# 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 1z54A 132 9.26e-24 1s5uA 138 1.89e-23 d.38.1.1 98573 2cyeA 133 4.99e-21 1bvqA 141 7.71e-21 1bvqA d.38.1.1 38542 1lo7A 141 1.02e-20 d.38.1.1 74144 2gf6A 135 6.11e-20 1njkA 156 7.70e-19 d.38.1.1 85818 2av9A 147 9.14e-19 2aliA 158 7.24e-18 1yliA 153 7.57e-12 1vpmA 169 3.15e-10 2h4uA 145 2.21e-08 2gvhA 288 1.34e-07 2essA 248 6.47e-07 1wluA 136 2.28e-06 1j1yA 136 3.49e-06 d.38.1.5 90776 1zkiA 133 4.55e-06 1u1zA 168 5.91e-06 d.38.1.6 107602 2b3nA 159 6.80e-06 1ixlA 131 9.89e-06 d.38.1.5 90717 1c8uA 285 1.45e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 2fs2A 151 1.55e-04 1q4uA 151 2.37e-04 d.38.1.5 95828 2b6eA 146 3.89e-04 1psuA 140 4.40e-04 d.38.1.5 88285 1o0iA 138 4.95e-04 d.38.1.5 86532 2cwzA 141 8.79e-04 1t82A 155 4.04e-03 d.38.1.5 106639 1z6bA 154 5.48e-03 1iq6A 134 9.06e-03 d.38.1.4 76755 1vh5A 148 4.05e-02 d.38.1.5 100642 2bi0A 337 3.00e-01 1sh8A 154 3.53e-01 d.38.1.5 105549 1mkaA 171 6.10e-01 1mkaA d.38.1.2 38543 2c8mA 262 8.21e-01 2arsA 262 1.26e+00 1b76A 442 1.65e+00 1atiA c.51.1.1,d.104.1.1 33198,40747 2a8lA 420 2.03e+00 1u2xA 474 2.35e+00 c.72.1.3 107622 1txqA 93 2.61e+00 1h6tA 291 3.18e+00 b.1.18.15,c.10.2.1 65686,65687 2b59A 187 3.65e+00 1knwA 425 3.67e+00 b.49.2.3,c.1.6.1 90969,90970 2bm3A 166 3.67e+00 1m4iA 181 4.49e+00 d.108.1.1 74457 1p6pA 125 4.64e+00 b.60.1.2 87839 2a8jA 420 4.80e+00 1pkp 150 5.12e+00 1pkp d.14.1.1,d.50.1.2 37551,38787 1on2A 142 5.23e+00 a.4.5.24,a.76.1.1 87103,87104 1f39A 101 5.53e+00 1umuA b.87.1.1 28386 1tf4A 605 5.60e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 1tbuA 118 6.73e+00 2a8mA 420 7.30e+00 1ltm 320 7.56e+00 1ltm d.2.1.6 36992 1m3sA 186 7.57e+00 c.80.1.3 78573 1qusA 322 7.66e+00 1ltm d.2.1.6 36991 2bdvA 231 7.90e+00 1a5y 330 8.24e+00 1pty c.45.1.2 32673 1rl4A 188 8.61e+00 d.167.1.1 97636 1pty 321 9.32e+00 1pty c.45.1.2 32656 1lxtA 561 9.86e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35432,35433,35434,41309 1tuaA 191 9.92e+00 d.51.1.1,d.51.1.1 107321,107322 1ftpA 133 1.00e+01 1hmt b.60.1.2 27199 1ig8A 486 1.01e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1hn0A 1021 1.08e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1fzkA 274 1.08e+01 1agdA b.1.1.2,d.19.1.1 60149,60150 1zt7A 276 1.10e+01 2f71A 298 1.15e+01 2f4lA 297 1.19e+01 1aax 321 1.21e+01 1pty c.45.1.2 32657 1wxcB 134 1.22e+01 1h6uA 308 1.33e+01 b.1.18.15,c.10.2.1 65688,65689 1ynpA 317 1.35e+01 2bc4A 211 1.37e+01 1nukA 183 1.48e+01 1nukA b.18.1.4 23721 3pmgA 561 1.67e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1ao8 162 1.67e+01 3dfr c.71.1.1 34883 1o6vA 466 1.69e+01 b.1.18.15,c.10.2.1 81099,81100 1widA 130 1.75e+01 1w66A 232 1.80e+01 1yocA 147 1.81e+01 1lshA 1056 1.81e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1fm4A 159 1.84e+01 1bv1 d.129.3.1 76186 1vprA 374 1.90e+01 1tlyA 278 1.91e+01 f.4.6.1 107143 1jeoA 180 2.02e+01 c.80.1.3 66611 1pn2A 280 2.10e+01 d.38.1.4,d.38.1.4 94930,94931 1g7pA 274 2.10e+01 b.1.1.2,d.19.1.1 70153,70154 1fzoA 274 2.18e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1eeoA 321 2.29e+01 1pty c.45.1.2 32655 1kpuA 274 2.32e+01 b.1.1.2,d.19.1.1 84456,84457 1o6sA 466 2.37e+01 b.1.18.15,c.10.2.1 81094,81095 1te2A 226 2.37e+01 c.108.1.6 106792 1n5nA 180 2.43e+01 d.167.1.1 85336 1te5A 257 2.44e+01 d.153.1.1 106795 1ptvA 321 2.52e+01 1pty c.45.1.2 32665 1bv1 159 2.57e+01 1bv1 d.129.3.1 41313 1ks2A 219 2.57e+01 c.124.1.4,d.58.40.1 72908,72909 1tw4A 125 2.72e+01 1ko9A 345 2.75e+01 a.96.1.3,d.129.1.2 68717,68718 1lk2A 274 2.79e+01 b.1.1.2,d.19.1.1 91056,91057 1fmaD 81 2.81e+01 1fmaD d.15.3.1 37643 1tyjA 170 2.82e+01 1fib 269 2.82e+01 3fib d.171.1.1 42456 3fib 249 2.89e+01 3fib d.171.1.1 42455 2shpA 525 2.96e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1qftA 175 3.00e+01 1qftA b.60.1.1 27151 1qmrA 159 3.02e+01 1bv1 d.129.3.1 41314 1v93A 296 3.02e+01 c.1.23.1 100532 1zt1A 277 3.24e+01 1g99A 408 3.25e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1lcl 142 3.28e+01 1lcl b.29.1.3 24216 1fouA 309 3.30e+01 1fouA e.27.1.1 43364 1m9sA 605 3.38e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1ktjA 129 3.50e+01 b.1.18.7 72974 1vk6A 269 3.51e+01 d.113.1.4,d.113.1.4 100851,100852 1mbyA 88 3.52e+01 d.223.1.1 78931 1g5hA 454 3.54e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1fm0D 81 3.62e+01 1fmaD d.15.3.1 37642 1g87A 614 3.64e+01 a.102.1.2,b.2.2.2 83275,83276 1vm7A 311 3.68e+01 c.72.1.1 108884 2eifA 136 3.82e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1b3jA 274 3.88e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1j5qA 437 3.92e+01 b.121.2.3,b.121.2.3 77084,77085 1cpn 208 3.92e+01 1axkA b.29.1.2 24175 2gtqA 867 3.96e+01 1pa1A 310 4.06e+01 c.45.1.2 94404 1u6zA 513 4.24e+01 1rbp 182 4.36e+01 1aqb b.60.1.1 27085 2fibA 269 4.47e+01 3fib d.171.1.1 42457 1g86A 142 4.47e+01 b.29.1.3 70161 1hdkA 141 4.48e+01 b.29.1.3 65807 1emzA 21 4.62e+01 j.35.1.1 46282 1h54B 754 4.71e+01 a.102.1.4,b.30.5.3 60636,60637 1xnpA 202 4.72e+01 1hr0W 71 4.75e+01 1ah9 b.40.4.5 25329 1h54A 754 4.77e+01 a.102.1.4,b.30.5.3 60634,60635 1gp4A 356 4.93e+01 b.82.2.1 65439 1n1bA 549 4.94e+01 a.102.4.1,a.128.1.3 79799,79800 1zyoA 191 5.13e+01 1b9lA 120 5.15e+01 1b9lA d.96.1.3 40665 1v72A 356 5.15e+01 1neu 124 5.18e+01 1neu b.1.1.1 19704 1ii6A 368 5.19e+01 1bg2 c.37.1.9 62413 1jzuA 157 5.22e+01 b.60.1.1 84271 2aalA 131 5.37e+01 1ab0 131 5.53e+01 1hmt b.60.1.2 27190 1ztuA 341 5.55e+01 1a62 130 5.56e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 2fi9A 128 5.62e+01 1o2dA 371 5.62e+01 e.22.1.2 86591 1ghqB 134 5.78e+01 1ghqB g.18.1.1,g.18.1.1 60522,60523 1m93C 41 5.82e+01 2cu3A 64 5.85e+01 1dqeA 137 5.98e+01 1dqeA a.39.2.1 17388 1aohB 147 6.00e+01 1aohA b.2.2.2 22402 1ejeA 192 6.03e+01 1ejeA b.45.1.2 25757 1z9lA 128 6.03e+01 1ka8A 100 6.04e+01 a.4.5.20 72241 2bmoB 194 6.04e+01 1lwyA 324 6.24e+01 a.96.1.3,d.129.1.2 78285,78286 1m3qA 317 6.27e+01 a.96.1.3,d.129.1.2 91184,91185 1wn5A 130 6.28e+01 1du6A 64 6.33e+01 1akhA a.4.1.1 16002 1gz8A 299 6.39e+01 d.144.1.7 83405 1wdtA 665 6.43e+01 1k4jA 230 6.47e+01 d.108.1.3 72057 1ek4A 418 6.49e+01 1dd8A c.95.1.1,c.95.1.1 59436,59437 1wgeA 83 6.57e+01 1r1mA 164 6.62e+01 d.79.7.1 96820 1ebmA 317 6.64e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 1o0wA 252 6.64e+01 a.149.1.1,d.50.1.1 80751,80752 1g7fA 298 6.68e+01 1pty c.45.1.2 60330 1lylA 504 6.77e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 6paxA 133 6.78e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1x6vA 630 6.81e+01 1adl 131 6.83e+01 1hmt b.60.1.2 27186 1e1xA 299 6.89e+01 1hcl d.144.1.7 59157 1ww7A 160 6.92e+01 1lid 131 6.94e+01 1hmt b.60.1.2 27184 1bsjA 168 7.03e+01 1bs4A d.167.1.1 42302 1ckaA 57 7.11e+01 1ckaA b.34.2.1 24459 1epxA 370 7.16e+01 1fbaA c.1.10.1 29150 1k2xB 143 7.19e+01 1hxs3 237 7.21e+01 1hq0A 295 7.30e+01 1hzgA d.194.1.1 61122 1hzgA 295 7.32e+01 1hzgA d.194.1.1 61436 1drmA 131 7.34e+01 1drmA d.110.3.2 40908 1xfrA 128 7.34e+01 2axoA 270 7.38e+01 1u04A 771 7.38e+01 b.34.14.1,c.55.3.10 107539,107540 1drqA 131 7.46e+01 1drmA 1dd8A 406 7.56e+01 1dd8A c.95.1.1,c.95.1.1 35932,35933 1ls8A 142 7.56e+01 a.39.2.1 78176 1qp2A 70 7.60e+01 1pse b.34.4.2 24596 1xn8A 131 7.73e+01 1lswA 131 7.85e+01 d.110.3.2 78181 2hnp 321 7.87e+01 1pty c.45.1.2 32678 1k78A 149 8.05e+01 a.4.1.5,a.4.1.5 68255,68256 1vqzA 341 8.14e+01 1atiB 505 8.20e+01 1atiA c.51.1.1,d.104.1.1 33197,40746 1lfo 128 8.22e+01 1hmt b.60.1.2 27223 2dexX 671 8.26e+01 1wvgA 359 8.29e+01 1t6cA 315 8.30e+01 c.55.1.8,c.55.1.8 106558,106559 1cvjB 190 8.35e+01 1cvjB d.58.7.1,d.58.7.1 39193,39194 2bywA 418 8.36e+01 1jmtA 104 8.37e+01 d.58.7.3 63180 1cztA 160 8.39e+01 1cztA b.18.1.2 23715 1j9bA 141 8.42e+01 c.47.1.12 66459 1s3cA 141 8.51e+01 1r1qA 100 8.64e+01 d.93.1.1 104763 1a0p 290 8.66e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1ly2A 130 8.68e+01 g.18.1.1,g.18.1.1 74335,74336 1yqgA 263 8.75e+01 1e0aB 46 8.86e+01 1e0aB j.65.1.1 46357 1lkzA 219 8.86e+01 c.124.1.4,d.58.40.1 73991,73992 1tkkA 366 8.89e+01 c.1.11.2,d.54.1.1 107089,107090 1jpmA 366 8.90e+01 c.1.11.2,d.54.1.1 67031,67032 1bcpC 199 8.90e+01 1bcpB b.40.2.1,d.169.1.2 25121,42430 1q0bA 367 8.92e+01 c.37.1.9 95502 1pmnA 364 8.92e+01 d.144.1.7 94907