# List of top-scoring protein chains for t04-100-30-bys 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 1s1dA 331 2.93e-03 unknown_sccs -4566 1amuA 563 7.52e-01 1amuA e.23.1.1 43351 1ii7A 333 7.75e-01 1ii7A d.159.1.4 62415 1meoA 209 1.03e+00 c.65.1.1 79035 1us8A 147 1.73e+00 c.37.1.12 -7194 1b4bA 71 1.90e+00 1b4aA d.74.2.1 39718 1dl5A 317 1.96e+00 1dl5A c.66.1.7 64720 d.197.1.1 64721 1difA 99 2.12e+00 1fmb b.50.1.1 26503 1r4wA 226 2.17e+00 unknown_sccs -7447 1qmyA 167 2.51e+00 1qmyA d.3.1.2 37094 1dv1A 449 2.81e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1fnnA 389 3.31e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1smlA 269 3.75e+00 1smlA d.157.1.1 42053 1uxxX 133 3.95e+00 b.18.1.10 -3107 1jpc 109 4.26e+00 1b2pA b.78.1.1 27986 1dpjA 329 5.20e+00 1smrA b.50.1.2 26828 1f8rA 498 5.45e+00 1f8rA c.3.1.2 30410 d.16.1.5 37974 1e4cP 215 5.47e+00 2fua c.74.1.1 34969 1r8oA 96 5.91e+00 1k3sA 113 6.51e+00 d.198.1.1 68120 1kzkA 99 6.73e+00 b.50.1.1 73371 1ukmB 128 6.78e+00 d.169.1.1 -11625 2tmdA 729 6.82e+00 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1l4dB 122 7.44e+00 d.15.5.1 77684 1obpA 159 7.55e+00 1obpA b.60.1.1 27092 1r0vA 305 7.63e+00 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1jkxA 212 7.97e+00 c.65.1.1 66813 1djnA 729 8.07e+00 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1viaA 175 8.30e+00 c.37.1.2 -7021 1d5tA 433 8.53e+00 1gnd c.3.1.3 30422 d.16.1.6 37986 1eljA 381 8.89e+00 4mbp c.94.1.1 35791 1n1tA 641 9.18e+00 b.29.1.15 79821 b.68.1.1 79822 1orc 71 9.68e+00 1orc a.35.1.2 17054 1ctj 89 9.92e+00 1ctj a.3.1.1 15798 3psg 370 9.93e+00 1smrA b.50.1.2 26841 1gt1A 159 9.94e+00 b.60.1.1 -4436 1hn2A 159 1.01e+01 b.60.1.1 65890 1d3bA 75 1.03e+01 1d3bA b.38.1.1 24798 1nh0A 99 1.05e+01 b.50.1.1 -4299 1k2fA 190 1.08e+01 b.8.1.2 68054 1nzhA 282 1.09e+01 d.151.1.2 -11398 1f2tA 149 1.09e+01 1f2tA c.37.1.12 32373 1j3wA 163 1.13e+01 unknown_sccs -10870 1jhgA 101 1.14e+01 1jhgA a.4.12.1 19009 1i5pA 633 1.19e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1reoA 486 1.26e+01 c.3.1.2 -5997 d.16.1.5 -9217 1ugmA 125 1.31e+01 1i50K 120 1.33e+01 d.74.3.2 61765 1rypB 250 1.40e+01 1rypB d.153.1.4 41933 1pvxA 194 1.44e+01 1axkA b.29.1.11 24341 1o94A 729 1.48e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 4pep 326 1.51e+01 1smrA b.50.1.2 26843 4pgaA 337 1.51e+01 4pgaA c.88.1.1 35565 1oj5A 132 1.54e+01 unknown_sccs -10848 1rljA 139 1.55e+01 1ireB 228 1.56e+01 b.34.4.4 76770 1ugpB 226 1.57e+01 1dpe 507 1.64e+01 1dpe c.94.1.1 35799 2gar 212 1.66e+01 2gar c.65.1.1 34161 1dazC 99 1.68e+01 1hvc b.50.1.1 26501 1olrA 224 1.68e+01 b.29.1.11 -3489 1qx2A 76 1.73e+01 1jj2S 119 1.73e+01 1ffkQ b.34.5.1 63104 1ton 235 1.74e+01 5ptp b.47.1.2 26307 1s72T 120 1.74e+01 1vhsA 175 1.74e+01 d.108.1.1 -10794 1rypG 244 1.74e+01 d.153.1.4 41938 1htqA 477 1.80e+01 d.15.9.1 71035 d.128.1.1 71036 1h4rA 314 1.80e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1o0pA 104 1.87e+01 d.58.7.1 86535 1m7gA 211 1.88e+01 c.37.1.4 78724 1ip9A 85 2.04e+01 1ip9A d.15.2.2 62638 1d6jA 211 2.04e+01 1d6jA c.37.1.4 31940 1pjxA 314 2.08e+01 1kb0A 677 2.09e+01 a.3.1.6 68378 b.70.1.1 68379 1e6wA 260 2.10e+01 1e6wA c.2.1.2 59326 1h09A 338 2.13e+01 b.109.1.1 83420 c.1.8.8 83421 1gz2A 142 2.18e+01 d.169.1.1 83392 1sv6A 269 2.18e+01 1yna 194 2.20e+01 1axkA b.29.1.11 24335 1p4oA 322 2.20e+01 d.144.1.7 87775 1r62A 160 2.20e+01 6ldh 330 2.32e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1thjA 214 2.44e+01 1qreA b.81.1.5 28072 1ufkA 254 2.49e+01 unknown_sccs -8103 1kv9A 668 2.53e+01 a.3.1.6 73056 b.70.1.1 73057 1r0tB 62 2.55e+01 unknown_sccs -12573 1sk7A 198 2.55e+01 1gmmA 133 2.61e+01 b.18.1.10 65314 1oeyA 83 2.61e+01 d.15.2.2 -9162 1k2yX 463 2.69e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1p5dX 463 2.84e+01 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1viuA 203 2.89e+01 d.113.1.1 -10889 2arcA 164 2.90e+01 2arcA b.82.4.1 28148 1xvaA 292 2.95e+01 1xvaA c.66.1.5 34183 1e9gA 286 2.98e+01 1wgjA b.40.5.1 59393 1k8kF 168 3.02e+01 d.198.2.1 68312 1jenA 267 3.03e+01 1jenA 4pfk 319 3.04e+01 3pfk c.89.1.1 35582 1suuA 312 3.05e+01 unknown_sccs -4610 1iow 306 3.08e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1qwyA 291 3.08e+01 unknown_sccs -5023 1fc4A 401 3.11e+01 1bs0A c.67.1.4 59760 1uurA 473 3.13e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1q4rA 112 3.13e+01 d.58.4.4 -9943 1geeA 261 3.13e+01 c.2.1.2 -5814 1d3bB 91 3.16e+01 1d3bB b.38.1.1 24804 1td5A 202 3.21e+01 1gcoA 261 3.22e+01 1ybvA c.2.1.2 29884 1qg3A 195 3.22e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1r53A 382 3.23e+01 unknown_sccs -11177 1ughI 82 3.23e+01 1ugiA d.17.5.1 38133 3pcgA 200 3.24e+01 3pchA b.3.6.1 22647 1o6aA 96 3.26e+01 unknown_sccs -4101 1vheA 373 3.29e+01 unknown_sccs -4280 c.56.5.4 -7890 1vjw 60 3.34e+01 1fxd d.58.1.4 38991 1mgqA 83 3.43e+01 b.38.1.1 79099 1vj0A 380 3.47e+01 b.35.1.2 -3697 c.2.1.1 -5721 1hcd 118 3.49e+01 1hce b.42.5.2 25624 1b77A 228 3.54e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1garA 212 3.62e+01 2gar c.65.1.1 34162 1xxaA 78 3.63e+01 1xxaA d.74.2.1 39700 1rwiA 270 3.68e+01 unknown_sccs -4603 1ed7A 45 3.76e+01 1ed7A b.72.2.1 27809 1e1aA 314 3.77e+01 1e1aA b.68.6.1 59155 1s14A 194 3.79e+01 d.122.1.2 -10973 1cr5A 189 3.79e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1rifA 282 3.93e+01 unknown_sccs -7265