# List of top-scoring protein chains for T0379.t2k-w0.5 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 2b0cA 206 1.97e-05 1ve1A 304 6.48e-01 2aucA 126 9.17e-01 1z5hA 780 9.41e-01 1w8aA 192 1.17e+00 1wlzA 105 1.53e+00 1c7vA 81 1.56e+00 1cll a.39.1.5 17262 1a0rP 245 1.63e+00 1b9yC c.47.1.6 33054 1rfjA 149 1.74e+00 a.39.1.5 104918 1y6wA 148 1.82e+00 1yrtB 74 1.84e+00 1cmf 73 1.89e+00 1cll a.39.1.5 17283 2colB 67 1.98e+00 2trcP 217 2.02e+00 1b9yC c.47.1.6 33051 1fw4A 71 2.11e+00 1cll a.39.1.5 60056 1zotB 69 2.13e+00 1vrkA 148 2.29e+00 1cll k.21.1.1 46451 1f71A 67 2.33e+00 1wdcC a.39.1.5 17289 1nm2A 317 2.33e+00 c.19.1.1,d.58.23.1 80654,80655 1b9yC 246 2.35e+00 1b9yC c.47.1.6 33052 1b9xC 246 2.36e+00 1b9yC c.47.1.6 33053 1qs7A 145 2.65e+00 k.21.1.1 88373 1qtxA 148 2.71e+00 k.21.1.1 88375 2cf2B 304 2.75e+00 2cdh4 305 2.75e+00 1uaaA 673 2.76e+00 1pjr c.37.1.19,c.37.1.19 32401,32402 3cln 148 2.86e+00 1cll a.39.1.5 17286 2r63 63 2.92e+00 1r69 a.35.1.2 17036 1cdmA 144 2.96e+00 1cll a.39.1.5 17270 1k93D 144 2.98e+00 a.39.1.5 68330 1y0vH 146 3.01e+00 1cdlA 147 3.04e+00 1cll a.39.1.5 17272 1deg 142 3.06e+00 1cll a.39.1.5 17280 2f3yA 148 3.08e+00 1iq5A 149 3.11e+00 a.39.1.5 62643 1prwA 149 3.11e+00 a.39.1.5 95062 2be6A 150 3.13e+00 1scmC 149 3.14e+00 1wdcC a.39.1.5 17319 1mxeA 148 3.26e+00 a.39.1.5 79644 1dflX 152 3.28e+00 1wdcC a.39.1.5 17321 2bkhB 149 3.29e+00 1oojA 149 3.30e+00 a.39.1.5 87198 1kk8C 154 3.43e+00 a.39.1.5 77431 1xfxO 149 3.43e+00 1wdcC 156 3.47e+00 1wdcC a.39.1.5 17317 2f2oA 179 3.56e+00 1ahr 146 3.99e+00 1cll a.39.1.5 17287 1sq8A 64 4.09e+00 a.35.1.2 105888 1lkjA 146 4.83e+00 a.39.1.5 84623 1mp9A 198 4.84e+00 d.129.1.1,d.129.1.1 91385,91386 1r63 63 5.75e+00 1r69 a.35.1.2 17035 1e4tA 37 6.75e+00 1e4tA g.9.1.1 59230 1fpwA 190 7.10e+00 1rec a.39.1.5 17329 1r69 69 7.24e+00 1r69 a.35.1.2 17028 1xrsA 516 7.45e+00 1exrA 148 8.49e+00 1cll a.39.1.5 17299 1clm 148 8.50e+00 1cll a.39.1.5 17301 1ggzA 148 1.15e+01 a.39.1.5 70176 1xmdA 612 1.38e+01 1xl7A 612 1.42e+01 1xmcA 612 1.42e+01 1vk9A 151 1.50e+01 c.139.1.1 108640 2a4jA 79 1.72e+01 2bykA 140 1.73e+01 1ovmA 552 1.80e+01 c.31.1.3,c.36.1.5,c.36.1.9 87461,87462,87463 1m39A 89 1.83e+01 a.39.1.5 84782 1bjfA 193 1.93e+01 1rec a.39.1.5 17331 1e6jP 210 1.96e+01 1ak4C a.28.3.1,a.73.1.1 16956,18323 1rq1A 386 2.03e+01 a.227.1.1 105047 1rp4A 389 2.06e+01 a.227.1.1 105027 1iz7A 295 2.20e+01 c.69.1.8 76982 1cv2A 296 2.23e+01 1bn6A c.69.1.8 34680 1g42A 296 2.23e+01 c.69.1.8 65139 1c6s 87 2.24e+01 1ctj a.3.1.1 15806 1vcyA 213 2.28e+01 2ggmA 172 2.28e+01 1mj5A 302 2.29e+01 c.69.1.8 91285 1m6sA 347 2.36e+01 c.67.1.1 78701 2fm1A 355 2.37e+01 2blfA 373 2.68e+01 1tcf 159 2.79e+01 1ncx a.39.1.5 17250 1vkuA 100 2.98e+01 a.28.1.1 108690 1a2xA 159 3.15e+01 1ncx a.39.1.5 17251 2becA 202 3.26e+01 1y7qA 98 3.28e+01 2d6fC 619 3.31e+01 2mysB 166 3.56e+01 1wdcB a.39.1.5 17308 1mvwB 145 3.57e+01 i.15.1.1 79524 1uaxA 220 3.65e+01 c.55.3.1 107764 1hqmD 1265 3.66e+01 i.8.1.1 45975 2etjA 250 3.74e+01 1tuuA 399 3.90e+01 1g99A 408 3.91e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1uglA 50 3.95e+01 g.3.7.5 99366 1uasA 362 3.98e+01 b.71.1.1,c.1.8.1 88388,88389 1qysA 106 4.01e+01 k.41.1.1 96603 1ohvA 472 4.15e+01 c.67.1.4 93031 1ejeA 192 4.17e+01 1ejeA b.45.1.2 25757 2fzfA 175 4.17e+01 1y0kA 209 4.49e+01 1dxxA 246 4.61e+01 1qagA a.40.1.1,a.40.1.1 17404,17405 1nfiA 301 4.63e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 1pp0A 199 4.82e+01 d.103.1.1 104211 1tp7A 460 5.00e+01 1xr7A 460 5.11e+01 1x6bA 79 5.11e+01 2bw2A 140 5.15e+01 1ktbA 405 5.18e+01 b.71.1.1,c.1.8.1 72960,72961 1jfjA 134 5.18e+01 a.39.1.5 66638 2f6rA 281 5.64e+01 2cpeA 113 5.75e+01 1a92A 50 5.83e+01 1a92A h.4.6.1 45791 1odoA 408 5.87e+01 a.104.1.1 92783 1tizA 67 6.00e+01 a.39.1.5 107014 1jyrA 96 6.32e+01 d.93.1.1 71969 1epxA 370 6.38e+01 1fbaA c.1.10.1 29150 2fb1A 226 6.75e+01 1fhs 112 6.82e+01 1griA d.93.1.1 40488 1ogdA 131 6.88e+01 c.133.1.1 92893 1fwrA 213 6.92e+01 1fwrA c.1.10.1 29164 2a7oA 112 7.01e+01 1r2uA 89 7.03e+01 a.39.1.5 104783 1lm7A 248 7.16e+01 d.211.2.1 74031 2br2B 248 7.25e+01 1s1iQ 100 7.28e+01 i.1.1.1 105191 1fyrA 114 7.67e+01 1griA d.93.1.1 40469 1vkxA 273 7.67e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 2ramA 273 7.68e+01 1a3qA b.1.18.1,b.2.5.3 21937,22450 1leiA 274 7.72e+01 b.1.18.1,b.2.5.3 84599,84600 1bm2A 117 7.84e+01 1griA d.93.1.1 40467 1iknA 286 7.90e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 1re0B 221 7.98e+01 a.118.3.1 97318 2fk8A 318 8.05e+01 2a33A 215 8.08e+01 1snlA 103 8.09e+01 a.39.1.7 105820 1z7dA 433 8.27e+01 2h46E 116 8.36e+01 1tt7A 330 8.42e+01 1m5yA 408 8.44e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1bmbA 123 8.46e+01 1griA d.93.1.1 40466 1tzeE 98 8.52e+01 1griA d.93.1.1 40468 1i89A 389 8.58e+01 c.95.1.2,c.95.1.2 66074,66075 1i8bA 389 8.59e+01 c.95.1.2,c.95.1.2 66078,66079 1y3nA 490 8.61e+01 1bjaA 95 8.62e+01 1bjaA a.4.5.9 16122 1ggwA 140 8.63e+01 1ggwA a.39.1.5 60490 1i88A 389 8.65e+01 c.95.1.2,c.95.1.2 66070,66071 1k7hA 476 8.66e+01 c.76.1.1 72101 1i1sA 96 8.66e+01 1bjaA a.4.5.9 16124 1u5mA 73 8.67e+01 1shqA 478 8.67e+01 c.76.1.1 105560 2aobA 99 8.70e+01 5tnc 162 8.71e+01 1ncx a.39.1.5 17246 1top 162 8.83e+01 1ncx a.39.1.5 17223 1i86A 389 8.84e+01 c.95.1.2,c.95.1.2 66068,66069 2ajfA 597 8.84e+01 1ir6A 424 8.90e+01 c.107.1.2 71342 1nlfA 279 8.94e+01 c.37.1.11 85850