# 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 1dq3A 454 3.15e-02 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1xngA 268 1.27e-01 1zvnA 99 5.55e-01 1f3lA 321 9.41e-01 1g6q2 c.66.1.6 59630 1yhfA 115 1.01e+00 1eylA 186 1.08e+00 1wba b.42.4.1 25593 1n4xH 120 1.21e+00 b.1.1.1 85324 1gg4A 452 1.64e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1zxkA 98 1.69e+00 1avwB 171 1.80e+00 1wba b.42.4.1 25599 1xe1A 116 1.87e+00 b.43.3.1 109571 1kk1A 410 1.98e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1suwA 249 2.10e+00 e.52.1.1 106027 1ca1 370 2.47e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1nezG 128 2.49e+00 b.1.1.1 85592 1rsy 152 2.52e+00 1rsy b.7.1.2 23192 1z0sA 278 2.56e+00 1gpmA 525 3.00e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1wh0A 134 3.09e+00 2fs2A 151 3.19e+00 2a2pA 129 3.34e+00 2fimA 276 3.43e+00 2ck3D 482 3.47e+00 2cokA 113 3.82e+00 1ifrA 121 3.89e+00 b.1.16.1 71203 1zn8A 180 3.96e+00 1k3iA 656 4.45e+00 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1lkdA 297 4.56e+00 d.32.1.3,d.32.1.3 78059,78060 1oaqL 120 4.88e+00 b.1.1.1 92708 1hfuA 503 5.05e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1xcbA 211 5.23e+00 a.4.5.38,c.2.1.12 109552,109553 1mpp 361 5.31e+00 2rmpA b.50.1.2 26856 1h8eD 482 5.73e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 2ew2A 316 5.85e+00 1iloA 77 5.91e+00 c.47.1.1 66205 2fvgA 340 6.29e+00 1zljA 78 6.38e+00 1rzfL 213 6.49e+00 b.1.1.1,b.1.1.2 98152,98153 1xl3C 92 6.62e+00 1z6bA 154 6.66e+00 1khoA 370 6.74e+00 a.124.1.1,b.12.1.3 72489,72490 1umhA 184 6.80e+00 b.18.1.21 99605 1qmeA 702 7.25e+00 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1tzyD 103 7.34e+00 a.22.1.1 107533 1yu0A 381 7.64e+00 1wbiA 129 7.97e+00 1y8tA 324 8.15e+00 1ojqA 212 8.30e+00 d.166.1.1 93146 1ok0A 74 8.85e+00 b.5.1.1 93191 1p5dX 463 9.38e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1dg6A 191 9.38e+00 1d4vB b.22.1.1 23883 2cyeA 133 9.41e+00 2fytA 340 9.74e+00 1sh0A 510 9.88e+00 e.8.1.4 98876 2axwA 134 1.00e+01 1ebfA 358 1.02e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1wy5A 317 1.04e+01 1gk9B 557 1.05e+01 1wruA 379 1.11e+01 1jhfA 202 1.11e+01 a.4.5.2,b.87.1.1 63057,63058 1pmzA 86 1.11e+01 a.39.1.10 104195 1ofdA 1520 1.13e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 2fhxA 246 1.13e+01 1d3cA 686 1.16e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1s6lA 212 1.16e+01 2g6fX 59 1.19e+01 1wu7A 434 1.20e+01 1tul 108 1.25e+01 1tul b.85.5.1 28373 1tlyA 278 1.27e+01 f.4.6.1 107143 1zkkA 167 1.28e+01 1y55X 126 1.31e+01 1el5A 389 1.33e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1l9kA 305 1.35e+01 c.66.1.25 84569 1ut1A 148 1.36e+01 b.2.3.6 108014 1io1A 398 1.37e+01 1io1A e.32.1.1 62611 1czfA 362 1.39e+01 1czfA b.80.1.3 28031 2ghsA 326 1.46e+01 1y7mA 164 1.47e+01 1jnyA 435 1.48e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2b3nA 159 1.53e+01 1lvwA 295 1.53e+01 c.68.1.6 84723 1j83A 180 1.53e+01 b.18.1.12 66430 1sznA 417 1.56e+01 b.71.1.1,c.1.8.1 106162,106163 1o4sA 389 1.57e+01 c.67.1.1 86620 1chmA 401 1.58e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1nqeA 594 1.61e+01 f.4.3.3 86027 1r8nA 185 1.63e+01 b.42.4.1 104851 1gt1A 159 1.66e+01 b.60.1.1 90515 1zvhA 134 1.68e+01 1o6sB 105 1.72e+01 b.1.6.1 81096 1nkgA 508 1.82e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 1t7lA 766 1.87e+01 1s3cA 141 1.90e+01 1xzoA 174 1.93e+01 1tif 78 1.95e+01 1tif d.15.8.1 37836 1qcsA 211 1.95e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1wckA 220 1.98e+01 1kb0A 677 1.99e+01 a.3.1.6,b.70.1.1 68378,68379 2bgoA 140 2.00e+01 1qtnA 164 2.03e+01 1pauA c.17.1.1 30999 1y9qA 192 2.04e+01 1zkiA 133 2.05e+01 1cojA 212 2.06e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1h54A 754 2.15e+01 a.102.1.4,b.30.5.3 60634,60635 1ekgA 127 2.16e+01 1dlxA d.82.2.1 40021 1faoA 126 2.17e+01 1faoA b.55.1.1 26974 1tbuA 118 2.27e+01 1vlbA 907 2.28e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1vjhA 122 2.41e+01 d.129.3.1 100811 2bm3A 166 2.43e+01 1osyA 115 2.44e+01 b.1.21.1 93502 1vddA 228 2.44e+01 e.49.1.1 108519 1m6yA 301 2.49e+01 a.60.13.1,c.66.1.23 78716,78717 1vkiA 181 2.54e+01 d.116.1.1 108664 1o91A 178 2.55e+01 b.22.1.1 92656 1mvfA 135 2.64e+01 b.1.1.1 85141 1yg6A 193 2.65e+01 2fzsA 193 2.68e+01 1olrA 224 2.68e+01 b.29.1.11 93330 1q7hA 153 2.69e+01 b.122.1.1,d.17.6.2 96042,96043 1uaiA 224 2.69e+01 b.29.1.18 107761 2bwrA 401 2.72e+01 1t82A 155 2.76e+01 d.38.1.5 106639 1xs1A 193 2.77e+01 1m2tB 263 2.79e+01 b.42.2.1,b.42.2.1 84762,84763 1xnkA 196 2.81e+01 1wpnA 188 2.87e+01 1v8hA 107 2.90e+01 1w85I 49 2.94e+01 2as0A 396 2.99e+01 1yhpA 212 3.02e+01 1kqpA 271 3.03e+01 c.26.2.1 72883 1ws0A 156 3.03e+01 1u24A 337 3.07e+01 1s1hC 192 3.07e+01 i.1.1.1 105156 1iq6A 134 3.18e+01 d.38.1.4 76755 1ve6A 582 3.22e+01 1yukA 103 3.23e+01 1nykA 165 3.30e+01 b.33.1.1 86408 2acaA 189 3.36e+01 1zrjA 50 3.46e+01 1gotB 340 3.46e+01 1tbgA b.69.4.1 27648 1zczA 464 3.47e+01 1zeqX 84 3.47e+01 1o9wA 177 3.61e+01 b.2.3.5 86713 1fvuB 125 3.61e+01 1ixxB d.169.1.1 42346 1i8nA 126 3.62e+01 1i8nA g.10.1.2 61976 1yb3A 175 3.68e+01 1dp4A 435 3.79e+01 1dp4A c.93.1.1 35710 1h9mA 145 4.01e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1mexH 215 4.06e+01 b.1.1.1,b.1.1.2 91257,91258 1bxoA 323 4.07e+01 2er7E b.50.1.2 26805 1g1kA 143 4.11e+01 1aohA b.2.2.2 22404 1lvmA 229 4.12e+01 b.47.1.3 78243 2a7yA 83 4.14e+01 1b25A 619 4.15e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ru4A 400 4.22e+01 b.80.1.9 97836 1hlvA 131 4.22e+01 a.4.1.7,a.4.1.7 65854,65855 1pguA 615 4.25e+01 b.69.4.1,b.69.4.1 88069,88070 1o9yA 84 4.25e+01 b.139.1.1 92692 1v3yA 192 4.26e+01 1vj2A 126 4.26e+01 b.82.1.10 100796 2f4lA 297 4.27e+01 2eifA 136 4.36e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1kxvC 121 4.38e+01 b.1.1.1 73190 1t0bA 252 4.39e+01 c.23.16.6 106199 1vkyA 347 4.39e+01 e.53.1.1 108696 1bb8 71 4.39e+01 2bb8 d.10.1.1 37478 1xfcA 384 4.40e+01 1wcgA 464 4.43e+01 2gjgA 248 4.44e+01 1gttA 429 4.55e+01 d.177.1.1,d.177.1.1 70529,70530 1qhdA 398 4.57e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1wkaA 147 4.64e+01 1jbeA 128 4.65e+01 3chy c.23.1.1 62845 2a6vA 226 4.69e+01 1b9mA 265 4.70e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 2g76A 335 4.71e+01 1epwA 1290 4.72e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1v04A 355 4.73e+01 b.68.6.2 100240 1onwA 390 4.75e+01 b.92.1.7,c.1.9.13 87172,87173 1h09A 338 4.76e+01 b.109.1.1,c.1.8.8 83420,83421 2aotA 292 4.81e+01 1po5A 476 4.82e+01 a.104.1.1 94963 2bjqA 345 4.85e+01 1m4vA 204 4.90e+01 b.40.2.2,d.15.6.1 74459,74460 1wluA 136 4.91e+01 1j8mF 297 4.98e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1jpyA 137 4.99e+01 g.17.1.6 67065 1nkqA 259 5.02e+01 d.177.1.1 103862 1zvyA 136 5.05e+01 1olmA 403 5.06e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1vrmA 325 5.06e+01 1oaqH 121 5.10e+01 b.1.1.1 92707 2f7tA 227 5.14e+01 1n08A 163 5.16e+01 b.43.5.1 79730 1exrA 148 5.20e+01 1cll a.39.1.5 17299 2d7nA 93 5.27e+01 1g5cA 170 5.27e+01 1g5cA c.53.2.1 60264 1kapP 479 5.28e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1wy2A 351 5.35e+01 1lktA 104 5.46e+01 1lktA b.90.1.1 28398 1z54A 132 5.49e+01 1dzaA 129 5.52e+01 7rsa d.5.1.1 37275 2d13A 227 5.53e+01 2asuB 234 5.56e+01 1xrsA 516 5.70e+01 1x67A 146 5.72e+01 1nlqA 108 5.75e+01 b.121.3.1 85853 2c78A 405 5.82e+01 1w6nA 134 5.82e+01 1hjrA 158 5.83e+01 1hjrA c.55.3.6 33727 1wdcB 156 5.83e+01 1wdcB a.39.1.5 17302 1dofA 403 5.89e+01 1c3cA a.127.1.1 19429 1x0vA 354 5.90e+01 1kk8B 139 5.93e+01 a.39.1.5 77430 1iq4A 179 5.93e+01 1iq4A d.77.1.1 62641 1gmyA 261 5.96e+01 d.3.1.1 76236 1zk5A 176 5.97e+01 1kzqA 289 6.01e+01 b.6.2.1,b.6.2.1 73374,73375 1h9oA 112 6.01e+01 1qadA d.93.1.1 60837 1pne 140 6.03e+01 1pne d.110.1.1 40866 1a9xB 379 6.08e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1m2xA 223 6.13e+01 d.157.1.1 84764 2d4qA 257 6.15e+01 1j1yA 136 6.16e+01 d.38.1.5 90776 2crvA 120 6.24e+01 2gpzA 111 6.26e+01 1vqoT 120 6.28e+01 1dzkA 157 6.30e+01 1obpA b.60.1.1 27096 2aq8A 269 6.37e+01 4ubpB 126 6.38e+01 1ubpB b.85.3.1 28345 2fcbA 173 6.43e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1z47A 355 6.44e+01 1qwdA 177 6.47e+01 b.60.1.1 96471 1ixlA 131 6.49e+01 d.38.1.5 90717 1ts9A 102 6.52e+01 2cc0A 195 6.53e+01 1eny 268 6.54e+01 1eny c.2.1.2 29910 1xovA 326 6.62e+01 1q0xH 221 6.63e+01 b.1.1.1,b.1.1.2 95517,95518 1z4vA 532 6.75e+01 1qznA 173 6.77e+01 b.2.2.2 104669 1uunA 184 6.81e+01 f.6.1.2 100012 1zanH 224 6.95e+01 1efyA 350 6.98e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1rq6A 62 6.99e+01 1xcrA 316 7.10e+01 1cruA 454 7.15e+01 1c9uA b.68.2.1 27617 1dqiA 124 7.18e+01 1do6A b.1.13.1 22357 1yfsA 465 7.28e+01 1ocyA 198 7.36e+01 d.231.1.1 86817 1y7rA 133 7.39e+01 1jykA 254 7.42e+01 c.68.1.13 67458 1v74B 87 7.44e+01 a.24.20.1 100443 1ux6A 350 7.46e+01 b.29.1.16,g.75.1.1 100145,100146 1w4sA 174 7.47e+01 1u00A 227 7.48e+01 1wb9A 800 7.49e+01 1xfpA 142 7.49e+01 b.1.1.1 109587 1z3eB 73 7.49e+01 1hnjA 317 7.52e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1rkqA 282 7.53e+01 c.108.1.10 97621 1zoxA 113 7.53e+01 1e4cP 215 7.60e+01 2fua c.74.1.1 34969 1dqeA 137 7.65e+01 1dqeA a.39.2.1 17388 2ahrA 259 7.65e+01 1zpsA 138 7.75e+01 2f9lA 199 7.79e+01 1amuA 563 7.81e+01 1amuA e.23.1.1 43351 1jm1A 204 7.96e+01 b.33.1.1 71745 2bcjB 340 8.02e+01 1x6zA 123 8.03e+01 1cdcA 99 8.08e+01 1cdcA b.1.1.1 19746 1vb0A 61 8.20e+01 1whzA 70 8.22e+01 1y89A 238 8.28e+01 1lucB 324 8.29e+01 1lucA c.1.16.1 29548 1wdcC 156 8.34e+01 1wdcC a.39.1.5 17317 1a64A 97 8.42e+01 1cdcA b.1.1.1 19750 1neu 124 8.44e+01 1neu b.1.1.1 19704 1o4wA 147 8.44e+01 c.120.1.1 86629 1bqk 124 8.48e+01 1bqk b.6.1.1 22889 1k12A 158 8.52e+01 b.18.1.15 71978 1m4rA 151 8.55e+01 a.26.1.3 84799 1e8pA 46 8.56e+01 g.55.1.1 59385 1t9fA 187 8.66e+01 b.42.6.1 106710 1g1tA 157 8.76e+01 d.169.1.1,g.3.11.1 65104,65105 1ee6A 197 8.80e+01 1ee6A b.80.1.1 28024 1i40A 175 8.89e+01 b.40.5.1 66024 1rcwA 231 8.89e+01 a.132.1.4 97299 2cioA 212 8.93e+01 1fs0E 138 8.94e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1v70A 105 8.98e+01 1sg0A 230 8.99e+01