# List of top-scoring protein chains for t06-100-30-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 1vjqA 79 3.91e-03 k.43.1.1 100830 1zhvA 134 4.33e-03 1kwmA 402 2.19e-02 c.56.5.1,d.58.3.1 73079,73080 1yj7A 171 4.15e-02 2f06A 144 1.72e-01 1dzkA 157 1.98e-01 1obpA b.60.1.1 27096 2cg4A 152 4.25e-01 1jyeA 349 4.45e-01 c.93.1.1 67455 1eexB 224 4.92e-01 1dioB c.51.3.1 33213 1g61A 228 5.89e-01 1g61A d.126.1.1 41126 2fclA 169 8.02e-01 2gukA 120 8.53e-01 1v7rA 186 8.99e-01 c.51.4.1 100482 1gt1A 159 9.82e-01 b.60.1.1 90515 1xppA 115 1.07e+00 1hdoA 206 1.13e+00 1he2A c.2.1.2 60965 2fqxA 318 1.22e+00 1s2oA 244 1.27e+00 1yfnA 118 1.35e+00 1zvpA 133 1.37e+00 1f2tB 148 1.57e+00 1f2tB 1mucA 373 1.65e+00 1mucA c.1.11.2,d.54.1.1 29236,38880 1oo0A 147 1.68e+00 d.232.1.1 87182 1omzA 293 1.86e+00 c.68.1.15 87093 1yqhA 109 1.89e+00 1rp0A 284 1.97e+00 1n71A 180 2.05e+00 d.108.1.1 85370 1jbeA 128 2.09e+00 3chy c.23.1.1 62845 1ezwA 349 2.15e+00 1ezwA c.1.16.3 29558 2g76A 335 2.30e+00 2pii 112 2.32e+00 2pii d.58.5.1 39071 1ewsA 32 2.34e+00 1ewsA g.9.1.1 59534 1oxkB 134 2.46e+00 c.23.1.1 93691 1kdgA 546 2.47e+00 c.3.1.2,d.16.1.1 77337,77338 1ykjA 394 2.48e+00 1j7xA 302 2.51e+00 c.14.1.2 66425 1ukuA 102 2.52e+00 d.58.5.2 99533 1sbyA 254 2.54e+00 1pba 81 2.67e+00 1pytA d.58.3.1 39067 1w8iA 156 2.78e+00 1jd1A 129 2.82e+00 1qu9A d.79.1.1 62890 1gnkA 112 2.83e+00 2pii d.58.5.1 39073 1b65A 375 2.88e+00 1b65A d.154.1.1 42020 1v6sA 390 2.97e+00 c.86.1.1 100424 1r6dA 337 3.17e+00 c.2.1.2 97148 1y81A 138 3.19e+00 1atlA 202 3.26e+00 1atlA d.92.1.9 40322 1bvoA 175 3.27e+00 1a3qA b.2.5.3 22457 1gh9A 71 3.36e+00 1gh9A g.41.6.1 45266 2c60A 111 3.72e+00 1wi6A 88 3.76e+00 1rybA 212 3.80e+00 c.56.3.1 98098 1nn5A 215 3.93e+00 c.37.1.1 85892 2ethA 154 3.95e+00 1rypL 212 4.17e+00 d.153.1.4 41880 1ypqA 135 4.20e+00 1wcwA 261 4.20e+00 1qd9A 124 4.54e+00 1qu9A d.79.1.1 39758 2d1uA 104 4.56e+00 2bjiA 277 4.68e+00 1ub0A 258 4.76e+00 c.72.1.2 88394 1umgA 362 4.76e+00 d.280.1.1 107956 1rz3A 201 4.84e+00 c.37.1.6 98132 2fe7A 166 4.98e+00 1yqtA 538 5.16e+00 1xp8A 366 5.27e+00 2f5tX 233 5.64e+00 1yzyA 413 5.68e+00 1lj9A 144 5.78e+00 a.4.5.28 78035 1ve1A 304 5.82e+00 1ospO 257 5.85e+00 1ospO b.76.1.1 27971 1x9zA 188 5.86e+00 1h75A 81 5.89e+00 1h75A c.47.1.1 60716 2aeeA 211 5.92e+00 1wexA 104 6.02e+00 1edg 380 6.14e+00 1edg c.1.8.3 28807 1ve4A 206 6.20e+00 1rv9A 259 6.48e+00 d.194.1.2 105105 1t0aA 159 6.84e+00 2f1kA 279 6.96e+00 1gmuA 143 7.35e+00 b.107.1.1,d.58.38.1 65335,65336 1meoA 209 7.42e+00 c.65.1.1 79035 1itxA 419 7.59e+00 c.1.8.5,d.26.3.1 71425,71426 1mzhA 225 7.68e+00 c.1.10.1 79698 1bu8A 452 7.83e+00 1gpl b.12.1.2,c.69.1.19 23647,34795 1pmmA 466 7.88e+00 c.67.1.6 94901 1pytA 94 7.97e+00 1pytA d.58.3.1 39064 1xd7A 145 8.01e+00 a.4.5.55 109566 1t1vA 93 8.16e+00 c.47.1.14 106278 1k0iA 394 8.17e+00 c.3.1.2,d.16.1.2 67942,67943 1us5A 314 8.25e+00 c.94.1.1 99856 2fiuA 99 8.26e+00 1xzzA 246 8.37e+00 1ta3B 303 8.38e+00 c.1.8.3 106732 1hywA 68 8.46e+00 1hywA d.186.1.1 61425 1tf1A 198 8.47e+00 d.110.2.2 106826 1zt2B 212 8.54e+00 1wwkA 307 8.64e+00 1vd6A 224 8.68e+00 1x31C 206 8.70e+00 1dp4A 435 8.89e+00 1dp4A c.93.1.1 35710 1ga8A 311 8.90e+00 1ga8A c.68.1.4 34516 1qysA 106 8.97e+00 k.41.1.1 96603 1cy5A 97 9.04e+00 1cy5A a.77.1.3 18430 1o8bA 219 9.05e+00 c.124.1.4,d.58.40.1 81180,81181 2cxcA 144 9.12e+00 2agaA 190 9.16e+00 1x6vA 630 9.29e+00 1jkxA 212 9.57e+00 c.65.1.1 66813 1id1A 153 9.76e+00 1id1A c.2.1.9 62286 1mkzA 172 1.01e+01 c.57.1.1 84998 1cmcA 104 1.01e+01 1cmbA a.43.1.5 17462 1ii5A 233 1.02e+01 c.94.1.1 62412 1wdyA 285 1.03e+01 1uv7A 110 1.05e+01 d.67.4.1 100040 1ycdA 243 1.05e+01 2ci1A 275 1.12e+01 1dg9A 157 1.13e+01 1dg9A c.44.1.1 32637 2a5hA 416 1.14e+01 2f6rA 281 1.15e+01 1nox 205 1.16e+01 1nox d.90.1.1 40242 1mixA 206 1.16e+01 a.11.2.1,b.55.1.5 79166,79167 1lkdA 297 1.17e+01 d.32.1.3,d.32.1.3 78059,78060 1nwzA 125 1.17e+01 d.110.3.1 86370 1xb4A 202 1.17e+01 2f60K 64 1.19e+01 1eluA 390 1.22e+01 1elqA c.67.1.3 34434 1iow 306 1.23e+01 1iow c.30.1.2,d.142.1.1 31713,41481 2cvjA 180 1.24e+01 1m5wA 243 1.27e+01 c.1.24.1 84836 1nrwA 288 1.29e+01 c.108.1.10 86128 1bupA 386 1.31e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1xwwA 157 1.31e+01 2bllA 345 1.32e+01 2f1rA 171 1.34e+01 1wu7A 434 1.35e+01 1e4yA 214 1.37e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1vhxA 150 1.37e+01 c.55.3.8 100712 1rz4A 226 1.37e+01 a.4.5.53,a.118.1.18 105131,105132 1xiyA 182 1.38e+01 2cvlA 124 1.38e+01 1e12A 253 1.38e+01 1c3wA f.13.1.1 43428 1oxxK 353 1.41e+01 b.40.6.3,c.37.1.12 93715,93716 1x54A 434 1.42e+01 2d5cA 263 1.42e+01 1qyaA 307 1.46e+01 d.21.1.2,d.21.1.2 104653,104654 1fjgP 88 1.47e+01 1emwA d.27.1.1 38444 1ss9A 311 1.49e+01 c.68.1.4 105978 1j3mA 129 1.51e+01 d.129.7.1 103836 1kamA 194 1.51e+01 c.26.1.3 72254 1vq3A 94 1.52e+01 1q1oA 98 1.52e+01 d.15.2.2 95596 2bkxA 242 1.53e+01 1whbA 157 1.53e+01 1w27A 714 1.53e+01 1ctf 74 1.54e+01 1ctf d.45.1.1 38759 2af4C 333 1.55e+01 1xewY 172 1.55e+01 1io1A 398 1.57e+01 1io1A e.32.1.1 62611 1xcbA 211 1.61e+01 a.4.5.38,c.2.1.12 109552,109553 2gaxA 135 1.62e+01 2d69A 430 1.62e+01 1z3eA 132 1.63e+01 1vfjA 116 1.64e+01 1o98A 511 1.66e+01 c.105.1.1,c.76.1.3 86684,86685 1yspA 181 1.69e+01 2atzA 180 1.70e+01 1sdjA 310 1.72e+01 d.21.1.2,d.21.1.2 98807,98808 1n0qA 93 1.73e+01 k.37.1.1 79754 1r1qA 100 1.76e+01 d.93.1.1 104763 1rf6A 427 1.78e+01 d.68.2.2 97366 1jofA 365 1.79e+01 b.69.10.1 71775 1dq3A 454 1.79e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1k1eA 180 1.80e+01 c.108.1.5 67995 1nm2A 317 1.80e+01 c.19.1.1,d.58.23.1 80654,80655 1v2xA 194 1.82e+01 c.116.1.1 100274 1jfrA 262 1.82e+01 1jfrA c.69.1.16 34724 1uufA 369 1.82e+01 b.35.1.2,c.2.1.1 100006,100007 1xqaA 113 1.82e+01 1k7kA 221 1.88e+01 c.51.4.1 72104 1vf8A 377 1.89e+01 1i5gA 144 1.89e+01 1ewxA c.47.1.10 61784 1ujcA 161 1.91e+01 2a8jA 420 1.92e+01 1avoA 60 1.94e+01 1avoA a.24.8.1 16619 1tvlA 454 1.95e+01 c.1.16.4 107366 1vmaA 306 1.95e+01 a.24.13.1,c.37.1.10 108887,108888 1k0eA 453 2.00e+01 d.161.1.1 67938 2asbA 251 2.00e+01 7a3hA 303 2.01e+01 7a3hA c.1.8.3 28817 1mla 309 2.08e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1wdpA 495 2.10e+01 2fs2A 151 2.11e+01 1yrrA 382 2.11e+01 1wddS 128 2.16e+01 1bif 469 2.16e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2f91A 237 2.18e+01 2bepA 159 2.18e+01 1bywA 110 2.21e+01 1bywA d.110.3.6 40912 1lfdA 87 2.22e+01 1lfdA d.15.1.5 37622 1v0lA 313 2.22e+01 c.1.8.3 108207 1qzzA 374 2.23e+01 a.4.5.29,c.66.1.12 96719,96720 1jqnA 883 2.24e+01 c.1.12.3 77159 1v8fA 276 2.25e+01 c.26.1.4 100503 1w78A 422 2.25e+01 1d0qA 103 2.25e+01 1d0qA g.41.3.2 45208 2dpmA 284 2.26e+01 2dpmA c.66.1.28 34246 2fiqA 420 2.26e+01 1qu9A 128 2.28e+01 1qu9A d.79.1.1 39755 1u11A 182 2.29e+01 c.23.8.1 107576 1n82A 331 2.29e+01 c.1.8.3 91703 1pot 325 2.30e+01 1pot c.94.1.1 35807 1jetA 517 2.31e+01 1jevA c.94.1.1 35718 1m40A 263 2.35e+01 e.3.1.1 74437 1io0A 185 2.38e+01 c.10.1.1 76753 2cbzA 237 2.39e+01 1chd 203 2.39e+01 1chd c.40.1.1 32478 1f1xA 322 2.39e+01 d.32.1.3,d.32.1.3 83208,83209 1gpeA 587 2.41e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1wd7A 261 2.43e+01 1pj5A 830 2.47e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1vixA 420 2.48e+01 c.56.5.4,d.58.19.1 100777,100778 8fabA 212 2.49e+01 8fabA b.1.1.1,b.1.1.2 19772,20882 1dxeA 256 2.50e+01 1dxeA c.1.12.5 29310 1g6eA 87 2.50e+01 1g6eA b.11.1.6 60317 1rp4A 389 2.53e+01 a.227.1.1 105027 1nls 237 2.55e+01 1nls b.29.1.1 23928 1njrA 284 2.60e+01 c.50.1.2 103858 1wy5A 317 2.66e+01 1w8kA 447 2.70e+01 1oywA 523 2.71e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1a7s 221 2.72e+01 1a7s b.47.1.2 26284 2bwnA 401 2.73e+01 1y5eA 169 2.73e+01 1fonA 240 2.75e+01 5ptp b.47.1.2 26231 1ou8A 111 2.76e+01 b.136.1.1 93543 1wr8A 231 2.76e+01 1v8cA 168 2.78e+01 d.15.3.1,d.129.5.1 100495,100496 1wznA 252 2.86e+01 1im5A 180 2.90e+01 c.33.1.3 66211 1o2dA 371 2.92e+01 e.22.1.2 86591 1zk4A 251 2.92e+01 1rmwA 212 2.96e+01 2b82A 211 2.97e+01 1l3iA 192 2.97e+01 c.66.1.22 77676 2oatA 439 2.98e+01 2dkb c.67.1.4 34452 1wb0A 445 3.01e+01 1eemA 241 3.04e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 2cw5A 255 3.04e+01 2cwxA 430 3.07e+01 1vhtA 218 3.07e+01 c.37.1.1 100700 1s8nA 205 3.10e+01 c.23.1.1 105374 2b0cA 206 3.12e+01 1w5tA 412 3.14e+01 1wy2A 351 3.15e+01 1bykA 255 3.16e+01 1bykA c.93.1.1 35706 2ff4A 388 3.17e+01 1jcfA 344 3.19e+01 c.55.1.1,c.55.1.1 62878,62879 1e3dA 266 3.22e+01 2frvA e.19.1.1 59188 1ww8A 439 3.22e+01 1bg4 302 3.22e+01 1taxA c.1.8.3 28806 1f9zA 135 3.22e+01 1qipA d.32.1.1 38484 1ct5A 256 3.23e+01 1ct5A c.1.6.2 28663 1l2tA 235 3.24e+01 c.37.1.12 73514 1t9hA 307 3.25e+01 1yzhA 214 3.26e+01 1lv7A 257 3.31e+01 c.37.1.20 78232 1zejA 293 3.32e+01 1ylkA 172 3.36e+01 1g2iA 166 3.37e+01 1g2iA c.23.16.2 31438 1vpkA 378 3.39e+01 1dljA 402 3.42e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1vfrA 218 3.42e+01 1vfrA d.90.1.1 40247 1rkd 309 3.47e+01 1rkd c.72.1.1 34928 2eutA 294 3.53e+01 1zin 217 3.55e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2g6tA 306 3.55e+01 1pv5A 264 3.58e+01 d.251.1.1 95150 1xviA 275 3.62e+01 1jv1A 505 3.66e+01 c.68.1.5 71892 1oe4A 247 3.67e+01 c.18.1.3 86895 1mp1A 111 3.68e+01 a.188.1.1 91382 2fwuA 157 3.72e+01 1e6yC 247 3.82e+01 1mroC d.58.31.1 39441 1qstA 160 3.84e+01 1yghA d.108.1.1 40804 1p57A 114 3.89e+01 d.170.1.2 94125 1aua 296 3.90e+01 1aua a.5.3.1,c.13.1.1 16290,30882 2c36A 285 3.92e+01 1u1sA 82 3.93e+01 1z3eB 73 3.93e+01 1wkrA 340 3.94e+01 b.50.1.2 109395 1ivnA 190 3.95e+01 c.23.10.5 83719 2axpA 173 4.03e+01 1bazA 53 4.04e+01 1bazA a.43.1.1 17421 1qahA 136 4.05e+01 d.79.1.1 96338 1nrgA 261 4.06e+01 b.45.1.1 80694 1w5fA 353 4.09e+01 2bkfA 87 4.10e+01 1ztcA 221 4.11e+01 1zh2A 121 4.11e+01 1zv1A 65 4.12e+01 1ynfA 458 4.13e+01 1tf5A 844 4.13e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1n2eA 300 4.14e+01 c.26.1.4 85268 1gk8I 140 4.16e+01 d.73.1.1 65242 1oz9A 150 4.22e+01 d.92.1.15 93808 1mwpA 96 4.22e+01 1mwpA d.170.2.1 42453 1r1mA 164 4.24e+01 d.79.7.1 96820 1v92A 46 4.28e+01 a.5.2.3 100531 1nh8A 304 4.29e+01 c.94.1.1,d.58.5.3 80507,80508 4uagA 437 4.32e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1q9uA 130 4.32e+01 d.129.7.1 96314 1q8iA 783 4.34e+01 c.55.3.5,e.8.1.1 96208,96209 1u94A 356 4.38e+01 c.37.1.11,d.48.1.1 107743,107744 1bob 320 4.38e+01 1bob d.108.1.1 40816 1r5mA 425 4.39e+01 1iuz 98 4.40e+01 1plc b.6.1.1 22861 1z5yE 149 4.45e+01 1vmjA 151 4.47e+01 2gupA 292 4.48e+01 8rucI 123 4.49e+01 1rboC d.73.1.1 39629 1wzaA 488 4.52e+01 1m8jA 181 4.53e+01 c.26.1.3 84875 1vqoN 187 4.55e+01 1ir21 140 4.58e+01 2bswA 146 4.60e+01 1oc7A 364 4.63e+01 c.6.1.1 86794 1vpqA 273 4.64e+01 2ag5A 246 4.65e+01 2cmuA 342 4.68e+01 1lf7A 182 4.73e+01 b.60.1.1 73878 1yxmA 303 4.73e+01 1j8fA 323 4.76e+01 1j8fA c.31.1.5 62738 1vdwA 254 4.77e+01 e.7.1.1 100569 1tl9A 339 4.78e+01 1ks8A 433 4.82e+01 a.102.1.2 77519 1ej2A 181 4.84e+01 1f9aA c.26.1.3 59414 1vpt 348 4.84e+01 3mag c.66.1.25 34207 1vapA 123 4.85e+01 1poa a.133.1.2 19548 1hrhA 136 4.86e+01 1rthA c.55.3.1 33577 2gqrA 237 4.87e+01 1w3oA 216 4.88e+01 7taa 478 4.91e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1fkqA 124 4.91e+01 3lzt d.2.1.2 36601 1nf2A 268 4.92e+01 c.108.1.10 91849 2mltA 27 4.94e+01 j.19.1.1 46171 1dzfA 215 4.95e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1z84A 351 4.96e+01 2gfgA 193 4.98e+01 1eokA 290 4.98e+01 1eokA c.1.8.5 28991 1m0dA 138 5.02e+01 c.52.1.17 74354 1vfgA 390 5.04e+01 a.173.1.1,d.218.1.4 108570,108571 1a6m 151 5.05e+01 1a6m a.1.1.2 15018 1o8xA 146 5.12e+01 c.47.1.10 86681 1b8zA 90 5.12e+01 1huuA a.55.1.1 17902 1jysA 242 5.17e+01 c.56.2.1 77216 1k3rA 268 5.17e+01 b.40.4.10,c.116.1.2 72018,72019 1wrvA 308 5.21e+01 1zgzA 122 5.23e+01 1l1qA 186 5.25e+01 c.61.1.1 77653 1q1aA 289 5.26e+01 c.31.1.5 95561 1y1oA 203 5.28e+01 1jdlA 121 5.28e+01 a.3.1.1 66557 1g6sA 427 5.28e+01 1eps d.68.2.2 39584 2bbsA 290 5.37e+01 1y0yA 353 5.38e+01 1jf8A 131 5.38e+01 c.44.1.1 66621 1f1uA 323 5.41e+01 d.32.1.3,d.32.1.3 83200,83201 1rloA 271 5.41e+01 2cvhA 220 5.41e+01 1t71A 281 5.42e+01 1wleA 501 5.45e+01 2g3aA 152 5.46e+01 2frfA 153 5.46e+01 1gjnA 153 5.48e+01 a.1.1.2 70191 1tg7A 971 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