# List of top-scoring protein chains for t04-100-30-bys-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 1zkiA 133 3.29e-18 2b6eA 146 7.88e-18 1o0iA 138 1.13e-17 d.38.1.5 86532 2fs2A 151 5.03e-17 1psuA 140 5.59e-17 d.38.1.5 88285 1wluA 136 8.73e-17 1j1yA 136 1.14e-16 d.38.1.5 90776 1u1zA 168 1.48e-16 d.38.1.6 107602 1vpmA 169 1.86e-16 1vh5A 148 4.14e-16 d.38.1.5 100642 1yliA 153 1.48e-15 1ixlA 131 6.51e-14 d.38.1.5 90717 2gvhA 288 8.80e-14 2cyeA 133 5.29e-13 1z6bA 154 6.50e-13 1q4uA 151 6.54e-13 d.38.1.5 95828 1t82A 155 1.29e-12 d.38.1.5 106639 1njkA 156 1.54e-12 d.38.1.1 85818 1yocA 147 4.67e-12 1sh8A 154 1.10e-11 d.38.1.5 105549 2av9A 147 1.62e-10 1s5uA 138 5.87e-10 d.38.1.1 98573 1z54A 132 1.46e-09 2b3nA 159 5.41e-09 2gf6A 135 8.11e-09 2cwzA 141 2.04e-08 1lo7A 141 1.47e-07 d.38.1.1 74144 1iq6A 134 1.55e-07 d.38.1.4 76755 2aliA 158 4.00e-07 1bvqA 141 4.42e-07 1bvqA d.38.1.1 38542 1tbuA 118 6.43e-06 2essA 248 5.44e-05 1mkaA 171 1.57e-04 1mkaA d.38.1.2 38543 1c8uA 285 1.76e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bi0A 337 9.19e-04 1pn2A 280 1.71e-02 d.38.1.4,d.38.1.4 94930,94931 1yycA 174 5.69e-02 2bf6A 449 5.13e-01 1vcaA 202 1.01e+00 1vcaA b.1.1.3,b.1.1.4 21649,21685 1tf4A 605 1.30e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 2b59A 187 1.37e+00 1ieaA 192 1.87e+00 1iakA b.1.1.2,d.19.1.1 21631,38205 2bm3A 166 2.14e+00 1g87A 614 2.50e+00 a.102.1.2,b.2.2.2 83275,83276 1iq4A 179 2.71e+00 1iq4A d.77.1.1 62641 1txqA 93 2.79e+00 1jjyA 636 3.53e+00 1jjyA 1su8A 636 3.54e+00 e.26.1.2 98999 1h3nA 878 3.70e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1fm0D 81 3.78e+00 1fmaD d.15.3.1 37642 2as9A 210 3.78e+00 1qyaA 307 3.90e+00 d.21.1.2,d.21.1.2 104653,104654 1l0wA 580 4.67e+00 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1yirA 408 4.72e+00 1k4nA 192 5.51e+00 d.32.1.5 72059 1cwvA 492 5.63e+00 1cwvA b.1.14.1,b.1.14.1,b.1.14.1,b.1.14.1,d.169.1.3 22373,22374,22375,22376,42442 1pm1X 180 6.39e+00 b.60.1.1 104189 1xkpC 143 6.67e+00 1x8qA 184 6.70e+00 1zo2A 129 6.88e+00 1sotA 320 6.91e+00 b.36.1.4,b.47.1.1 105852,105853 1cbs 137 7.02e+00 1hmt b.60.1.2 27201 2f4lA 297 7.44e+00 1sy3A 184 7.71e+00 b.60.1.1 106110 1gmeA 151 7.99e+00 b.15.1.1 65305 1xdnA 277 8.80e+00 1peeA 180 8.84e+00 b.60.1.1 104126 1sdjA 310 9.02e+00 d.21.1.2,d.21.1.2 98807,98808 1oh0A 131 9.03e+00 d.17.4.3 87004 1r4vA 171 9.71e+00 a.197.1.1 97049 1k77A 260 9.84e+00 c.1.15.5 72096 2bl1A 172 1.01e+01 2fl4A 149 1.07e+01 1g6oA 330 1.12e+01 1g6oA c.37.1.11 32430 1pvyA 227 1.15e+01 d.115.1.2 95195 1aqb 183 1.16e+01 1aqb b.60.1.1 27084 1nnxA 109 1.20e+01 b.40.10.1 92013 2gr8A 99 1.24e+01 1hbq 183 1.24e+01 1aqb b.60.1.1 27078 1l1qA 186 1.25e+01 c.61.1.1 77653 1ymmA 191 1.29e+01 1ny4A 82 1.30e+01 b.40.4.5 92316 1koiA 184 1.31e+01 b.60.1.1 68725 1xeuA 263 1.38e+01 1n67A 359 1.39e+01 b.2.3.4,b.2.3.4 85354,85355 1snnA 227 1.42e+01 d.115.1.2 105821 1ic6A 279 1.43e+01 1gci c.41.1.1 62257 1dmmA 131 1.44e+01 1opy d.17.4.3 38114 2f7tA 227 1.44e+01 1te5A 257 1.45e+01 d.153.1.1 106795 1euoA 180 1.45e+01 1np1A b.60.1.1 27163 1yvoA 172 1.47e+01 1rf6A 427 1.48e+01 d.68.2.2 97366 1pyaB 228 1.50e+01 1pyaB 1prtF 98 1.58e+01 1prtF b.40.2.1 25140 1kt6A 183 1.62e+01 b.60.1.1 84466 1opy 131 1.65e+01 1opy d.17.4.3 38113 1vrbA 342 1.66e+01 1ztuA 341 1.71e+01 1whvA 100 1.72e+01 1hnuA 280 1.74e+01 1hnoA c.14.1.3 61096 1jjeA 222 1.78e+01 1a7tA d.157.1.1 63117 2sli 679 1.86e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1lshA 1056 1.87e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1erxA 184 1.89e+01 1np1A b.60.1.1 27164 1o9yA 84 1.91e+01 b.139.1.1 92692 1u2cA 246 2.00e+01 b.1.6.2,d.272.1.1 107610,107611 1bj7 156 2.04e+01 1bj7 b.60.1.1 27113 1p6pA 125 2.05e+01 b.60.1.2 87839 2fimA 276 2.15e+01 2beiA 170 2.26e+01 1ww7A 160 2.30e+01 2d0eA 407 2.30e+01 1tlk 154 2.38e+01 1tlk b.1.1.4 21707 1s1fA 406 2.45e+01 2conA 79 2.47e+01 1gtmA 419 2.50e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1jx2B 315 2.53e+01 c.37.1.8 67404 2fg1A 158 2.59e+01 1bkzA 135 2.62e+01 1a3k b.29.1.3 24202 1o0wA 252 2.66e+01 a.149.1.1,d.50.1.1 80751,80752 1u69A 163 2.73e+01 d.32.1.7 107699 1o20A 427 2.77e+01 c.82.1.1 86556 1dqeA 137 2.78e+01 1dqeA a.39.2.1 17388 1gkzA 388 2.81e+01 a.29.5.1,d.122.1.4 65268,65269 2btiA 63 2.91e+01 1ve4A 206 2.94e+01 1d7oA 297 2.97e+01 1enp c.2.1.2 29907 1h5uA 842 2.98e+01 1a8i c.87.1.4 60655 1tiqA 180 3.03e+01 d.108.1.1 107010 2d09A 407 3.06e+01 1enp 312 3.07e+01 1enp c.2.1.2 29906 1vpzA 73 3.09e+01 1tp6A 128 3.20e+01 d.17.4.12 107184 1j8yF 297 3.22e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1q52A 314 3.34e+01 c.14.1.3 95846 2awkA 228 3.44e+01 1vapA 123 3.53e+01 1poa a.133.1.2 19548 1xfoA 357 3.53e+01 1qysA 106 3.53e+01 k.41.1.1 96603 1kshB 152 3.54e+01 b.1.18.8 72915 1wgzA 510 3.58e+01 1xfrA 128 3.71e+01 1pjhA 280 3.73e+01 c.14.1.3 94761 2f6kA 307 3.83e+01 1fvkA 189 3.86e+01 1fvkA c.47.1.13 90351 1xi1A 575 3.89e+01 1wgbA 159 3.96e+01 1rdr 461 3.96e+01 1rdr e.8.1.4 43116 1xsrA 168 4.05e+01 2a15A 139 4.06e+01 2aq8A 269 4.10e+01 1y0yA 353 4.10e+01 1rmg 422 4.15e+01 1rmg b.80.1.3 28029 1mlbA 214 4.19e+01 8fabA b.1.1.1,b.1.1.2 20050,21092 1f28A 297 4.19e+01 1bkpA d.117.1.1 59608 2f5gA 133 4.26e+01 1unnC 115 4.26e+01 d.240.1.1 99680 1kzfA 230 4.26e+01 d.108.1.3 73354 1b5qA 472 4.28e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 1ospL 214 4.30e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1jjtA 228 4.34e+01 1a7tA d.157.1.1 63139 1fhgA 154 4.34e+01 1tlk b.1.1.4 21706 1id2A 106 4.39e+01 1aac b.6.1.1 62288 1ekfA 365 4.43e+01 1ekfA e.17.1.1 59445 2c78A 405 4.54e+01 1kypA 237 4.60e+01 d.22.1.1 73280 2a1hA 365 4.69e+01 1fts 295 4.69e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 1mqkL 120 4.72e+01 b.1.1.1 85054 1bwwA 109 4.76e+01 8fabA b.1.1.1 20518 1f3uA 118 4.84e+01 1f3uA b.65.1.1 27521 1a3c 181 4.94e+01 1a3c c.61.1.1 34095 1uluA 261 5.01e+01 1fyhB 229 5.12e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1ju2A 536 5.13e+01 c.3.1.2,d.16.1.1 77169,77170 2bc4A 211 5.15e+01 1ihjA 98 5.21e+01 1pdr b.36.1.1 62382 1ei1A 391 5.32e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1nxzA 246 5.32e+01 b.122.1.2,c.116.1.5 86391,86392 2fyxA 143 5.32e+01 2furA 209 5.38e+01 2reb 352 5.44e+01 2reb c.37.1.11,d.48.1.1 32282,38767 1x3eA 165 5.46e+01 1tfzA 424 5.48e+01 d.32.1.3,d.32.1.3 106886,106887 2bjqA 345 5.54e+01 1uacL 107 5.55e+01 b.1.1.1 99133 1w2wA 211 5.58e+01 c.124.1.5 109130 1thqA 170 5.63e+01 f.4.1.2 106920 1sltA 134 5.68e+01 1c1lA b.29.1.3 24186 1zthA 258 5.74e+01 1mm4A 170 5.75e+01 f.4.1.2 79294 1kolA 398 5.78e+01 b.35.1.2,c.2.1.1 77474,77475 1ej6D 418 5.88e+01 i.7.1.1 45970 1ly2A 130 5.99e+01 g.18.1.1,g.18.1.1 74335,74336 2g3aA 152 6.05e+01 1ikpA 613 6.12e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 2afcA 168 6.15e+01 1pujA 282 6.18e+01 c.37.1.8 88294 1cd8 114 6.19e+01 1cd8 b.1.1.1 19714 2aabL 218 6.37e+01 1j8mF 297 6.40e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1p9eA 331 6.52e+01 d.157.1.5 104088 1acvA 189 6.59e+01 1fvkA c.47.1.13 90328 1ngzA 213 6.69e+01 b.1.1.1,b.1.1.2 80500,80501 2c4bA 143 6.73e+01 1gzwA 134 6.73e+01 b.29.1.3 90535 1vjlA 164 6.75e+01 d.257.1.1 100822 1j1bA 420 6.78e+01 d.144.1.7 90758 1ej0A 180 6.80e+01 1ej0A c.66.1.2 34179 1ttwA 138 6.81e+01 d.198.1.1 107308 2tpt 440 6.98e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1jsdB 176 7.06e+01 h.3.1.1 63259 1c8zA 265 7.08e+01 1c8zA d.23.1.1 38375 1x74A 360 7.09e+01 1tllA 688 7.12e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1ema 236 7.13e+01 1ema d.22.1.1 38339 1f60A 458 7.18e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2ajuL 216 7.28e+01 1w6nA 134 7.30e+01 1ur4A 399 7.38e+01 1b06A 210 7.39e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1umkA 275 7.48e+01 2bjbA 462 7.59e+01 1o6aA 96 7.60e+01 b.139.1.1 92562 1gouA 116 7.92e+01 d.1.1.2 65429 1snzA 344 7.94e+01 b.30.5.4 98930 1a2pA 110 8.05e+01 1b20A d.1.1.2 36140 1o6vA 466 8.06e+01 b.1.18.15,c.10.2.1 81099,81100 1lnsA 763 8.10e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1xznA 179 8.23e+01 1erjA 393 8.25e+01 1erjA b.69.4.1 27660 2fdoA 94 8.27e+01 3ullA 132 8.29e+01 3ullA b.40.4.3 25282 1gnxA 479 8.31e+01 c.1.8.4 76241 1bi5A 389 8.31e+01 1bi5A c.95.1.2,c.95.1.2 35985,35986 1u58A 253 8.35e+01 1y14B 171 8.42e+01 1vr5A 547 8.44e+01 1i88A 389 8.44e+01 c.95.1.2,c.95.1.2 66070,66071 1uheA 97 8.46e+01 1nzjA 298 8.55e+01 c.26.1.1 92377 1mdc 133 8.57e+01 1hmt b.60.1.2 27198 1w1nA 33 8.64e+01 1tvgA 153 8.69e+01 1vhyA 257 8.71e+01 b.122.1.2,c.116.1.5 100714,100715 2bm8A 236 8.74e+01 1f20A 435 8.78e+01 b.43.4.1,c.25.1.4 64932,64933