# List of top-scoring protein chains for T0227.t2k-w0.5 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 1g9jA 629 1.55e+00 a.102.1.2 83280 1fbwA 629 1.58e+00 1fce a.102.1.2 18838 1g9gA 629 1.60e+00 a.102.1.2 83279 3btaA 1295 1.78e+00 b.29.1.6 24268 b.42.4.2 25613 d.92.1.7 40304 h.4.2.1 45784 1dkgD 383 4.13e+00 1ba1 c.55.1.1 33427 c.55.1.1 33428 1e57A 188 4.73e+00 1auyA b.121.4.6 59259 1ughI 82 6.00e+00 1ugiA d.17.5.1 38133 1udiI 83 6.04e+00 1ugiA d.17.5.1 38124 1ugiA 84 6.10e+00 1ugiA d.17.5.1 38125 1tiyA 164 6.66e+00 1ja3A 127 8.08e+00 d.169.1.1 71621 1ulzA 451 9.20e+00 b.84.2.1 -5015 c.30.1.1 -6714 d.142.1.2 -11235 1v5pA 126 9.38e+00 1bf5A 574 9.57e+00 1bg1A a.47.1.1 17766 b.2.5.5 22460 d.93.1.1 40526 1pg5B 168 9.76e+00 1i1qB 192 9.89e+00 1qdlB c.23.16.1 61544 1dcuA 357 1.47e+01 1frpA e.7.1.1 42943 1j77A 209 1.48e+01 1j77A a.132.1.2 62674 1spiA 358 1.50e+01 1frpA e.7.1.1 42939 1mhpA 192 1.50e+01 c.62.1.1 84965 1ck4A 198 1.58e+01 1aoxA c.62.1.1 34149 1pdz 434 1.65e+01 4enl c.1.11.1 29215 d.54.1.1 38859 1ic2A 81 1.65e+01 h.1.5.1 62247 1p48A 436 1.65e+01 c.1.11.1 -5561 d.54.1.1 -9819 4enl 436 1.67e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1l8pA 436 1.67e+01 c.1.11.1 73692 d.54.1.1 73693 1oneA 436 1.67e+01 4enl c.1.11.1 29200 d.54.1.1 38844 1p43A 436 1.67e+01 c.1.11.1 -5559 d.54.1.1 -9817 1dbzA 357 1.69e+01 1frpA e.7.1.1 42951 1cs8A 316 1.71e+01 1cs8A d.3.1.1 37065 1ccc 297 1.74e+01 1ryc a.93.1.1 18611 1cmu 294 1.83e+01 1ryc a.93.1.1 18630 2ccp 296 1.87e+01 1ryc a.93.1.1 18610 1qlaB 239 1.91e+01 1qlaB a.1.2.1 15679 d.15.4.2 37707 1us8A 147 1.93e+01 c.37.1.12 -7194 1f2tA 149 1.96e+01 1f2tA c.37.1.12 32373 1dseA 292 2.00e+01 1ryc a.93.1.1 59130 1kxnA 289 2.00e+01 a.93.1.1 73157 1ccb 297 2.02e+01 1ryc a.93.1.1 18631 1mkrA 294 2.03e+01 a.93.1.1 84997 1cck 291 2.03e+01 1ryc a.93.1.1 18622 1s6vA 294 2.04e+01 a.93.1.1 -1241 1kxmA 290 2.04e+01 a.93.1.1 73156 1dj5A 291 2.04e+01 1ryc a.93.1.1 18603 1ccg 291 2.04e+01 1ryc a.93.1.1 18627 1ccl 291 2.04e+01 1ryc a.93.1.1 18608 1a2f 291 2.05e+01 1ryc a.93.1.1 18619 1jdrA 294 2.06e+01 1ryc a.93.1.1 62908 1kokA 294 2.07e+01 a.93.1.1 77473 1jciA 294 2.08e+01 a.93.1.1 71632 1ds4A 292 2.08e+01 1ryc a.93.1.1 59129 1ccj 294 2.10e+01 1ryc a.93.1.1 18644 1ryc 294 2.12e+01 1ryc a.93.1.1 18601 4ccp 296 2.13e+01 1ryc a.93.1.1 18626 4ccx 294 2.14e+01 1ryc a.93.1.1 18606 1cyf 296 2.14e+01 1ryc a.93.1.1 18641 5ccp 296 2.14e+01 1ryc a.93.1.1 18615 1ccp 296 2.15e+01 1ryc a.93.1.1 18614 1krjA 294 2.15e+01 a.93.1.1 68852 1cca 297 2.15e+01 1ryc a.93.1.1 18602 1cpe 296 2.16e+01 1ryc a.93.1.1 18623 1cpg 296 2.16e+01 1ryc a.93.1.1 18628 6ccp 296 2.18e+01 1ryc a.93.1.1 18617 2cep 296 2.19e+01 1ryc a.93.1.1 18633 1dcc 296 2.20e+01 1ryc a.93.1.1 18613 1re3B 313 2.20e+01 1rf1B 313 2.25e+01 d.171.1.1 -11664 h.1.8.1 -12926 7ccp 296 2.27e+01 1ryc a.93.1.1 18624 1bek 291 2.33e+01 1ryc a.93.1.1 18632 3ccx 294 2.33e+01 1ryc a.93.1.1 18637 1urhA 280 2.33e+01 c.46.1.2 -7370 c.46.1.2 -7371 1rifA 282 2.34e+01 unknown_sccs -7265 1fzcB 328 2.37e+01 3fib d.171.1.1 42460 h.1.8.1 45591 1kmqA 184 2.38e+01 c.37.1.8 84412 1gynA 358 2.41e+01 c.1.10.2 83385 1bvaA 294 2.41e+01 1ryc a.93.1.1 18604 1qcyA 193 2.47e+01 c.62.1.1 -7974 1dosA 358 2.50e+01 1dosA c.1.10.2 29175 1e5rA 290 2.55e+01 1e5rA b.82.2.4 59276 1bem 291 2.65e+01 1ryc a.93.1.1 18635 1ce7B 255 2.66e+01 1abrB b.42.2.1 25565 b.42.2.1 25566 1bj9 291 2.66e+01 1ryc a.93.1.1 18636 1bej 291 2.67e+01 1ryc a.93.1.1 18638 1ebeA 294 2.69e+01 1ryc a.93.1.1 59406 1bes 291 2.71e+01 1ryc a.93.1.1 18612 1pd3A 58 2.72e+01 unknown_sccs -767 1rfxA 94 2.75e+01 1ac4 294 2.76e+01 1ryc a.93.1.1 18657 1qc5B 192 2.98e+01 1aoxA c.62.1.1 34148 1s2hA 206 3.02e+01 d.135.1.1 -11119 1qc5A 192 3.03e+01 1aoxA c.62.1.1 34147 1jw9B 249 3.03e+01 c.111.1.1 67377 1go4A 205 3.15e+01 d.135.1.1 70292 1ii8A 195 3.15e+01 1f2tA c.37.1.12 62417 1pt6A 213 3.22e+01 c.62.1.1 -7975 1rgxA 114 3.37e+01 1p1zD 120 3.58e+01 d.169.1.1 -11637 1lbu 213 3.61e+01 1lbu a.20.1.1 16416 d.65.1.1 39549 1fxjA 331 3.65e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1idrA 136 3.66e+01 1dlyA a.1.1.1 62301 1gdeA 389 3.68e+01 c.67.1.1 60456 1djuA 388 3.68e+01 1bjwA c.67.1.1 59116 1mzpA 217 3.72e+01 e.24.1.1 79710 1pjjA 271 3.72e+01 1s6yA 450 3.74e+01 1srdA 154 3.91e+01 1mfmA b.1.8.1 22275 1p9nA 170 3.96e+01 c.37.1.10 87997 1np6A 174 4.00e+01 c.37.1.10 85954