# List of top-scoring protein chains for 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.soe.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 2o5fA 171 1.74e-17 2fkbA 180 3.79e-12 d.113.1.2 133650 1q54A 183 1.23e-09 d.113.1.2 95860 1hx3A 190 1.24e-09 1i9aA d.113.1.2 61351 1i9aA 182 3.77e-09 1i9aA d.113.1.2 62082 1ppvA 183 3.77e-09 d.113.1.2 104282 1hztA 190 3.80e-09 1i9aA d.113.1.2 61459 1x84A 189 3.80e-09 d.113.1.2 121795 2g74A 183 3.96e-09 d.113.1.2 134728 1x83A 189 4.01e-09 d.113.1.2 121793 1r67A 190 5.32e-09 d.113.1.2 97147 2pnyA 246 1.19e-07 2icjA 233 2.83e-07 2dhoA 235 6.92e-07 1v8nA 170 2.14e-05 d.113.1.1 113575 1v8wA 170 9.91e-05 d.113.1.1 113580 1v8yA 170 1.07e-04 d.113.1.1 113581 2pbtA 134 6.03e-04 2dsbA 227 1.43e-03 3bm4A 210 1.47e-03 2dscA 212 1.47e-03 2pqvA 154 1.64e-03 1g0sA 209 2.52e-03 1g0sA d.113.1.1 60187 1viqA 220 2.59e-03 d.113.1.1 100766 1mutA 129 2.99e-03 d.113.1.1 40921 2yvpA 182 5.89e-03 1k2eA 156 5.97e-03 d.113.1.1 72010 1nqzA 194 7.65e-03 d.113.1.1 86077 2dukA 138 1.26e-02 1vcdA 126 1.36e-02 d.113.1.1 119970 2fvvA 194 2.72e-02 d.113.1.1 134226 1iryA 156 2.96e-02 d.113.1.1 90690 1viuA 203 3.05e-02 d.113.1.1 100771 1ktgA 138 3.18e-02 d.113.1.1 72972 1f3yA 165 4.29e-02 d.113.1.1 59635 1vk6A 269 4.55e-02 d.113.1.4 111609 d.113.1.4 100852 g.41.14.1 111610 2qjtA 352 5.11e-02 1vhzA 198 7.96e-02 d.113.1.1 100718 1vc9A 126 8.24e-02 d.113.1.1 119968 2qjoA 341 9.45e-02 3cngA 189 1.06e-01 1xsaA 153 1.43e-01 d.113.1.1 115922 1awdA 94 2.23e-01 d.15.4.1 37673 2jvbA 146 2.30e-01 2o1cA 150 2.63e-01 1sjyA 159 3.06e-01 d.113.1.1 98900 2b06A 155 3.36e-01 d.113.1.1 127624 2yyhA 139 3.53e-01 2azwA 148 5.12e-01 d.113.1.1 127615 2b0vA 153 1.03e+00 d.113.1.1 127650 2v1yA 108 1.04e+00 1mqeA 207 1.09e+00 d.113.1.1 91394 1q33A 292 1.13e+00 d.113.1.1 95657 1y17A 129 3.44e+00 d.169.1.1 122519 2cw8A 537 3.62e+00 2ogbA 126 4.36e+00 2fzpA 144 4.45e+00 2gwfB 134 4.53e+00 1e4iA 447 4.91e+00 1e70M c.1.8.4 59225 1tr1A 447 4.96e+00 1e70M c.1.8.4 28957 2q4zA 312 5.00e+00 2gu2A 312 5.00e+00 2i94A 202 5.34e+00 a.39.1.5 137109 1dikA 874 5.66e+00 c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 2dikA 873 5.66e+00 1dik c.1.12.2 29306 c.8.1.1 30704 d.142.1.5 41574 1bgaA 447 5.84e+00 1e70M c.1.8.4 28961 1uyqA 447 5.85e+00 c.1.8.4 119769 1bggA 448 5.86e+00 1e70M c.1.8.4 28953 1kjlA 146 5.87e+00 b.29.1.3 118689 3b46A 447 5.97e+00 1p6rA 82 6.03e+00 a.4.5.39 94187 2hetA 189 6.03e+00 a.39.1.5 136356 2yz2A 266 6.23e+00 3bi1A 709 6.49e+00 2ootA 709 6.49e+00 a.48.2.1 139176 c.8.4.1 139177 c.56.5.5 139178 2or4A 709 6.49e+00 a.48.2.1 139258 c.8.4.1 139259 c.56.5.5 139260 3bhxA 709 6.49e+00 1z8lA 695 6.49e+00 a.48.2.1 124706 c.8.4.1 124707 c.56.5.5 124708 2c6cA 707 6.49e+00 a.48.2.1 129989 c.8.4.1 129990 c.56.5.5 129991 1nu9C 281 6.63e+00 a.8.6.1 92200 a.8.6.1 92201 1nu7D 282 6.66e+00 a.8.6.1 92191 a.8.6.1 92192 1omrA 201 6.66e+00 a.39.1.5 93349 1omvA 201 6.92e+00 a.39.1.5 93353 2fmlA 273 6.94e+00 a.4.5.68 133778 d.113.1.6 133779 2qkmB 266 7.06e+00 2a6tA 271 7.12e+00 a.242.1.1 126309 d.113.1.7 126310 2izoB 246 7.26e+00 2ntiB 246 7.30e+00 2ix2B 245 7.42e+00 3c3xA 318 7.46e+00 2r6jA 318 7.59e+00 2qw8A 314 7.62e+00 2nn8A 138 7.74e+00 b.29.1.3 138392 2p19A 149 7.78e+00 2cb3A 175 7.79e+00 d.118.1.1 130175 1sd6A 123 7.84e+00 a.4.5.39 98803 2r2gA 318 8.09e+00 1okrA 123 8.40e+00 a.4.5.39 93269 1x6lA 563 8.82e+00 b.1.18.2 121745 c.1.8.5 121746 d.26.3.1 121747 2pagA 135 8.96e+00 1a3kA 137 9.14e+00 b.29.1.3 24218 1ggoA 873 9.28e+00 1dik c.1.12.2 29305 c.8.1.1 30703 d.142.1.5 41573 1kblA 873 9.29e+00 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1snlA 103 9.30e+00 a.39.1.7 105820 1jdeA 873 9.34e+00 c.1.12.2 66546 c.8.1.1 66547 d.142.1.5 66548 2r82A 874 9.40e+00 2v1tA 73 1.02e+01 1nh6A 540 1.03e+01 b.1.18.2 85713 c.1.8.5 85714 d.26.3.1 85715 3b8bA 292 1.03e+01 2d8nA 207 1.06e+01 1xhbA 472 1.12e+01 b.42.2.1 115290 c.68.1.17 115291 1fcdA 401 1.12e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 2ffjA 300 1.12e+01 e.50.1.1 133387 1k9tA 540 1.20e+01 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 2ckzB 218 1.25e+01 1eibA 540 1.27e+01 1ctn b.1.18.2 21874 c.1.8.5 29003 d.26.3.1 38437 1ffrA 540 1.28e+01 b.1.18.2 59810 c.1.8.5 59811 d.26.3.1 59812 4fxcA 98 1.28e+01 d.15.4.1 37663 1edqA 540 1.29e+01 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1ehnA 540 1.30e+01 1ctn b.1.18.2 21875 c.1.8.5 29004 d.26.3.1 38438 1j87A 172 1.30e+01 2fcbA b.1.1.4 62715 b.1.1.4 62716 1j88A 172 1.30e+01 2fcbA b.1.1.4 62717 b.1.1.4 62718 1f2qA 176 1.33e+01 2fcbA b.1.1.4 21789 b.1.1.4 21790 1ctnA 540 1.33e+01 b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 2aqeA 90 1.35e+01 a.4.1.18 127179 1cdoA 374 1.42e+01 2ohxA b.35.1.2 24747 c.2.1.1 29763 1emsA 440 1.42e+01 1emsA d.13.1.1 37520 d.160.1.1 42086 1r4mA 529 1.43e+01 c.111.1.2 96999 1tt5A 531 1.43e+01 c.111.1.2 107291 2quqA 562 1.54e+01 2veqA 565 1.55e+01 2atvA 196 1.57e+01 c.37.1.8 127308 2cujA 108 1.60e+01 a.4.1.18 130812 2o4hA 313 1.77e+01 2q51A 315 1.77e+01 2g9hD 218 1.94e+01 2pi4A 878 1.97e+01 e.8.1.3 139700 1mswD 883 1.97e+01 e.8.1.3 79427 1cezA 883 1.97e+01 1cezA e.8.1.3 43110 1aroP 883 1.97e+01 1cezA e.8.1.3 43112 1k1xA 659 2.00e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1f6aA 176 2.09e+01 2fcbA b.1.1.4 21791 b.1.1.4 21792 2q4wA 524 2.10e+01 2exrA 524 2.10e+01 1ps6A 328 2.36e+01 c.77.1.3 95070 1ptmA 329 2.36e+01 c.77.1.3 95104 1vl2A 421 2.39e+01 c.26.2.1 108708 d.210.1.1 108709 3c18A 290 2.43e+01 2dlbA 80 2.48e+01 2d1gA 498 2.58e+01 2hwzH 227 2.59e+01 2i5nH 258 2.61e+01 b.41.1.1 137064 f.23.10.1 137065 1dxrH 258 2.61e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 2qh8A 302 2.62e+01 2e47A 156 2.62e+01 2rftB 176 2.67e+01 2e46A 157 2.68e+01 1doxA 96 2.70e+01 d.15.4.1 37668 1t35A 191 2.70e+01 c.129.1.1 99108 1offA 97 2.71e+01 d.15.4.1 86947 1ozhA 566 2.71e+01 c.31.1.3 93833 c.36.1.5 93834 c.36.1.9 93835 2ywlA 180 2.72e+01 2cvjA 180 2.72e+01 3bt6B 169 2.75e+01 2q4dA 216 2.94e+01 c.129.1.1 139845 1y1uA 585 2.96e+01 2a5dB 193 3.06e+01 2uvbA 1878 3.17e+01 1xbfA 140 3.19e+01 d.273.1.1 109538 1vmhA 144 3.23e+01 d.273.1.1 113677 3c7bA 417 3.26e+01 2pdoA 144 3.40e+01 1j3gA 187 3.48e+01 d.118.1.1 77075 1klyA 247 3.52e+01 c.1.2.3 72730 1vjvA 415 3.54e+01 d.3.1.9 108632 2odtX 328 3.60e+01 1qydA 313 3.69e+01 c.2.1.2 96583 1v25A 541 3.70e+01 e.23.1.1 108275 1km1A 247 3.70e+01 c.1.2.3 72736 2q7dA 346 3.71e+01 2qb5A 347 3.72e+01 1wb1A 482 3.75e+01 b.43.3.1 114436 b.43.3.1 114437 b.44.1.1 114438 c.37.1.8 114439 1evlA 401 3.84e+01 1qf6A c.51.1.1 33202 d.104.1.1 40751 1j1lA 290 3.86e+01 b.82.1.12 90766 1irxA 523 3.96e+01 a.97.1.2 71378 c.26.1.1 71379 1rfkA 98 3.96e+01 2h3hA 313 3.99e+01 1wsuA 124 4.00e+01 a.4.5.35 121245 a.4.5.35 121246