.1.4 31748 1ispA 181 3.81e+01 c.69.1.18 76778 1p8xA 344 3.83e+01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1o60A 292 3.84e+01 c.1.10.4 -5549 1k9sA 237 3.86e+01 c.56.2.1 68359 1fzrA 138 3.91e+01 1fzrA c.52.1.17 33336 1ro7A 259 3.91e+01 unknown_sccs -7322 1v8aA 265 3.92e+01 c.72.1.2 -8379 1eziA 228 3.99e+01 1eyrA c.68.1.13 34512