# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 1vjkA 98 3.21e-03 d.15.3.1 108631 1xlqA 106 4.32e-02 2bpsA 81 8.85e-02 1oqqA 106 9.71e-02 d.15.4.1 93422 1frrA 95 1.60e-01 1awd d.15.4.1 37674 1ryjA 70 4.28e-01 d.15.3.2 98104 2bb6A 414 4.73e-01 1e9mA 106 7.68e-01 1ayfA d.15.4.1 59397 1uwmA 106 7.93e-01 1frd 98 1.02e+00 1awd d.15.4.1 37648 1qorA 327 1.04e+00 1qorA b.35.1.2,c.2.1.1 24766,29782 1zud2 66 1.29e+00 2bwfA 77 1.42e+00 1b9rA 105 1.54e+00 1ayfA d.15.4.1 37683 1rwsA 77 1.59e+00 d.15.3.2 97991 1awd 94 2.18e+00 1awd d.15.4.1 37673 1ib8A 164 2.20e+00 b.38.2.1,d.52.4.1 71168,71169 1eb7A 323 2.30e+00 1eb7A a.3.1.5,a.3.1.5 59404,59405 1fm0D 81 2.41e+00 1fmaD d.15.3.1 37642 2cu3A 64 2.61e+00 1zu0A 529 3.26e+00 1vybA 238 3.37e+00 d.151.1.1 108897 1yb5A 351 3.68e+00 1offA 97 4.36e+00 d.15.4.1 86947 1c1yB 77 4.54e+00 1c1yB d.15.1.5 37618 1o5oA 221 5.05e+00 c.61.1.1 92509 1doi 128 5.09e+00 1awd d.15.4.1 37676 1n8jA 186 5.19e+00 c.47.1.10 85401 1vcbA 118 5.30e+00 1vcbA d.15.1.1 37603 1nbfD 76 5.36e+00 d.15.1.1 80390 1wgrA 100 5.49e+00 1yj1A 76 5.51e+00 2dafA 118 5.62e+00 1l5pA 93 5.80e+00 d.15.4.1 73598 1czpA 98 5.84e+00 1awd d.15.4.1 37645 1ubi 76 5.85e+00 1ubi d.15.1.1 37584 1ogwA 76 6.18e+00 d.15.1.1 87001 1euvB 86 6.26e+00 1a5r d.15.1.1 37598 2al3A 90 6.49e+00 1se9A 126 6.66e+00 d.15.1.1 98821 1a70 97 7.52e+00 1awd d.15.4.1 37678 1lm8B 118 8.27e+00 d.15.1.1 74033 2aj2A 208 8.87e+00 1ra6A 461 8.94e+00 e.8.1.4 104879 1jenA 267 8.97e+00 1jenA 1jj2H 167 9.02e+00 1ffkF d.41.4.1 63093 1r3eA 309 9.52e+00 b.122.1.1,d.265.1.2 96907,96908 1wm3A 72 9.61e+00 2fnjB 118 9.61e+00 1t0qC 86 9.63e+00 d.15.12.1 106222 1yqzA 438 9.91e+00 1wjnA 97 1.02e+01 1rfkA 98 1.16e+01 1rdr 461 1.18e+01 1rdr e.8.1.4 43116 1v86A 95 1.35e+01 d.15.1.1 108421 2bzoB 79 1.37e+01 1yqbA 100 1.40e+01 2a4hA 126 1.53e+01 1t6aA 126 1.57e+01 d.129.8.1 106555 1wwtA 88 1.58e+01 1i7hA 111 1.69e+01 d.15.4.1 71122 1ws8A 109 1.73e+01 1wi0A 113 1.85e+01 1krhA 338 2.02e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 2c1vA 338 2.06e+01 1f1uA 323 2.18e+01 d.32.1.3,d.32.1.3 83200,83201 2pia 321 2.20e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1wfyA 104 2.21e+01 2fcr 173 2.23e+01 1rcf c.23.5.1 31151 1z2mA 155 2.26e+01 2azwA 148 2.27e+01 1e6eB 128 2.31e+01 1ayfA d.15.4.1 59300 1ayfA 105 2.34e+01 1ayfA d.15.4.1 37684 2fn4A 181 2.36e+01 1cxyA 90 2.38e+01 1cyo d.120.1.1 41085 1f1xA 322 2.66e+01 d.32.1.3,d.32.1.3 83208,83209 1dmhA 311 2.68e+01 1dmhA b.3.6.1 22633 2fazA 78 2.73e+01 1l2hA 153 2.75e+01 b.42.1.2 77655 1c4zA 358 2.77e+01 1c4zA d.148.1.1 41766 1woqA 267 2.83e+01 c.55.1.10,c.55.1.10 109462,109463 1mh1 186 2.91e+01 1eesA c.37.1.8 32002 1ryaA 160 2.95e+01 d.113.1.5 105122 1knmA 130 2.96e+01 b.42.2.1 72781 2cfeA 162 3.03e+01 2i1b 153 3.08e+01 2i1b b.42.1.2 25538 1k07A 263 3.11e+01 d.157.1.1 77218 1t3qA 168 3.26e+01 a.56.1.1,d.15.4.2 106367,106368 2bt6A 108 3.30e+01 1d2eA 397 3.35e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1a4sA 503 3.48e+01 1bpwA c.82.1.1 35361 1wkaA 147 3.52e+01 1ooyA 481 3.59e+01 c.124.1.3,c.124.1.2 93388,93389 1dg6A 191 3.68e+01 1d4vB b.22.1.1 23883 1ftrA 296 3.68e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1lfdA 87 3.84e+01 1lfdA d.15.1.5 37622 2apoA 357 3.91e+01 2gptA 523 3.93e+01 1fsz 372 3.94e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1qlaB 239 4.19e+01 1qlaB a.1.2.1,d.15.4.2 15679,37707 1u3wA 374 4.27e+01 1vhzA 198 4.28e+01 d.113.1.1 100718 1uh6A 100 4.45e+01 d.15.1.1 99394 2c5lC 117 4.51e+01 2ex2A 458 4.60e+01 1k8wA 327 4.62e+01 b.122.1.1,d.265.1.2 83094,90388 1mgpA 313 4.79e+01 c.119.1.1 79098 1b4rA 80 4.96e+01 1b4rA b.1.3.1 22072 1v2yA 105 5.01e+01 d.15.1.1 100275 2gaxA 135 5.15e+01 2c2hA 192 5.23e+01 1pf4A 582 5.23e+01 c.37.1.12,f.37.1.1 88052,88053 2cyjA 118 5.27e+01 1oqyA 368 5.30e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1j3mA 129 5.45e+01 d.129.7.1 103836 1qc5A 192 5.53e+01 1aoxA c.62.1.1 34147 1jl0A 334 5.56e+01 1jenA d.156.1.1 63155 2cr5A 109 5.61e+01 1owfB 94 5.64e+01 a.55.1.1 87488 1ip9A 85 5.73e+01 1ip9A d.15.2.2 62638 1ku0A 388 5.73e+01 c.69.1.18 72994 2f4pA 147 5.88e+01 1wriA 93 6.04e+01 1zbsA 291 6.12e+01 2a6zA 222 6.24e+01 2gk3A 256 6.28e+01 1kevA 351 6.44e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1xuvA 178 6.64e+01 1iueA 98 6.70e+01 d.15.4.1 90697 2c8mA 262 6.76e+01 1jqeA 292 6.78e+01 c.66.1.19 71789 1xd3A 230 6.80e+01 1nf3A 195 6.89e+01 c.37.1.8 85594 1v5mA 136 6.90e+01 b.55.1.1 108379 1hetA 374 6.97e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1z06A 189 6.98e+01 1n8kA 374 6.98e+01 b.35.1.2,c.2.1.1 80298,80299 1p8xA 344 7.00e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2h1tA 188 7.02e+01 2ohxA 374 7.02e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 2fh1A 344 7.05e+01 1l7yA 94 7.07e+01 d.15.1.6 73676 1r4aA 165 7.07e+01 c.37.1.8 96986 1pvmA 184 7.11e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1wv2A 265 7.12e+01 1l1qA 186 7.12e+01 c.61.1.1 77653 1jx4A 352 7.13e+01 d.240.1.1,e.8.1.7 90378,90379 1vc3B 97 7.14e+01 1uptA 171 7.27e+01 c.37.1.8 99767 1uptC 170 7.29e+01 c.37.1.8 99769 1hc7A 477 7.40e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1pt6A 213 7.45e+01 c.62.1.1 95091 1n62A 166 7.52e+01 a.56.1.1,d.15.4.2 80090,80091 1msk 331 7.55e+01 1msk d.173.1.1 42495 2fmpA 335 7.58e+01 2atxA 194 7.64e+01 2fr1A 486 7.67e+01 1zq1C 633 7.69e+01 1aqzA 149 7.78e+01 1aqzA d.1.1.3 36238 1mr3F 181 7.83e+01 c.37.1.8 79422 2act 220 7.91e+01 1cs8A d.3.1.1 37002 1siqA 392 8.02e+01 a.29.3.1,e.6.1.1 105585,105586 1zx8A 136 8.04e+01 1s0uA 408 8.16e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2a6mA 155 8.17e+01 1omzA 293 8.18e+01 c.68.1.15 87093 1bt0A 76 8.25e+01 1ubi d.15.1.1 37607 1sg1X 161 8.42e+01 g.24.1.1,g.24.1.1,g.24.1.1,g.24.1.1 105515,105516,105517,105518 1dljA 402 8.43e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1dqaA 467 8.48e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1i0rA 169 8.51e+01 1i0rA b.45.1.2 61489 1i0sA 169 8.51e+01 1i0rA b.45.1.2 61491 1p4oA 322 8.60e+01 d.144.1.7 87775 2b0vA 153 8.62e+01 2ervA 150 8.76e+01 1efdN 266 8.84e+01 1efdN c.92.2.1 35597