# List of top-scoring protein chains for t2k-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 3.26e-03 d.15.3.1 108631 2bpsA 81 6.55e-02 1xlqA 106 7.33e-02 1frrA 95 9.75e-02 1awd d.15.4.1 37674 1oqqA 106 1.35e-01 d.15.4.1 93422 1put 106 2.17e-01 1ayfA d.15.4.1 37680 2aj2A 208 2.99e-01 1qorA 327 4.09e-01 1qorA b.35.1.2,c.2.1.1 24766,29782 1ryjA 70 5.53e-01 d.15.3.2 98104 1rwsA 77 6.28e-01 d.15.3.2 97991 1yb5A 351 1.05e+00 1frd 98 1.10e+00 1awd d.15.4.1 37648 2cu3A 64 1.16e+00 1zud2 66 1.27e+00 2bb6A 414 1.38e+00 1uwmA 106 1.50e+00 1fm0D 81 1.57e+00 1fmaD d.15.3.1 37642 1awd 94 1.58e+00 1awd d.15.4.1 37673 1offA 97 1.61e+00 d.15.4.1 86947 1fmaD 81 1.64e+00 1fmaD d.15.3.1 37643 1e9mA 106 1.75e+00 1ayfA d.15.4.1 59397 2rgf 97 1.93e+00 1lfdA d.15.1.5 37627 1b9rA 105 2.17e+00 1ayfA d.15.4.1 37683 1n8jA 186 2.46e+00 c.47.1.10 85401 1guaB 81 2.60e+00 1c1yB d.15.1.5 37619 1ib8A 164 2.61e+00 b.38.2.1,d.52.4.1 71168,71169 2bwfA 77 2.82e+00 1jq4A 98 2.92e+00 d.15.4.2 67083 1c1yB 77 3.23e+00 1c1yB d.15.1.5 37618 1axeA 374 4.29e+00 2ohxA b.35.1.2,c.2.1.1 24681,29697 1lxdA 100 4.75e+00 1lfdA d.15.1.5 37624 1a70 97 4.84e+00 1awd d.15.4.1 37678 1eb7A 323 4.86e+00 1eb7A a.3.1.5,a.3.1.5 59404,59405 1vybA 238 5.00e+00 d.151.1.1 108897 1qt9A 98 5.41e+00 1awd d.15.4.1 37647 1f0zA 66 5.45e+00 1f0zA d.15.3.2 37644 1doi 128 5.49e+00 1awd d.15.4.1 37676 1kf6B 243 5.74e+00 a.1.2.1,d.15.4.2 72397,72398 1k07A 263 5.85e+00 d.157.1.1 77218 1czpA 98 6.21e+00 1awd d.15.4.1 37645 1u3wA 374 6.29e+00 1l5pA 93 6.90e+00 d.15.4.1 73598 1ra6A 461 7.06e+00 e.8.1.4 104879 1rfkA 98 7.26e+00 1t0qC 86 7.38e+00 d.15.12.1 106222 1hmvA 560 7.63e+00 1rthA c.55.3.1,e.8.1.2 33587,43046 1ee2A 373 7.78e+00 2ohxA b.35.1.2,c.2.1.1 24663,29679 1wgrA 100 7.85e+00 1wwtA 88 7.85e+00 1n8kA 374 8.26e+00 b.35.1.2,c.2.1.1 80298,80299 1axgA 374 8.37e+00 2ohxA b.35.1.2,c.2.1.1 24691,29707 1heuA 374 8.38e+00 2ohxA b.35.1.2,c.2.1.1 60979,60980 1hetA 374 8.38e+00 2ohxA b.35.1.2,c.2.1.1 60975,60976 2ohxA 374 8.41e+00 2ohxA b.35.1.2,c.2.1.1 24669,29685 1a71A 374 8.42e+00 2ohxA b.35.1.2,c.2.1.1 24673,29689 8adh 374 8.43e+00 2ohxA b.35.1.2,c.2.1.1 24690,29706 1jj2H 167 8.66e+00 1ffkF d.41.4.1 63093 1krhA 338 9.01e+00 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1uh6A 100 9.06e+00 d.15.1.1 99394 1jenA 267 9.47e+00 1jenA 1d4vB 163 1.00e+01 1d4vB b.22.1.1 23884 1vcbA 118 1.01e+01 1vcbA d.15.1.1 37603 1t6aA 126 1.01e+01 d.129.8.1 106555 1fxiA 96 1.03e+01 1awd d.15.4.1 37664 1yqbA 100 1.04e+01 1euvB 86 1.17e+01 1a5r d.15.1.1 37598 1s0uA 408 1.21e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1lm8B 118 1.22e+01 d.15.1.1 74033 1se9A 126 1.24e+01 d.15.1.1 98821 1a5r 103 1.28e+01 1a5r d.15.1.1 37597 2al3A 90 1.29e+01 1raxA 115 1.39e+01 1lfdA d.15.1.5 37626 1rfa 79 1.41e+01 1c1yB d.15.1.5 37620 1yqzA 438 1.43e+01 1wjnA 97 1.47e+01 2f4pA 147 1.57e+01 1rdr 461 1.66e+01 1rdr e.8.1.4 43116 2a4hA 126 1.67e+01 2fnjB 118 1.68e+01 1i7hA 111 1.76e+01 d.15.4.1 71122 1lfdA 87 1.79e+01 1lfdA d.15.1.5 37622 1e0zA 128 2.02e+01 1awd d.15.4.1 59153 2g1lA 104 2.07e+01 1agnA 373 2.20e+01 2ohxA b.35.1.2,c.2.1.1 24737,29753 2pia 321 2.20e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1dg6A 191 2.21e+01 1d4vB b.22.1.1 23883 1ddsA 159 2.24e+01 1vdrA c.71.1.1 34858 1e6eB 128 2.28e+01 1ayfA d.15.4.1 59300 2c1vA 338 2.31e+01 1ayfA 105 2.41e+01 1ayfA d.15.4.1 37684 2gptA 523 2.48e+01 2dafA 118 2.51e+01 1d3zA 76 2.56e+01 1ubi d.15.1.1 37592 1o9lA 481 2.66e+01 c.124.1.2,c.124.1.3 81241,81242 1ayfB 105 2.66e+01 1ayfA d.15.4.1 37685 1ryaA 160 2.69e+01 d.113.1.5 105122 2bt6A 108 2.69e+01 1knmA 130 2.75e+01 b.42.2.1 72781 1x0rA 249 2.79e+01 2cr5A 109 2.82e+01 1nbfD 76 2.83e+01 d.15.1.1 80390 1wm3A 72 2.85e+01 2b5wA 357 2.90e+01 1ws8A 109 2.92e+01 1wriA 93 2.96e+01 1yj1A 76 3.08e+01 2bzoB 79 3.17e+01 1wkaA 147 3.21e+01 1yqgA 263 3.23e+01 1jqhA 308 3.27e+01 d.144.1.7 71793 1ubi 76 3.29e+01 1ubi d.15.1.1 37584 1ubq 76 3.29e+01 1ubi d.15.1.1 37585 2fcr 173 3.33e+01 1rcf c.23.5.1 31151 1ogwA 76 3.35e+01 d.15.1.1 87001 1zq7A 207 3.44e+01 1f3yA 165 3.52e+01 d.113.1.1 59635 1aqzB 149 3.56e+01 1aqzA d.1.1.3 36239 1jl0A 334 3.82e+01 1jenA d.156.1.1 63155 1o5oA 221 3.92e+01 c.61.1.1 92509 1knlA 130 3.96e+01 b.42.2.1 72780 1zu0A 529 3.96e+01 21bi 153 4.08e+01 2i1b b.42.1.2 25542 1l2hA 153 4.19e+01 b.42.1.2 77655 1i1b 153 4.20e+01 2i1b b.42.1.2 25537 1v86A 95 4.27e+01 d.15.1.1 108421 1aqzA 149 4.37e+01 1aqzA d.1.1.3 36238 1ra9 159 4.46e+01 1vdrA c.71.1.1 34820 1wfyA 104 4.52e+01 1mh1 186 4.59e+01 1eesA c.37.1.8 32002 1ooyA 481 4.68e+01 c.124.1.3,c.124.1.2 93388,93389 2fsqA 243 4.74e+01 2i1b 153 4.80e+01 2i1b b.42.1.2 25538 31bi 153 4.84e+01 2i1b b.42.1.2 25541 1gehA 444 4.84e+01 c.1.14.1,d.58.9.1 65181,65182 2cfeA 162 4.95e+01 2atxA 194 4.96e+01 1ghhA 81 5.55e+01 1ghhA d.57.1.1 38940 1l7yA 94 5.57e+01 d.15.1.6 73676 1pl8A 356 5.57e+01 b.35.1.2,c.2.1.1 94878,94879 1d2eA 397 5.65e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1gaxA 862 5.67e+01 1gaxA b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 2f69A 261 5.73e+01 1hc7A 477 5.78e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1k7hA 476 5.85e+01 c.76.1.1 72101 1atiA 505 5.87e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1jroA 462 5.94e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1fsz 372 5.97e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 2apoA 357 5.97e+01 1msk 331 5.97e+01 1msk d.173.1.1 42495 1r3eA 309 5.98e+01 b.122.1.1,d.265.1.2 96907,96908 1jb3A 131 6.03e+01 1jc7A b.40.3.2 62833 1jc7A 131 6.08e+01 1jc7A b.40.3.2 62873 1j54A 186 6.19e+01 c.55.3.5 77077 1qh5A 260 6.28e+01 1qh5A d.157.1.2 42057 1p99A 295 6.44e+01 c.94.1.1 94384 1c4zA 358 6.45e+01 1c4zA d.148.1.1 41766 1vbiA 344 6.46e+01 1qh3A 260 6.66e+01 1qh5A d.157.1.2 42059 1atiB 505 6.69e+01 1atiA c.51.1.1,d.104.1.1 33197,40746 1k7yA 577 6.79e+01 a.46.1.1,c.23.6.1,d.173.1.1 68272,68273,68274 1yfoA 302 6.80e+01 2shpA c.45.1.2 32681 1gz5A 456 7.19e+01 c.87.1.6 76406 1ay9A 108 7.28e+01 1umuA b.87.1.1 28384 1f0cA 305 7.29e+01 1c8oA e.1.1.1 42676 1ovaA 386 7.34e+01 1ovaA e.1.1.1 42619 1kqfC 217 7.34e+01 f.21.1.1 72874 1kevA 351 7.35e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1k0eA 453 7.37e+01 d.161.1.1 67938 1pedA 351 7.37e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 2cyjA 118 7.41e+01 1cf2O 337 7.44e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1dapA 320 7.44e+01 1dapA c.2.1.3,d.81.1.3 30053,39968 1cnzA 363 7.57e+01 1cnzA c.77.1.1 35061 2c5lC 117 7.71e+01 1shcA 195 7.73e+01 1shcA b.55.1.2 26992 1t3qA 168 7.75e+01 a.56.1.1,d.15.4.2 106367,106368 1umuB 116 7.77e+01 1umuA b.87.1.1 28383 1iueA 98 7.78e+01 d.15.4.1 90697 1uquA 482 7.85e+01 c.87.1.6 99796 1umuA 116 7.86e+01 1umuA b.87.1.1 28382 1uqtA 482 7.87e+01 c.87.1.6 99794 1fwcA 100 7.92e+01 1ubpA d.8.1.1 37331 2kauA 100 7.92e+01 1ubpA d.8.1.1 37335 1b76A 442 7.94e+01 1atiA c.51.1.1,d.104.1.1 33198,40747 1ftrA 296 8.01e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 2cblA 305 8.10e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 2fn4A 181 8.26e+01 1e01A 48 8.26e+01 1e01A 1wi0A 113 8.29e+01 1m93B 245 8.33e+01 1wdkC 390 8.35e+01 c.95.1.1,c.95.1.1 109258,109259 2azwA 148 8.38e+01 1ov3A 138 8.41e+01 b.34.2.1,b.34.2.1 87451,87452 2fyxA 143 8.43e+01 1v2yA 105 8.55e+01 d.15.1.1 100275 2h2bA 107 8.55e+01 1m5sA 297 8.55e+01 d.58.33.1,d.58.33.1 74511,74512 1nhp 447 8.64e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1yvhA 329 8.68e+01 1ttwA 138 8.76e+01 d.198.1.1 107308 1dmhA 311 8.79e+01 1dmhA b.3.6.1 22633 1nhs 447 8.81e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1an0A 190 8.82e+01 1ctqA c.37.1.8 32066 1b9mA 265 8.83e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1ni3A 392 8.93e+01 c.37.1.8,d.15.10.2 80531,80532 1s9jA 341 8.96e+01