# List of top-scoring protein chains for t2k-100-30-str2-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.soe.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 1jtgB 165 1.59e-07 d.98.1.1 67267 2g2uB 165 1.76e-07 d.98.1.1 134541 2h36X 112 2.97e-01 2c2aA 258 6.15e-01 a.30.2.1,d.122.1.3 129662,129663 1wdvA 152 1.96e+00 d.116.1.1 114539 1phkA 298 2.24e+00 d.144.1.7 41635 2cw9A 194 2.27e+00 d.17.4.13 130920 2pbiB 354 3.02e+00 1b8aA 438 3.15e+00 1b8aA b.40.4.1,d.104.1.1 25244,40765 1ucrA 78 3.59e+00 a.4.5.45 99188 2oajA 902 4.25e+00 2ip2A 334 4.61e+00 2fgtA 417 4.64e+00 1xezA 721 4.83e+00 1ta8A 332 4.92e+00 d.142.2.2 112375 1plq 258 5.28e+00 1plq 1plqA 258 5.28e+00 d.131.1.2,d.131.1.2 41388,41389 2isbA 192 6.24e+00 c.8.9.1 137601 1qniA 581 6.83e+00 1qniA b.6.1.4,b.69.3.1 23042,27642 1zh5A 195 6.97e+00 a.4.5.46,d.58.7.1 125073,125074 2afbA 351 7.42e+00 c.72.1.1 126674 2ivfA 976 7.64e+00 2reiA 318 8.59e+00 1vr6A 350 9.49e+00 c.1.10.4 120439 1f8eA 388 9.96e+00 2qwc b.68.1.1 59694 1ikpA 613 1.02e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1b1gA 75 1.02e+01 1psrA a.39.1.1 17151 2qwc 388 1.04e+01 2qwc 2hvqA 335 1.13e+01 2c9wA 169 1.14e+01 1qnaA 200 1.14e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 2gx9A 129 1.25e+01 d.299.1.1 135828 1konA 249 1.32e+01 e.39.1.1 72823 2id0A 644 1.34e+01 1hlcA 129 1.34e+01 1c1lA b.29.1.3 24208 1k5nA 276 1.34e+01 b.1.1.2,d.19.1.1 77266,77267 1ui7A 638 1.68e+01 b.30.2.1,d.17.2.1,d.17.2.1 99413,99414,99415 2a4vA 159 1.69e+01 c.47.1.10 126163 2d5wA 603 1.69e+01 1cdwA 179 1.71e+01 1ytbA d.129.1.1,d.129.1.1 41212,41213 2fziA 206 1.72e+01 c.71.1.1 134448 2ib5A 233 1.72e+01 1kebA 108 1.77e+01 c.47.1.1 77341 1h6vA 499 1.84e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2p8gA 162 1.85e+01 2yvdA 431 1.87e+01 2iccA 119 2.06e+01 1w6gA 646 2.07e+01 b.30.2.1,d.17.2.1,d.17.2.1 120660,120661,120662 2i0oA 304 2.08e+01 2rkpA 335 2.13e+01 2gjsA 176 2.14e+01 c.37.1.8 135287 2ix0A 663 2.17e+01 1xmzA 241 2.20e+01 1uisA 231 2.25e+01 d.22.1.1 99431 1vz0A 230 2.26e+01 a.4.14.1,d.268.1.1 108929,108930 1ti6A 875 2.29e+01 b.52.2.2,c.81.1.1 106974,106975 2d1wA 638 2.31e+01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 2trxA 108 2.34e+01 1thx c.47.1.1 32719 1ui8A 638 2.39e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 2aexA 346 2.45e+01 1zjcA 418 2.48e+01 e.60.1.1 125147 1lfpA 249 2.59e+01 e.39.1.1 73885 1br1B 150 2.65e+01 1wdcC a.39.1.5 17309 2gc9A 179 2.67e+01 b.60.1.6 134972 2a50B 168 2.77e+01 1cc1L 498 2.82e+01 1h2rL e.18.1.1 43301 1ymiA 334 2.82e+01 1je6A 275 2.86e+01 b.1.1.2,d.19.1.1 71638,71639 2g17A 337 2.98e+01 c.2.1.3,d.81.1.1 134512,134513 2bdwA 362 2.99e+01 1zgsA 447 2.99e+01 1aogA 485 3.09e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 2dkfA 431 3.09e+01 1tib 269 3.11e+01 3tgl 1tibA 269 3.11e+01 c.69.1.17 34738 3bqcA 335 3.18e+01 2oseA 234 3.19e+01 2dpfA 115 3.23e+01 1jl0A 334 3.23e+01 1jenA d.156.1.1 63155 3bs4A 260 3.29e+01 1s68A 249 3.32e+01 d.142.2.4 98591 1foeA 377 3.37e+01 1foeA a.87.1.1,b.55.1.1 18517,26969 3c8cA 240 3.56e+01 2fcbA 173 3.61e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 2awpA 198 3.62e+01 1d3uA 181 3.69e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 2nvmA 126 3.72e+01 d.326.1.1 138631 1aoeA 192 3.72e+01 1aoeA c.71.1.1 34923 2pvrA 334 3.77e+01 2yugA 155 3.80e+01 2bcjB 340 3.81e+01 b.69.4.1 128289 1ut1A 148 3.82e+01 b.2.3.6 108014 2i3oA 516 3.82e+01 d.153.1.6 137027 1a0rB 340 3.84e+01 1tbgA b.69.4.1 27658 1pkoA 139 3.90e+01 b.1.1.1 88147 1vjnA 220 3.96e+01 d.157.1.4 100825 1h30A 422 4.05e+01 b.29.1.4,b.29.1.4 76604,76605 1hp1A 516 4.09e+01 d.114.1.1,d.159.1.2 70976,70977 1ush 550 4.10e+01 1ush 2edmA 161 4.13e+01 1vpvA 300 4.14e+01 c.119.1.1 113975 2glcA 342 4.16e+01 1zckA 154 4.17e+01 1ughI 82 4.19e+01 1ugiA d.17.5.1 38133 1uqwA 509 4.22e+01 c.94.1.1 99799 1iwmA 186 4.23e+01 b.125.1.2 83758 2fqpA 97 4.24e+01 2p36A 335 4.33e+01 1rxdA 159 4.34e+01 c.45.1.1 111959 1bncA 449 4.47e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 1gotB 340 4.48e+01 1tbgA b.69.4.1 27648 2amyA 246 4.60e+01 c.108.1.10 127026 2yvyA 278 4.68e+01 1gt6A 269 4.68e+01 c.69.1.17 76342 1atnA 373 4.69e+01 1yagA c.55.1.1,c.55.1.1 33437,33438 1bywA 110 4.77e+01 1bywA d.110.3.6 40912 1dpeA 507 4.79e+01 c.94.1.1 35799 2h8gA 267 4.79e+01 2fikA 287 4.80e+01 b.1.1.2,d.19.1.1 133524,133525 2g6yA 217 4.80e+01 2b0vA 153 4.83e+01 d.113.1.1 127650 1t70A 255 4.87e+01 d.159.1.9 112275 2j7tA 302 4.87e+01 1zclA 180 4.89e+01 1o7fA 469 4.94e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1cid 177 5.01e+01 1cid 1cidA 177 5.01e+01 b.1.1.1,b.1.1.3 19740,21679 2z0xA 158 5.01e+01 1r4aA 165 5.02e+01 c.37.1.8 96986 1wuaA 375 5.07e+01 c.55.1.1,c.55.1.1 121281,121282 1b3jA 274 5.11e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1w9hA 427 5.16e+01 c.55.3.10 120785 1qz5A 375 5.24e+01 c.55.1.1,c.55.1.1 96614,96615 1atnD 260 5.24e+01 3dni d.151.1.1 41793 2p19A 149 5.25e+01 1dppA 507 5.25e+01 1dpe c.94.1.1 35800 2j3mA 572 5.29e+01 3b4dA 96 5.30e+01 1vs0A 310 5.30e+01 3brbA 313 5.32e+01 2fxuA 375 5.36e+01 c.55.1.1,c.55.1.1 134340,134341 1o9wA 177 5.39e+01 b.2.3.5 86713 1r6jA 82 5.42e+01 b.36.1.1 97151 2oryA 346 5.49e+01 2e1bA 216 5.50e+01 2gu3A 136 5.53e+01 2a6hC 1119 5.58e+01 e.29.1.1 126264 2fueA 262 5.65e+01 c.108.1.10 134119 1zuhA 168 5.66e+01 2joyA 96 5.74e+01 1eq3A 96 5.83e+01 1eq3A d.26.1.1 59486 1ji6A 589 5.89e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 2bc4B 211 5.92e+01 1v5rA 97 5.93e+01 d.82.4.1 119854 2yy3A 91 5.94e+01 1fwxA 595 6.04e+01 b.6.1.4,b.69.3.1 60069,60070 2in5A 207 6.04e+01 2e0qA 104 6.12e+01 1x24A 180 6.13e+01 1i0rA 169 6.13e+01 1i0rA b.45.1.2 61489 1r5mA 425 6.16e+01 1qfxA 460 6.26e+01 1qfxA c.60.1.2 33994 2ntkA 222 6.30e+01 d.153.2.1 138583 2fz0A 149 6.40e+01 1v7oA 165 6.41e+01 d.67.1.2 100480 1nox 205 6.42e+01 1nox 1noxA 205 6.42e+01 d.90.1.1 40242 1gpl 432 6.43e+01 1gpl 2a6mA 155 6.48e+01 d.58.57.1 126287 1v4pA 157 6.56e+01 d.67.1.2 113533 1xd5A 112 6.58e+01 b.78.1.1 115155 1cjaA 342 6.60e+01 1cjaA d.144.1.3 41708 2od5A 116 6.61e+01 2iskA 230 6.66e+01 2bf5A 98 6.67e+01 d.137.1.1 128405 1suuA 312 6.70e+01 b.68.10.1 99006 2iorA 235 6.73e+01 1qa1A 554 6.75e+01 1tyv b.80.1.6 28047 1u59A 287 6.75e+01 d.144.1.7 107681 1qq1A 559 6.75e+01 1tyv b.80.1.6 28041 1jpaA 312 6.83e+01 d.144.1.7 67011 1zvdA 380 7.01e+01 1e15A 499 7.02e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 3bw8A 217 7.08e+01 2geyA 158 7.10e+01 2akrA 285 7.14e+01 b.1.1.2,d.19.1.1 126931,126932 1tyvA 554 7.17e+01 b.80.1.6 28038 1tyv 542 7.17e+01 1tyv 3bhxA 709 7.18e+01 1el6A 219 7.19e+01 1el6B d.182.1.1 42606 1sgvA 316 7.27e+01 b.122.1.1,d.265.1.2 98858,98859 2ootA 709 7.29e+01 a.48.2.1,c.8.4.1,c.56.5.5 139176,139177,139178 1mjfA 281 7.33e+01 c.66.1.17 79198 2dpxA 174 7.34e+01 1rjoA 646 7.35e+01 b.30.2.1,d.17.2.1,d.17.2.1 111832,111833,111834 1qksA 567 7.36e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1du6A 64 7.38e+01 1akhA a.4.1.1 16002 1wjxA 122 7.38e+01 b.111.1.1 114716 3bevA 274 7.42e+01 1r69 69 7.51e+01 1r69 1r69A 69 7.51e+01 a.35.1.2 17028 3sil 379 7.53e+01 3sil 3silA 379 7.53e+01 b.68.1.1 27542 1x0vA 354 7.54e+01 1js8A 394 7.56e+01 a.86.1.1,b.112.1.1 67219,67220 2cx5A 158 7.57e+01 2i7vA 459 7.58e+01 1x54A 434 7.62e+01 3bi1A 709 7.64e+01 1d4xA 375 7.77e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1zkiA 133 7.80e+01 d.38.1.5 125199 1luqA 127 7.92e+01 b.61.1.1 91128 1skoB 130 7.93e+01 d.110.7.1 105677 1j3wA 163 7.95e+01 d.110.7.1 90833