# List of top-scoring protein chains for t04-100-30-alpha 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 1g5tA 196 7.45e-01 1g5rA c.37.1.11 32366 1pz7A 204 8.47e-01 1a05A 358 8.89e-01 1cnzA c.77.1.1 35059 1h6lA 353 1.22e+00 b.68.3.1 60687 1bkb 136 1.27e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1lf7A 182 1.35e+00 b.60.1.1 73878 1gsa 316 1.59e+00 1gsa c.30.1.3 31718 d.142.1.1 41477 1nrwA 288 1.63e+00 c.108.1.10 86128 1musA 477 1.74e+00 c.55.3.4 79494 1s1dA 331 1.85e+00 2pooA 355 2.06e+00 1qlgA b.68.3.1 27626 1e2uA 553 2.10e+00 1e1dA e.26.1.1 43362 1qg3A 195 2.17e+00 1qg3A b.1.2.1 21993 b.1.2.1 21994 1uc7A 125 2.33e+00 1n8fA 350 2.54e+00 c.1.10.4 85397 1v4vA 376 2.54e+00 1nlfA 279 2.58e+00 c.37.1.11 85850 1o59A 355 2.60e+00 1n40A 396 2.61e+00 a.104.1.1 79977 1gntA 553 2.85e+00 e.26.1.1 70290 1fsyA 358 3.08e+00 1gceA e.3.1.1 60016 1i1nA 226 3.13e+00 c.66.1.7 71102 1l6rA 227 3.45e+00 c.108.1.10 77768 1lqtA 456 3.59e+00 c.3.1.1 74198 c.4.1.1 74199 1b25A 619 3.61e+00 1b25A a.110.1.1 19044 d.152.1.1 41796 1cx4A 305 4.17e+00 b.82.3.2 59099 b.82.3.2 59100 4pep 326 4.20e+00 1smrA b.50.1.2 26843 1vk4A 298 4.74e+00 1i52A 236 5.19e+00 1i52A c.68.1.13 61767 1f3iA 481 5.19e+00 1b7eA 1g8yA 279 5.31e+00 1g8yA c.37.1.11 32302 4bcl 366 6.02e+00 4bcl b.75.1.1 27968 1vkiA 181 6.16e+00 1of4A 179 6.20e+00 b.18.1.18 86932 1k4nA 192 6.22e+00 d.32.1.5 72059 1rztA 331 6.52e+00 1k3tA 359 6.97e+00 c.2.1.3 72022 d.81.1.1 72023 1jatA 155 7.06e+00 1u9aA d.20.1.1 62818 1j05B 121 7.06e+00 1dp0A 1023 7.33e+00 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1h80A 464 7.66e+00 b.80.1.8 65714 1q2yA 140 7.72e+00 1oh4A 179 8.00e+00 1jvwA 167 8.20e+00 d.26.1.1 71907 1jz8A 1023 8.21e+00 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1oyeA 1049 8.48e+00 d.58.44.1 87587 d.58.44.1 87588 d.58.44.1 87589 d.58.44.1 87590 d.225.1.1 87591 d.225.1.1 87592 f.35.1.1 87593 f.35.1.1 87594 1l0gA 358 8.66e+00 e.3.1.1 73400 1pi4A 358 8.67e+00 1qzzA 374 9.13e+00 1rgzA 363 9.17e+00 1oxjA 173 9.43e+00 a.60.1.2 87517 a.118.1.13 87518 1n9pA 207 9.47e+00 b.1.18.16 80343 1gypA 358 9.53e+00 1dssG c.2.1.3 30004 d.81.1.1 39919 1vgwA 231 9.87e+00 1qmyA 167 1.03e+01 1qmyA d.3.1.2 37094 1o7jA 327 1.03e+01 c.88.1.1 81140 1dc1A 323 1.05e+01 1dc1A c.52.1.11 33321 3psg 370 1.06e+01 1smrA b.50.1.2 26841 1rgyA 360 1.07e+01 2bltA 361 1.08e+01 1gceA e.3.1.1 42739 1jj2P 95 1.09e+01 1ffkN b.34.5.1 63101 1gg1A 350 1.11e+01 1qr7A c.1.10.4 29187 1ky3A 182 1.17e+01 c.37.1.8 73193 1jbbA 153 1.17e+01 1u9aA d.20.1.1 62842 2aaiB 262 1.19e+01 1abrB b.42.2.1 25561 b.42.2.1 25562 1j31A 262 1.23e+01 1cc1L 498 1.23e+01 1h2rL e.18.1.1 43301 1eg5A 384 1.26e+01 1ecxA c.67.1.3 34429 1fnlA 175 1.32e+01 2fcbA b.1.1.4 21783 b.1.1.4 21784 1vcbC 160 1.40e+01 1vcbC b.3.3.1 22535 1lurA 339 1.41e+01 b.30.5.4 84717 1knwA 425 1.42e+01 1p5vA 235 1.42e+01 b.1.11.1 87812 b.7.2.1 87813 1v7rA 186 1.43e+01 1lm8V 160 1.45e+01 b.3.3.1 74035 2nlrA 234 1.49e+01 2nlrA b.29.1.11 24344 1i9gA 280 1.51e+01 c.66.1.13 62090 1m7sA 484 1.54e+01 e.5.1.1 74574 1ijqA 316 1.61e+01 1ijqA b.68.5.1 62506 g.3.11.1 62507 1ga0A 364 1.62e+01 1gceA e.3.1.1 60410 1dfoA 417 1.63e+01 1bj4A c.67.1.4 34480 3pviA 157 1.67e+01 3pviA c.52.1.6 33300 1vjw 60 1.67e+01 1fxd d.58.1.4 38991 1agjA 242 1.68e+01 1agjA b.47.1.1 25827 1qw9A 502 1.71e+01 1mgtA 174 1.75e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1l1jA 239 1.80e+01 b.47.1.1 84516 1abrB 267 1.82e+01 1abrB b.42.2.1 25563 b.42.2.1 25564 1uteA 313 1.87e+01 1uteA d.159.1.1 42078 6ldh 330 1.98e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1wejH 223 1.98e+01 1igtB b.1.1.1 20361 b.1.1.2 21353 1ka9H 200 2.00e+01 c.23.16.1 77308 1h9oA 112 2.02e+01 1qadA d.93.1.1 60837 1qm4A 396 2.03e+01 1mxb d.130.1.1 41350 d.130.1.1 41351 d.130.1.1 41352 1qlwA 328 2.03e+01 1qlwA c.69.1.15 34722 1k3xA 262 2.06e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1ek1A 554 2.09e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 2pviA 157 2.10e+01 3pviA c.52.1.6 33302 1kb0A 677 2.10e+01 a.3.1.6 68378 b.70.1.1 68379 1g8aA 227 2.15e+01 1a6wH 120 2.15e+01 1mfa b.1.1.1 20253 1h32B 138 2.16e+01 a.3.1.1 76620 1rkd 309 2.22e+01 1rkd c.72.1.1 34928 1kshA 186 2.22e+01 c.37.1.8 72914 1fsz 372 2.25e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1ka1A 357 2.32e+01 e.7.1.1 68369 1h8mA 140 2.35e+01 1h8mA d.110.4.1 60782 1qcwA 410 2.41e+01 1gox c.1.4.1 28622 1qz5A 375 2.47e+01 1hd7A 318 2.47e+01 1bix d.151.1.1 41780 1i6pA 220 2.54e+01 1ddzA c.53.2.1 61848 1pvmA 184 2.54e+01 8rucA 475 2.54e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1burA 475 2.55e+01 1burA 1e5kA 201 2.56e+01 1fr9A c.68.1.8 34578 1b9mA 265 2.60e+01 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1ako 268 2.61e+01 1ako d.151.1.1 41779 1uyrA 737 2.61e+01 1e5dA 402 2.62e+01 1e5dA c.23.5.1 31208 d.157.1.3 42061 1m4lA 307 2.65e+01 c.56.5.1 78604 1b7yB 785 2.71e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1kmqA 184 2.71e+01 c.37.1.8 84412 1sek 378 2.71e+01 1sek e.1.1.1 42675 1qreA 247 2.76e+01 1qreA b.81.1.5 28066 1lm8C 96 2.82e+01 d.42.1.1 74034 1a7tA 232 2.83e+01 1a7tA d.157.1.1 42041 1bjmA 216 2.84e+01 8fabA b.1.1.1 20524 b.1.1.2 21460 1gp6A 356 2.87e+01 b.82.2.1 65441 1rqpA 299 2.95e+01 1gnlA 544 2.99e+01 e.26.1.1 70287 1h8eH 146 3.00e+01 1e79H b.93.1.1 60757 1jj2R 84 3.02e+01 1ffkP d.12.1.1 63103 1qksA 567 3.03e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 2arcA 164 3.10e+01 2arcA b.82.4.1 28148 1gsoA 431 3.15e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 2ctc 307 3.21e+01 1aye c.56.5.1 33802 1kbjA 412 3.22e+01 c.1.4.1 72280 1j9yA 385 3.28e+01 1j9yA c.1.8.3 62791 1e8cA 498 3.34e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1bia 321 3.38e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1j6zA 376 3.40e+01 1yagA c.55.1.1 62667 c.55.1.1 62668 1o5xA 248 3.41e+01 1j5yA 187 3.41e+01 a.4.5.1 71592 d.94.2.1 71593 1mwxA 646 3.41e+01 d.17.4.5 79610 d.175.1.1 79611 e.3.1.1 79612 1mjnA 179 3.42e+01 c.62.1.1 79210 2bbkH 355 3.43e+01 2bbkH b.69.2.1 27634 1gydB 315 3.44e+01 b.67.2.1 70751 1uuqA 440 3.45e+01 1h9sA 140 3.52e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844 1v5xA 203 3.56e+01 1dp4A 435 3.58e+01 1dp4A c.93.1.1 35710 1gyhA 318 3.60e+01 b.67.2.1 70757 1e1aA 314 3.66e+01 1e1aA b.68.6.1 59155 1rthA 560 3.68e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1ufoA 238 3.69e+01 1uqxA 113 3.72e+01 1e79H 146 3.76e+01 1e79H a.2.10.1 15721 b.93.1.1 28438 1iakA 199 3.84e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1i8dA 213 3.89e+01 b.43.4.3 61953 b.43.4.3 61954 1h6hA 143 3.90e+01 d.189.1.1 65681 1i7qB 193 3.99e+01 1qdlB c.23.16.1 61902 1ofnA 205 4.00e+01