# 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 1osdA 72 5.35e-02 1k3sA 113 1.56e-01 d.198.1.1 68120 1obr 326 1.98e-01 1aye c.56.5.2 33828 1ohvA 472 2.04e-01 1pbgA 468 7.29e-01 1e70M c.1.8.4 28946 1v4vA 376 7.85e-01 1n2fA 142 9.30e-01 d.227.1.1 79853 1gnuA 117 9.86e-01 d.15.1.3 65403 1ek8A 185 1.08e+00 1ek8A d.67.3.1 59444 1zin 217 1.15e+00 1zin c.37.1.1 31915 g.41.2.1 45178 1jljA 189 1.19e+00 c.57.1.1 63169 1k3eA 156 1.33e+00 d.198.1.1 68103 1i1wA 303 1.60e+00 c.1.8.3 76732 1p3jA 217 1.69e+00 1rl6A 177 1.79e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 1cp2A 269 1.86e+00 1cp2A c.37.1.10 32269 1or0A 160 2.18e+00 1go2A 304 2.25e+00 b.43.4.2 76243 c.25.1.1 76244 1bg4 302 2.30e+00 1taxA c.1.8.3 28806 1ogiA 303 2.34e+00 7a3hA 303 2.37e+00 7a3hA c.1.8.3 28817 1fxkB 109 2.48e+00 1fxkA a.2.5.1 15704 1nxcA 478 2.50e+00 1koqA 253 2.95e+00 2cba b.74.1.1 27964 1o6uA 403 2.96e+00 1ctn 540 3.05e+00 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 2trxA 108 3.17e+00 1thx c.47.1.1 32719 1aw7A 194 3.22e+00 1aw7A b.40.2.2 25164 d.15.6.1 37753 1ihcA 188 3.28e+00 1di6A c.57.1.1 62379 1j24A 143 3.42e+00 c.52.1.20 84008 1bwzA 274 3.56e+00 1bwzA d.21.1.1 38337 d.21.1.1 38338 1iyxA 432 3.60e+00 c.1.11.1 83815 d.54.1.1 83816 2plc 274 3.70e+00 2plc c.1.18.2 29614 1aiu 105 3.78e+00 1erv c.47.1.1 32746 1fxmA 302 4.00e+00 1taxA 1bw0A 416 4.03e+00 1bw0A c.67.1.1 34385 1jqgA 433 4.19e+00 c.56.5.1 71791 d.58.3.1 71792 1of8A 370 4.47e+00 1erv 105 4.57e+00 1erv c.47.1.1 32743 1mg7A 417 4.63e+00 d.14.1.6 84954 d.58.26.6 84955 1mwyA 73 4.69e+00 d.58.17.1 79616 1edqA 540 5.48e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1idk 359 5.56e+00 1qcxA b.80.1.2 28025 1eaf 243 5.78e+00 1eaf c.43.1.1 32617 1fe0A 68 5.84e+00 1cc8A d.58.17.1 39345 1u2fA 90 5.90e+00 1u2fA d.58.7.1 39168 2tct 207 6.01e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1o8uA 257 6.11e+00 c.14.1.3 81194 1d8cA 723 6.22e+00 1d8cA c.1.13.1 29325 1gqzA 274 6.23e+00 d.21.1.1 83311 d.21.1.1 83312 1que 303 7.05e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1tml 286 7.13e+00 1tml c.6.1.1 30656 1ik9A 213 7.35e+00 b.59.1.1 66176 h.1.11.1 66177 1dqaA 467 7.43e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1qnaA 200 8.25e+00 1ytbA d.129.1.1 41226 d.129.1.1 41227 1iab 200 8.30e+00 1iae d.92.1.8 40312 1lxnA 99 8.41e+00 d.58.48.1 84737 1id1A 153 8.97e+00 1id1A c.2.1.9 62286 1b04A 318 9.06e+00 1b04A d.142.2.2 41579 1iae 200 9.22e+00 1iae d.92.1.8 40311 1q98A 165 9.35e+00 1bd3A 243 9.36e+00 1bd3A c.61.1.1 34098 1o97D 320 9.39e+00 c.26.2.3 81233 c.31.1.2 81234 1efvA 315 9.50e+00 1efvA c.26.2.3 31633 c.31.1.2 31728 1fm2A 169 9.69e+00 1fm2A d.153.1.2 59877 1ekeA 230 9.76e+00 1ekeA c.55.3.1 33572 1mc2A 122 9.94e+00 a.133.1.2 74622 1itxA 419 1.01e+01 c.1.8.5 71425 d.26.3.1 71426 1innA 166 1.02e+01 1j98A d.185.1.2 62608 1hl9A 449 1.06e+01 1l8bA 190 1.10e+01 d.86.1.1 73683 8rucI 123 1.13e+01 1rboC d.73.1.1 39629 1g2qA 187 1.13e+01 c.61.1.1 65117 3eipA 84 1.13e+01 3eipA d.26.2.1 38434 1s6bA 119 1.16e+01 1nmeB 92 1.20e+01 1mml 265 1.21e+01 1mml e.8.1.2 43015 1nxiA 132 1.23e+01 d.58.47.1 86381 1mzhA 225 1.24e+01 c.1.10.1 79698 1jyoA 130 1.27e+01 d.198.1.1 67483 1e6yB 433 1.28e+01 1mroB a.89.1.1 18535 d.58.31.2 39453 1j5uA 136 1.30e+01 d.208.1.1 71584 1gw5S 142 1.32e+01 d.110.4.2 70633 1uhvA 500 1.35e+01 1guiA 155 1.37e+01 b.18.1.14 76351 1ny1A 240 1.38e+01 c.6.2.3 86395 1hgxA 183 1.38e+01 1tc1A c.61.1.1 34027 1cm5A 759 1.40e+01 1cm5A c.7.1.1 30671 1pkhA 204 1.44e+01 1n7kA 234 1.53e+01 c.1.10.1 85374 1h8lA 380 1.57e+01 b.3.2.1 65737 c.56.5.1 65738 1irsA 112 1.60e+01 1qqgA b.55.1.2 26991 1g99A 408 1.61e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1jj2E 177 1.63e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1j5yA 187 1.63e+01 a.4.5.1 71592 d.94.2.1 71593 1oc7A 364 1.64e+01 c.6.1.1 86794 3tss 194 1.64e+01 1aw7A b.40.2.2 25160 d.15.6.1 37749 1fb6A 105 1.67e+01 1thx c.47.1.1 32739 1dazC 99 1.67e+01 1hvc b.50.1.1 26501 1gmeA 151 1.68e+01 b.15.1.1 65305 1nq6A 302 1.70e+01 1t82A 155 1.75e+01 1spvA 184 1.76e+01 1rz3A 201 1.76e+01 1e0bA 68 1.77e+01 1e0bA b.34.13.2 37476 1mkmA 249 1.77e+01 a.4.5.33 79242 d.110.2.2 79243 2trcP 217 1.78e+01 1b9yC c.47.1.6 33051 1cc8A 73 1.78e+01 1cc8A d.58.17.1 39343 1nkxA 348 1.79e+01 1ej1A 190 1.80e+01 1ejhA d.86.1.1 40144 1ldjA 760 1.81e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1jyaA 130 1.82e+01 d.198.1.1 67453 1is1A 185 1.82e+01 d.67.3.1 83704 1j97A 211 1.83e+01 1f5sA c.108.1.4 62753 1ub9A 100 1.88e+01 1r1uA 106 1.89e+01 1fds 327 1.93e+01 1fds c.2.1.2 29838 1c96A 753 1.95e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1eo6A 117 1.97e+01 1eo6A d.15.1.3 37609 1mwwA 128 2.02e+01 1ny6A 267 2.02e+01 1f9mA 112 2.04e+01 1erv c.47.1.1 32736 1f4pA 147 2.05e+01 5nul c.23.5.1 59651 1eu1A 780 2.05e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1h16A 759 2.08e+01 c.7.1.1 76462 1iv3A 152 2.14e+01 d.79.5.1 76828 1mwqA 101 2.18e+01 1k32A 1045 2.18e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 1r5tA 142 2.21e+01 1uspA 139 2.23e+01 1qh4A 380 2.24e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1lfjA 119 2.25e+01 a.133.1.2 84604 1i7pA 274 2.27e+01 b.43.4.2 66048 c.25.1.1 66049 1jtvA 327 2.28e+01 c.2.1.2 84230 1faaA 124 2.30e+01 1erv c.47.1.1 32738 1lam 484 2.32e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1dkuA 317 2.32e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 3psg 370 2.36e+01 1smrA b.50.1.2 26841 2bvwA 362 2.39e+01 1bvwA c.6.1.1 30666 1b43A 340 2.43e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1h7cA 108 2.45e+01 a.7.5.1 70914 1p7tA 731 2.47e+01 1i45A 248 2.58e+01 1amk c.1.1.1 61665 1i2aA 219 2.61e+01 1k9sA 237 2.61e+01 c.56.2.1 68359 1xyzA 347 2.79e+01 1taxA c.1.8.3 28804 1vjeA 166 2.83e+01 1vhwA 253 2.85e+01 1vjqA 79 2.89e+01 1vpi 122 2.92e+01 1poa a.133.1.2 19559 1e3aB 560 2.95e+01 1ajqB 1gk9B 557 2.96e+01 153l 185 3.02e+01 153l d.2.1.5 36984 1pufA 77 3.05e+01 1ecpA 238 3.06e+01 1ecpA c.56.2.1 33775 1gg3A 279 3.06e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1kqwA 134 3.10e+01 b.60.1.2 72887 1btkA 169 3.13e+01 1btkA b.55.1.1 26959 1lhpA 312 3.14e+01 c.72.1.5 77960 1gtdA 85 3.15e+01 d.58.45.1 76344 1dbwA 126 3.16e+01 1dbwA c.23.1.1 31095 1ggxA 223 3.18e+01 1ggxA d.22.1.1 38367 1jpmA 366 3.21e+01 c.1.11.2 67031 d.54.1.1 67032 1nh0A 99 3.29e+01 1uz5A 402 3.35e+01 1qpcA 279 3.38e+01 1fgkA d.144.1.7 41685 1g8aA 227 3.39e+01 1ro2A 216 3.42e+01 1ln1A 214 3.46e+01 d.129.3.2 74038 1lvaA 258 3.53e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1e5eA 404 3.55e+01 1ibjA c.67.1.3 59265 1ag9A 175 3.58e+01 1rcf c.23.5.1 31178 1fx2A 235 3.71e+01 1fx2A d.58.29.1 39430 1c3jA 351 3.71e+01 1c3jA c.87.1.1 35459 1ifqA 138 3.75e+01 1ifqA d.110.4.1 62350 1exqA 154 3.76e+01 1b9dA c.55.3.2 33646 1puiA 210 3.78e+01 c.37.1.8 88292 1hjrA 158 3.80e+01 1hjrA c.55.3.6 33727 1kpgA 287 3.85e+01 c.66.1.18 68735 1ew4A 106 3.89e+01 1ew4A d.82.2.1 40023 1geqA 248 3.93e+01 2tysA c.1.2.4 28589 1bdmA 327 3.97e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1eu8A 409 3.98e+01 1eu8A c.94.1.1 59502