# List of top-scoring protein chains for T0328.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 2gvkA 317 8.55e-53 1o12A 376 1.20e+00 b.92.1.5,c.1.9.10 80758,80759 1z6kA 293 2.16e+00 1jqeA 292 3.34e+00 c.66.1.19 71789 1jeoA 180 3.39e+00 c.80.1.3 66611 1cxvA 164 3.53e+00 1ck7A d.92.1.11 40404 2aotA 292 4.05e+00 1u5vA 273 4.47e+00 1u5hA 273 4.52e+00 1l1sA 113 4.69e+00 c.114.1.1 73484 1m0wA 491 5.09e+00 c.30.1.4,d.142.1.6 78363,78364 1wdnA 226 6.56e+00 1lst c.94.1.1 35816 1lepA 99 8.77e+00 1lepA b.35.1.1 24649 1ojlA 304 1.01e+01 1gh6A 114 1.03e+01 a.2.3.1 65191 1p3hA 99 1.10e+01 b.35.1.1 87734 1uyvA 737 1.14e+01 c.14.1.4,c.14.1.4 100204,100205 1ztqA 165 1.23e+01 1ztqD 165 1.23e+01 830cA 168 1.26e+01 1ck7A d.92.1.11 40400 1xucA 171 1.28e+01 2fo3A 125 1.36e+01 1c9lA 357 1.38e+01 1bpoA a.118.1.4,b.69.6.1 19139,27666 1c9iA 359 1.39e+01 1bpoA a.118.1.4,b.69.6.1 19141,27668 1utcA 363 1.39e+01 a.118.1.4,b.69.6.1 99914,99915 1uyrA 737 1.58e+01 c.14.1.4,c.14.1.4 100188,100189 1w2xA 758 1.58e+01 c.14.1.4,c.14.1.4 109134,109135 1od2A 805 1.58e+01 c.14.1.4,c.14.1.4 86821,86822 1enz 268 1.65e+01 1eny c.2.1.2 29912 2aqkA 269 1.66e+01 1eny 268 1.68e+01 1eny c.2.1.2 29910 1bvrA 268 1.68e+01 1eny c.2.1.2 29913 2aq8A 269 1.68e+01 2aqhA 269 1.72e+01 1l1pA 106 1.78e+01 d.26.1.1 84518 1f4pA 147 1.82e+01 5nul c.23.5.1 59651 2cg9X 134 1.85e+01 2bpqA 373 1.88e+01 1zvwA 378 1.88e+01 1jkoC 52 1.94e+01 a.4.1.2 66809 1lcsA 211 2.02e+01 b.20.1.1 84580 1bpoA 494 2.22e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1h6yA 170 2.28e+01 b.18.1.7 70904 1vggA 161 2.28e+01 2f1rA 171 2.28e+01 1vivA 197 2.34e+01 c.80.1.3 100775 1t11A 392 2.36e+01 a.223.1.1,d.241.2.1,d.26.1.1 106236,106237,106238 1m3sA 186 2.37e+01 c.80.1.3 78573 2d0tA 406 2.63e+01 1h6xA 170 2.74e+01 b.18.1.7 70903 1jg1A 235 2.77e+01 c.66.1.7 66661 2aqiA 269 2.78e+01 2fug2 181 2.78e+01 1mo2A 294 2.86e+01 c.69.1.22 79331 1kezA 300 2.89e+01 c.69.1.22 68546 1wcnA 70 2.97e+01 1omzA 293 3.10e+01 c.68.1.15 87093 1yz7A 188 3.16e+01 1gkzA 388 3.35e+01 a.29.5.1,d.122.1.4 65268,65269 2g6dA 217 3.45e+01 2nef 136 3.65e+01 1efnB d.102.1.1 40704 1gheA 177 3.79e+01 d.108.1.1 76222 1o0eA 208 4.11e+01 d.3.1.1 92393 2cs5A 119 4.21e+01 2bxwA 141 4.23e+01 1w5eA 364 4.42e+01 1sqiA 393 4.42e+01 d.32.1.3,d.32.1.3 105914,105915 1pfc 113 4.48e+01 1cqkA b.1.1.2 21546 1w5bA 364 4.51e+01 1souA 194 4.54e+01 c.124.1.6 105858 1ms6A 222 4.57e+01 d.3.1.1 85080 1nqcA 217 4.59e+01 d.3.1.1 86024 1ri5A 298 4.61e+01 c.66.1.34 97502 1fsz 372 4.63e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 2fq9A 225 4.66e+01 1qwrA 319 4.70e+01 b.82.1.3 96491 2f1gA 220 4.73e+01 1m12A 84 4.77e+01 a.64.1.1 84745 2cb2A 318 4.79e+01 2gnpA 266 4.80e+01 1wvqA 167 4.80e+01 2bkrA 212 4.80e+01 1cp9A 205 4.90e+01 1ajqA d.153.1.2 41849 1yz6A 274 4.94e+01 2fp4A 305 5.04e+01 1x9fD 140 5.06e+01 1eudA 311 5.12e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 2gefA 217 5.14e+01 1iqoA 88 5.14e+01 d.214.1.1 71277 1z54A 132 5.20e+01 1q14A 361 5.21e+01 c.31.1.5 95537 1bc5A 269 5.28e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1qniA 581 5.35e+01 1qniA b.6.1.4,b.69.3.1 23042,27642 1ut7A 171 5.36e+01 b.143.1.1 99906 1af7 274 5.42e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1vf5F 35 5.56e+01 f.23.25.1 100586 2a50A 73 5.59e+01 1twfA 1733 5.71e+01 1t0aA 159 5.79e+01 1xt9A 212 5.90e+01 1ogqA 313 5.99e+01 c.10.2.8 86996 1gxrA 337 6.02e+01 b.69.4.1 70722 2fvkA 559 6.15e+01 1luaA 287 6.19e+01 c.2.1.7,c.58.1.4 78216,78217 1n8fA 350 6.33e+01 c.1.10.4 85397 1gg1A 350 6.37e+01 1qr7A c.1.10.4 29187 1q1aA 289 6.41e+01 c.31.1.5 95561 1szdA 297 6.55e+01 c.31.1.5 106150 1q17A 300 6.65e+01 c.31.1.5 95550 2c5dC 195 6.76e+01 1eu8A 409 7.33e+01 1eu8A c.94.1.1 59502 1qwjA 229 7.39e+01 c.68.1.13 96478 1no5A 114 7.44e+01 d.218.1.5 92014 1sbqA 189 7.48e+01 c.124.1.6 105412 1r5mA 425 7.49e+01 1czj 111 7.49e+01 3cyr a.138.1.1 19663 1v8gA 329 7.58e+01 a.46.2.1,c.27.1.1 100505,100506 1rgwA 85 7.68e+01 b.36.1.1 97455 2b4hA 254 7.75e+01 1kkmA 205 7.82e+01 c.91.1.2 72654 1qalA 721 7.90e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24406,38039,38040,40019 2cx5A 158 7.96e+01 1y0gA 191 8.07e+01 1n6uA 212 8.11e+01 b.1.2.1,b.1.2.1 85363,85364 1we5A 772 8.16e+01 2f2hA 773 8.16e+01 1xnaA 183 8.18e+01 1xnaA b.18.1.8 23773 1xsjA 778 8.18e+01 1i1aC 225 8.22e+01 1igtB b.1.1.2,b.1.1.2 21540,21541 1azl 147 8.32e+01 5nul c.23.5.1 31154 1o5kA 306 8.32e+01 c.1.10.1 92504 2bl9A 238 8.46e+01 1qakA 722 8.52e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24392,38011,38012,40005 2blcA 238 8.68e+01 2aioA 269 8.74e+01 1akw 147 8.90e+01 5nul c.23.5.1 31153