# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 1d2eA 397 1.29e-02 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1zn8A 180 1.22e-01 1hoe 74 1.92e-01 1hoe b.5.1.1 22833 1yhfA 115 1.95e-01 1ok0A 74 2.09e-01 b.5.1.1 93191 1onxA 390 3.17e-01 b.92.1.7,c.1.9.13 87176,87177 1h8eD 482 3.76e-01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1e79D 482 5.77e-01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 2ck3D 482 5.83e-01 1ha3A 405 5.94e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 2fhxA 246 6.49e-01 1oaqL 120 6.91e-01 b.1.1.1 92708 2c78A 405 7.24e-01 1exmA 405 1.10e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1ifrA 121 1.12e+00 b.1.16.1 71203 1osyA 115 1.17e+00 b.1.21.1 93502 1psuA 140 1.17e+00 d.38.1.5 88285 2fs2A 151 1.26e+00 1vhzA 198 1.27e+00 d.113.1.1 100718 1kk1A 410 1.45e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1suwA 249 1.81e+00 e.52.1.1 106027 1z0sA 278 1.84e+00 1ojqA 212 1.86e+00 d.166.1.1 93146 1yhpA 212 1.98e+00 2d1eA 248 2.83e+00 1o9yA 84 2.99e+00 b.139.1.1 92692 1cd8 114 3.46e+00 1cd8 b.1.1.1 19714 1a6wL 109 3.85e+00 1mfa b.1.1.1 20252 1vkyA 347 3.94e+00 e.53.1.1 108696 1z6bA 154 4.43e+00 1bx1A 314 4.43e+00 1fnc b.43.4.2,c.25.1.1 25629,31519 1fnd 314 4.74e+00 1fnc b.43.4.2,c.25.1.1 25626,31516 2d4qA 257 4.89e+00 1y55X 126 4.89e+00 1h54A 754 5.38e+00 a.102.1.4,b.30.5.3 60634,60635 1wbiA 129 5.51e+00 1fnc 314 5.52e+00 1fnc b.43.4.2,c.25.1.1 25627,31517 1m2xA 223 5.88e+00 d.157.1.1 84764 1wh0A 134 6.65e+00 2d7nA 93 6.71e+00 1wruA 379 6.72e+00 1zkkA 167 6.82e+00 1v6fA 151 7.01e+00 d.109.1.2 108395 1yy5B 513 8.57e+00 1danH 254 9.24e+00 5ptp b.47.1.2 26292 1z8gA 372 9.54e+00 1jjeA 222 9.56e+00 1a7tA d.157.1.1 63117 1xe1A 116 9.59e+00 b.43.3.1 109571 1kliH 254 9.66e+00 b.47.1.2 77435 2breA 219 1.00e+01 2brcA 214 1.00e+01 2bz6H 254 1.02e+01 1tbuA 118 1.03e+01 1nqeA 594 1.04e+01 f.4.3.3 86027 2alaA 391 1.07e+01 1fs0E 138 1.07e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1faoA 126 1.10e+01 1faoA b.55.1.1 26974 1njkA 156 1.12e+01 d.38.1.1 85818 1u3oA 82 1.17e+01 1sjdA 368 1.18e+01 c.1.11.2,d.54.1.1 105632,105633 1yb3A 175 1.18e+01 1z47A 355 1.19e+01 1qcsA 211 1.24e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1gr3A 160 1.25e+01 b.22.1.1 65476 1fvuB 125 1.30e+01 1ixxB d.169.1.1 42346 1khbA 625 1.39e+01 c.91.1.1,c.109.1.1 68606,68607 1tit 98 1.45e+01 1tit b.1.1.4 21716 2bgoA 140 1.46e+01 1rsgA 516 1.58e+01 1kb0A 677 1.61e+01 a.3.1.6,b.70.1.1 68378,68379 1bqk 124 1.62e+01 1bqk b.6.1.1 22889 1dq3A 454 1.63e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2f4lA 297 1.63e+01 1ah6 220 1.65e+01 1yer d.122.1.1 41094 1zkiA 133 1.66e+01 1h9oA 112 1.69e+01 1qadA d.93.1.1 60837 1onwA 390 1.72e+01 b.92.1.7,c.1.9.13 87172,87173 1x8mA 288 1.72e+01 b.82.1.13 109516 1quqB 121 1.74e+01 1quqB b.40.4.3 25305 1pz4A 116 1.81e+01 d.106.1.1 95400 1e8pA 46 1.86e+01 g.55.1.1 59385 1hnjA 317 1.92e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1neu 124 1.93e+01 1neu b.1.1.1 19704 2cw8A 537 1.93e+01 1wwcA 118 2.01e+01 1wwcA b.1.1.4 21778 1jjtA 228 2.01e+01 1a7tA d.157.1.1 63139 1pkoA 139 2.17e+01 b.1.1.1 88147 1p57B 255 2.19e+01 b.47.1.2 94126 1u1zA 168 2.21e+01 d.38.1.6 107602 2crvA 120 2.23e+01 1yukA 103 2.24e+01 1go7P 462 2.32e+01 b.80.7.1,d.92.1.6 76245,76246 1k7iA 479 2.34e+01 b.80.7.1,d.92.1.6 77281,77282 1vkcA 158 2.35e+01 1uebA 184 2.36e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1dkgA 197 2.36e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1euoA 180 2.37e+01 1np1A b.60.1.1 27163 1dkuA 317 2.42e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1cqxA 403 2.47e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1gttA 429 2.54e+01 d.177.1.1,d.177.1.1 70529,70530 1xypA 190 2.54e+01 1axkA b.29.1.11 24327 1m8aA 70 2.61e+01 d.9.1.1 74579 1dv1A 449 2.62e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1y7rA 133 2.64e+01 1mfa 247 2.65e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 1xfcA 384 2.67e+01 1i7pA 274 2.73e+01 b.43.4.2,c.25.1.1 66048,66049 1xo8A 151 2.75e+01 2sfa 191 2.82e+01 1qq4A b.47.1.1 25815 1plc 99 2.83e+01 1plc b.6.1.1 22846 1ca1 370 2.86e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1eybA 471 2.88e+01 1ey2A b.82.1.4 28115 1lvmA 229 2.90e+01 b.47.1.3 78243 1ucyH 150 2.92e+01 1ucyH 1eajA 126 2.99e+01 1f5wA b.1.1.1 59401 1owxA 121 3.07e+01 d.58.7.1 87494 1d0dA 60 3.08e+01 1kigI g.8.1.2 44566 1onjA 61 3.10e+01 g.7.1.1 93358 1sgpE 185 3.14e+01 1qq4A b.47.1.1 25816 1xdnA 277 3.14e+01 1vb0A 61 3.15e+01 1avyA 74 3.17e+01 1avyB h.1.17.1 45656 1o7iA 119 3.21e+01 b.40.4.3 86642 2cvhA 220 3.25e+01 2as0A 396 3.26e+01 1cjaA 342 3.27e+01 1cjaA d.144.1.3 41708 1o4tA 133 3.28e+01 b.82.1.9 86622 1abrB 267 3.28e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 1olmA 403 3.31e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1y9qA 192 3.40e+01 1n6aA 259 3.42e+01 b.76.2.1,b.85.7.1 80121,80122 1ji6A 589 3.42e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1x8hA 228 3.43e+01 1kapP 479 3.44e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1wloA 136 3.49e+01 2b3nA 159 3.50e+01 1kbvA 327 3.53e+01 b.6.1.3,b.6.1.3 68395,68396 1bb9 115 3.59e+01 1bb9 b.34.2.1 24554 1ukgA 252 3.61e+01 b.29.1.1 99489 2bjfA 329 3.61e+01 1aisA 182 3.71e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 2evbA 74 3.74e+01 1o9wA 177 3.79e+01 b.2.3.5 86713 1ycsB 239 3.80e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1uaiA 224 3.81e+01 b.29.1.18 107761 1sheA 103 3.87e+01 d.274.1.1 105551 1ox3A 109 3.90e+01 h.1.17.1 93668 1v88A 130 3.95e+01 b.55.1.1 108423 1f60A 458 4.01e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1mjc 69 4.04e+01 1mjc b.40.4.5 25319 1pm1X 180 4.06e+01 b.60.1.1 104189 1t77A 414 4.10e+01 2f69A 261 4.11e+01 1xruA 282 4.17e+01 1vcbC 160 4.26e+01 1vcbC b.3.3.1 22535 1o6uA 403 4.32e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1c9oA 66 4.33e+01 1mjc b.40.4.5 25325 1i88A 389 4.34e+01 c.95.1.2,c.95.1.2 66070,66071 1peeA 180 4.41e+01 b.60.1.1 104126 2fl4A 149 4.42e+01 1o91A 178 4.50e+01 b.22.1.1 92656 1wzaA 488 4.53e+01 1ub1A 133 4.53e+01 d.10.1.3 99140 1xtlA 175 4.56e+01 1vzqH 250 4.68e+01 2f57A 317 4.71e+01 1rwrA 301 4.72e+01 b.80.1.11 97990 1hxs1 302 4.74e+01 1jvsA 400 4.77e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1umhA 184 4.78e+01 b.18.1.21 99605 2bolA 314 4.84e+01 1h9sA 140 4.86e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 2eifA 136 4.88e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1lm8V 160 4.90e+01 b.3.3.1 74035 1q0qA 406 4.90e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1c01A 76 4.91e+01 1c01A b.11.1.5 23633 1hpcA 131 4.95e+01 1htp b.84.1.1 28221 1htp 131 4.97e+01 1htp b.84.1.1 28220 1jnyA 435 4.98e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1e3aB 560 5.06e+01 1ajqB 1v1hA 103 5.08e+01 b.83.1.1,h.1.17.1 108243,108244 1oalA 151 5.09e+01 b.1.8.1 86739 1sltA 134 5.09e+01 1c1lA b.29.1.3 24186 1umwA 237 5.10e+01 d.223.1.2,d.223.1.2 99631,99632 1t5yA 190 5.13e+01 b.122.1.1,d.17.6.3 106495,106496 1zgsA 447 5.23e+01 1lo6A 223 5.23e+01 b.47.1.2 74143 2dd8S 202 5.24e+01 1odmA 331 5.26e+01 b.82.2.1 86875 1bk0 331 5.27e+01 1bk0 b.82.2.1 28118 1gv9A 260 5.29e+01 b.29.1.13 70596 1gk9B 557 5.32e+01 1v70A 105 5.37e+01 1pyaB 228 5.40e+01 1pyaB 1pov1 302 5.43e+01 1pov1 1vr7A 142 5.47e+01 1wluA 136 5.50e+01 1z9lA 128 5.52e+01 1tluA 130 5.53e+01 d.156.1.2 107139 1t2bA 397 5.56e+01 1mspA 126 5.57e+01 1mspA b.1.11.2 22333 1jhfA 202 5.64e+01 a.4.5.2,b.87.1.1 63057,63058 1o97C 264 5.67e+01 c.26.2.3 81232 1sqwA 188 5.73e+01 1lmrA 35 5.77e+01 g.3.6.3 91081 2g1lA 104 5.80e+01 1h1aA 191 5.82e+01 b.29.1.11 83450 1ygtA 111 5.84e+01 1gvp 87 5.84e+01 1gvp b.40.4.7 25369 1vqb 87 5.85e+01 1gvp b.40.4.7 25370 1y4oA 104 5.91e+01 1xnkA 196 5.97e+01 1kcxA 518 6.00e+01 b.92.1.3,c.1.9.6 90953,90954 1q87A 221 6.07e+01 e.47.1.1 96192 1oe1A 336 6.09e+01 b.6.1.3,b.6.1.3 86891,86892 2a7yA 83 6.23e+01 1j1yA 136 6.35e+01 d.38.1.5 90776 1ed7A 45 6.36e+01 1ed7A b.72.2.1 27809 1ts9A 102 6.43e+01 1j05B 121 6.49e+01 b.1.1.1 90736 1cs0A 1073 6.50e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1quqA 129 6.50e+01 1quqA b.40.4.3 25303 1w0pA 781 6.52e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1khoA 370 6.55e+01 a.124.1.1,b.12.1.3 72489,72490 1m9xC 146 6.55e+01 a.73.1.1 84907 1l1jA 239 6.56e+01 b.47.1.1 84516 1ax0 239 6.62e+01 1led b.29.1.1 24042 1qx4A 274 6.64e+01 b.43.4.2,c.25.1.1 104624,104625 1pn2A 280 6.66e+01 d.38.1.4,d.38.1.4 94930,94931 2fb1A 226 6.73e+01 1vzyA 291 6.76e+01 1qwyA 291 6.77e+01 b.84.3.2 96509 1p9bA 442 6.81e+01 c.37.1.10 94385 1kgcD 206 6.82e+01 b.1.1.1,b.1.1.2 77384,77385 1s12A 94 6.84e+01 1t6cA 315 6.88e+01 c.55.1.8,c.55.1.8 106558,106559 1t3cA 421 7.07e+01 d.92.1.7 106343 1v5rA 97 7.10e+01 2aw2A 120 7.16e+01 1d4tA 104 7.19e+01 1d4tA d.93.1.1 40537 1xr4A 509 7.20e+01 1vazA 88 7.20e+01 d.245.1.1 100554 1gg4A 452 7.21e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1qz8A 113 7.29e+01 b.140.1.1 96619 1dyoA 160 7.32e+01 1dyoA b.18.1.7 23771 1ci3M 249 7.32e+01 1hcz b.2.6.1,b.84.2.2 22480,28266 1sf8A 126 7.35e+01 d.271.1.1 105472 1x0tA 120 7.39e+01 1y3tA 337 7.40e+01 1viuA 203 7.41e+01 d.113.1.1 100771 2a6vA 226 7.44e+01 1earA 147 7.44e+01 b.107.1.1,d.58.38.1 64875,64876 2c60A 111 7.44e+01 1mk4A 157 7.45e+01 d.108.1.1 84979 1e2wA 251 7.46e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1fsgA 233 7.48e+01 1qk3A c.61.1.1 34029 2f4nA 273 7.52e+01 2gaeA 346 7.55e+01 1g38A 393 7.58e+01 2admA c.66.1.27 60235 4ubpA 101 7.60e+01 1ubpA d.8.1.1 37352 1pzgA 331 7.79e+01 c.2.1.5,d.162.1.1 95425,95426 2ar1A 172 7.82e+01 2cblA 305 7.85e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 2c34A 116 7.86e+01 1eu1A 780 7.94e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1ml8A 134 7.97e+01 d.227.1.2 85013 1h6qA 168 7.98e+01 1h6qA b.88.1.2 60692 1koiA 184 8.08e+01 b.60.1.1 68725 1ryiA 382 8.09e+01 2gpzA 111 8.10e+01 2ajfE 180 8.11e+01 1g1kA 143 8.15e+01 1aohA b.2.2.2 22404 1gkpA 458 8.21e+01 b.92.1.3,c.1.9.6 70231,70232 1pmy 123 8.35e+01 1bqk b.6.1.1 22888 1brfA 53 8.45e+01 1rb9 g.41.5.1 45236 1t82A 155 8.46e+01 d.38.1.5 106639 1erxA 184 8.50e+01 1np1A b.60.1.1 27164 1yk4A 52 8.50e+01 1xtmA 175 8.50e+01 1yvhA 329 8.52e+01 1bq9A 54 8.56e+01 1rb9 g.41.5.1 45238 1ymiA 334 8.58e+01 1t5eA 360 8.62e+01 f.46.1.1 106436 1kte 105 8.66e+01 1kte c.47.1.1 32771 1ut7A 171 8.75e+01 b.143.1.1 99906 1zk7A 467 8.76e+01 2fvgA 340 8.80e+01 1uldA 150 8.82e+01 b.29.1.3 99545 1xi7A 61 8.91e+01