# List of top-scoring protein chains for t2k-100-30-alpha 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 1igtB 444 3.14e-01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1tgoA 773 4.77e-01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1jqpA 438 5.94e-01 1ey2A 471 6.65e-01 1ey2A b.82.1.4 28116 1bn8A 420 6.87e-01 1pcl b.80.1.1 28022 1eybA 471 8.07e-01 1ey2A b.82.1.4 28115 1qgtA 149 8.42e-01 1qgtA a.62.1.1 18135 1xsoA 150 8.97e-01 1mfmA b.1.8.1 22273 1igtD 444 1.21e+00 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1tyv 542 1.22e+00 1tyv b.80.1.6 28038 1lqtA 456 1.27e+00 1hvc 203 1.46e+00 1hvc b.50.1.1 26614 1ejfA 125 1.53e+00 1ejfA b.15.1.2 23683 1tyu 543 1.67e+00 1tyv b.80.1.6 28037 1qa1A 554 1.74e+00 1tyv b.80.1.6 28047 8fabB 224 2.24e+00 1igtB b.1.1.1 19773 b.1.1.2 20883 1kv7A 488 2.24e+00 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1thjA 214 2.37e+00 1qreA b.81.1.5 28072 1qr4B 186 2.60e+00 1qr4B b.1.2.1 21988 b.1.2.1 21989 1tsp 559 3.07e+00 1tyv b.80.1.6 28044 1h80A 464 3.18e+00 b.80.1.8 65714 1bkb 136 3.42e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1qr4A 186 3.61e+00 1qr4B b.1.2.1 21986 b.1.2.1 21987 2fcr 173 4.07e+00 1rcf c.23.5.1 31151 1iatA 557 4.33e+00 1dqrA c.80.1.2 62123 1jhnA 424 4.41e+00 b.29.1.12 66720 b.29.1.12 66721 b.104.1.1 66722 1cxlA 686 4.75e+00 1cxlA b.1.1.5 21829 b.3.1.1 22498 b.71.1.1 27736 c.1.8.1 28723 1yghA 164 4.83e+00 1yghA d.108.1.1 40802 1d2pA 373 5.20e+00 1d2oA b.3.5.1 22629 b.3.5.1 22630 b.3.5.1 22631 b.3.5.1 22632 1qq1A 559 5.40e+00 1tyv b.80.1.6 28041 1kb0A 677 5.50e+00 a.3.1.6 68378 b.70.1.1 68379 1d3cA 686 5.84e+00 1cxlA b.1.1.5 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1jgsA 138 5.86e+00 a.4.5.28 66683 1cqqA 180 6.24e+00 1cqqA b.47.1.4 26422 1agjA 242 6.40e+00 1agjA b.47.1.1 25827 1l2tA 235 6.83e+00 1gof 639 6.87e+00 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 1mpp 361 6.89e+00 2rmpA b.50.1.2 26856 1r2fA 319 6.93e+00 1r2fA a.25.1.2 16800 1thv 207 7.27e+00 1thv b.25.1.1 23904 1goh 639 7.33e+00 1gof b.1.1.5 21809 b.18.1.1 23711 b.69.1.1 27633 1hm5A 558 7.48e+00 1dqrA 557 7.68e+00 1dqrA c.80.1.2 35305 1thw 207 7.94e+00 1thv b.25.1.1 23903 2asi 360 7.95e+00 2rmpA b.50.1.2 26824 1sva1 361 8.19e+00 1vpsA 1k3iA 656 8.29e+00 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1qrzA 246 8.71e+00 5ptp b.47.1.2 26366 1qreA 247 8.98e+00 1qreA b.81.1.5 28066 1ddjA 247 8.98e+00 5ptp b.47.1.2 26362 1jtaA 361 9.32e+00 1jjuA 489 9.86e+00 a.3.1.7 66774 a.3.1.7 66775 b.1.1.6 66776 b.1.1.6 66777 b.61.4.1 66778 1htyA 1015 9.88e+00 e.33.1.1 65948 1lml 478 1.01e+01 1lml d.92.1.3 40295 1jb9A 316 1.04e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1hxkA 1015 1.11e+01 e.33.1.1 65951 1lktA 104 1.12e+01 1lktA b.90.1.1 28398 2bbvC 363 1.12e+01 2bbvA b.10.1.3 23325 1kwhA 492 1.14e+01 c.94.1.1 68876 1jj2V 154 1.16e+01 1ffkT d.59.1.1 63107 1ffkT 154 1.19e+01 1ffkT d.59.1.1 39527 1hurA 180 1.24e+01 1hurA c.37.1.8 32052 1cbuA 180 1.31e+01 1c9kB c.37.1.11 32360 1hjp 203 1.32e+01 1hjp a.5.1.1 16274 a.60.2.1 17947 b.40.4.2 25266 1hwwA 1015 1.33e+01 e.33.1.1 65949 1k4iA 233 1.36e+01 1c9kB 180 1.38e+01 1c9kB c.37.1.11 32364 1jbuH 254 1.39e+01 5ptp b.47.1.2 62856 1h7zA 194 1.40e+01 1qhvA b.21.1.1 60733 1bdmA 327 1.41e+01 1bmdA c.2.1.5 30137 d.162.1.1 42104 1jc9A 269 1.44e+01 d.171.1.1 66490 1eu3A 210 1.46e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1ikoP 178 1.49e+01 1c9kA 180 1.51e+01 1c9kB c.37.1.11 32363 1h68A 239 1.58e+01 f.2.1.1 60664 1hhnA 101 1.59e+01 1hhnA b.104.1.1 61043 1ewqA 765 1.60e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1fzaB 328 1.63e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1f6dA 376 1.67e+01 1f6dA c.87.1.3 35467 1bmdA 327 1.67e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1kwsA 261 1.68e+01 1gal 583 1.68e+01 1gpeA c.3.1.2 30386 d.16.1.4 37950 2sodB 152 1.70e+01 1mfmA b.1.8.1 22242 2rmpA 361 1.70e+01 2rmpA b.50.1.2 26825 1m0kA 262 1.71e+01 1koqA 253 1.72e+01 2cba b.74.1.1 27964 1pvl 301 1.72e+01 1pvl f.6.1.1 43819 1fknA 391 1.81e+01 1fknA b.50.1.2 26879 1hbp 183 1.87e+01 1aqb b.60.1.1 27079 1hetA 374 1.88e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1arb 268 1.88e+01 1arb b.47.1.1 25766 1fggA 261 1.92e+01 1fggA c.68.1.7 34576 2at9 247 1.97e+01 1c3wA f.2.1.1 43427 1kopA 223 1.97e+01 2cba b.74.1.1 27966 1kzhA 555 1.98e+01 1c3wA 222 2.00e+01 1c3wA f.2.1.1 43405 1sek 378 2.05e+01 1sek e.1.1.1 42675 1qhqA 140 2.15e+01 1qhqA b.6.1.1 63326 1qh4A 380 2.16e+01 1qh4A a.83.1.1 18462 d.128.1.2 41197 1k4vA 289 2.23e+01 1qs8A 329 2.24e+01 1smrA b.50.1.2 26887 1at3A 247 2.26e+01 1at3A b.57.1.1 27021 1m4iA 181 2.30e+01 1g8oA 310 2.33e+01 1g8oA c.68.1.9 60375 1iw7C 1119 2.38e+01 1fjkA 52 2.39e+01 1fjkA j.37.1.1 46288 2bbvA 363 2.44e+01 2bbvA b.10.1.3 23323 1fhoA 119 2.45e+01 1fhoA b.55.1.1 26982 1lxdA 100 2.47e+01 1lfdA d.15.1.5 37624 1danH 254 2.47e+01 5ptp b.47.1.2 26292 1knb 196 2.53e+01 1qhvA b.21.1.1 23841 1faoA 126 2.54e+01 1faoA b.55.1.1 26974 1kf6D 119 2.56e+01 1qbjA 81 2.58e+01 1qbjA a.4.5.19 16155 1g7tA 594 2.60e+01 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1dbuA 158 2.61e+01 1dbuA d.116.1.1 40930 1idk 359 2.62e+01 1qcxA b.80.1.2 28025 1pcl 355 2.63e+01 1pcl b.80.1.1 28021 1kxlA 199 2.65e+01 1nls 237 2.67e+01 1nls b.29.1.1 23928 1cwvA 492 2.69e+01 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1e8uA 454 2.69e+01 1e8tA b.68.1.1 59389 1pamA 686 2.78e+01 1cxlA b.1.1.5 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1dykA 394 2.79e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1heuA 374 2.80e+01 2ohxA b.35.1.2 60979 c.2.1.1 60980 1eulA 994 2.82e+01 1eulA f.2.1.10 43726 1preB 470 2.84e+01 1preA d.169.1.2 42438 f.8.1.1 43825 2cb5A 453 2.87e+01 3gcb d.3.1.1 37035 1iw5A 113 2.91e+01 1kv9A 668 2.92e+01 1scs 237 2.93e+01 1nls b.29.1.1 23930 1qmeA 702 3.01e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1bdmB 327 3.03e+01 1bmdA c.2.1.5 30138 d.162.1.1 42105 1i50A 1733 3.04e+01 e.29.1.1 61754 1lfdA 87 3.04e+01 1lfdA d.15.1.5 37622 1c5kA 439 3.04e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1e8tA 454 3.14e+01 1e8tA b.68.1.1 59387 1bvoA 175 3.15e+01 1a3qA b.2.5.1 22457 1ebaA 215 3.16e+01 1eerB b.1.2.1 22015 b.1.2.1 22016 1hdhA 536 3.26e+01 c.76.1.2 65805 1e8cA 498 3.28e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1qba 858 3.42e+01 1qba b.1.1.5 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 1qtfA 246 3.44e+01 1agjA b.47.1.1 25830 1nfdA 203 3.44e+01 1tcrA b.1.1.1 20612 b.1.1.2 21550 1omp 370 3.47e+01 4mbp c.94.1.1 35778 1rthA 560 3.60e+01 1rthA c.55.3.1 33576 e.8.1.2 43028 1rcy 151 3.63e+01 1rcy b.6.1.1 23018 1cf3A 583 3.63e+01 1gpeA c.3.1.2 30385 d.16.1.4 37949 1clh 166 3.67e+01 2cpl b.62.1.1 27512 1jeoA 180 3.74e+01 c.80.1.3 66611 1dyr 206 3.75e+01 1aoeA c.71.1.1 34916 1qo0D 196 3.75e+01 1qo0D c.23.1.3 31125 1c01A 76 3.76e+01 1c01A b.11.1.5 23633 1gkxA 388 3.82e+01 a.29.5.1 65266 d.122.1.4 65267 2bnh 457 3.84e+01 1a4yA c.10.1.1 30850 1a3z 155 3.88e+01 1rcy b.6.1.1 23019 1hbq 183 3.88e+01 1aqb b.60.1.1 27078 1ahpA 797 3.90e+01 1a8i c.87.1.4 35544 1l9fA 389 3.90e+01 1e30A 155 3.91e+01 1rcy b.6.1.1 23016