# 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 1dq3A 454 1.51e-01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1d2eA 397 1.80e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1xngA 268 2.22e-01 1zvnA 99 8.89e-01 1xe1A 116 1.71e+00 b.43.3.1 109571 1yhfA 115 1.74e+00 1n4xH 120 1.99e+00 b.1.1.1 85324 1kk1A 410 2.21e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1l1jA 239 2.38e+00 b.47.1.1 84516 1f3lA 321 2.39e+00 1g6q2 c.66.1.6 59630 1suwA 249 3.16e+00 e.52.1.1 106027 1zxkA 98 3.19e+00 1onxA 390 3.36e+00 b.92.1.7,c.1.9.13 87176,87177 1eylA 186 3.39e+00 1wba b.42.4.1 25593 1sz6B 263 3.73e+00 1z0sA 278 3.94e+00 1gg4A 452 4.10e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1umhA 184 4.19e+00 b.18.1.21 99605 1gpmA 525 4.30e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1rzfL 213 4.61e+00 b.1.1.1,b.1.1.2 98152,98153 1nciA 110 4.97e+00 1edhA b.1.6.1 22191 1zn8A 180 5.39e+00 1oaqL 120 5.67e+00 b.1.1.1 92708 1hfuA 503 5.89e+00 b.6.1.3,b.6.1.3,b.6.1.3 65827,65828,65829 1avwB 171 6.06e+00 1wba b.42.4.1 25599 1nezG 128 6.32e+00 b.1.1.1 85592 1wh0A 134 6.43e+00 2a2pA 129 7.42e+00 1ifrA 121 7.53e+00 b.1.16.1 71203 1psuA 140 7.79e+00 d.38.1.5 88285 2ew2A 316 7.91e+00 2fs2A 151 8.01e+00 1ca1 370 8.63e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1ok0A 74 8.68e+00 b.5.1.1 93191 1lkdA 297 8.81e+00 d.32.1.3,d.32.1.3 78059,78060 1ngzB 220 9.14e+00 b.1.1.1,b.1.1.2 80502,80503 1h1aA 191 9.19e+00 b.29.1.11 83450 2fimA 276 9.32e+00 1xnkA 196 9.51e+00 1han 297 9.59e+00 1han d.32.1.3,d.32.1.3 38506,38507 1dg6A 191 9.76e+00 1d4vB b.22.1.1 23883 1hoe 74 9.88e+00 1hoe b.5.1.1 22833 2ck3D 482 9.92e+00 1e79D 482 9.93e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1yu4A 381 1.02e+01 1z6bA 154 1.05e+01 2cokA 113 1.09e+01 1yu0A 381 1.10e+01 1od5A 492 1.11e+01 b.82.1.2,b.82.1.2 86832,86833 1ut1A 148 1.13e+01 b.2.3.6 108014 1xl3C 92 1.19e+01 1xcbA 211 1.20e+01 a.4.5.38,c.2.1.12 109552,109553 1sznA 417 1.20e+01 b.71.1.1,c.1.8.1 106162,106163 1qmeA 702 1.22e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37487,37488,42560,42769 1kxvC 121 1.22e+01 b.1.1.1 73190 1wbiA 129 1.22e+01 1sh0A 510 1.23e+01 e.8.1.4 98876 1mpp 361 1.25e+01 2rmpA b.50.1.2 26856 1yu1A 381 1.33e+01 1wckA 220 1.33e+01 1iloA 77 1.34e+01 c.47.1.1 66205 1k2yX 463 1.34e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1hq3D 103 1.37e+01 1aoiB a.22.1.1 16464 1tzyD 103 1.37e+01 a.22.1.1 107533 1j83A 180 1.38e+01 b.18.1.12 66430 1a65A 504 1.41e+01 1a65A b.6.1.3,b.6.1.3,b.6.1.3 23148,23149,23150 2b43A 526 1.42e+01 1zljA 78 1.43e+01 1p5dX 463 1.43e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1h8eD 482 1.46e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1vhzA 198 1.46e+01 d.113.1.1 100718 1khoA 370 1.48e+01 a.124.1.1,b.12.1.3 72489,72490 1rsy 152 1.48e+01 1rsy b.7.1.2 23192 1yu2A 381 1.51e+01 1yu3A 381 1.54e+01 1kx5B 102 1.57e+01 a.22.1.1 77594 2axwA 134 1.68e+01 1nkgA 508 1.69e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2cyeA 133 1.71e+01 1u2fA 90 1.72e+01 1u2fA d.58.7.1 39168 1m2tB 263 1.79e+01 b.42.2.1,b.42.2.1 84762,84763 1gof 639 1.79e+01 1gof b.1.18.2,b.18.1.1,b.69.1.1 21807,23709,27631 2fvgA 340 1.82e+01 1tul 108 1.82e+01 1tul b.85.5.1 28373 1njkA 156 1.83e+01 d.38.1.1 85818 1s6lA 212 1.84e+01 1lvwA 295 1.87e+01 c.68.1.6 84723 1io1A 398 1.90e+01 1io1A e.32.1.1 62611 1ojqA 212 1.93e+01 d.166.1.1 93146 1wu7A 434 1.95e+01 1jhfA 202 2.01e+01 a.4.5.2,b.87.1.1 63057,63058 1y8tA 324 2.06e+01 1ofdA 1520 2.07e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1y9qA 192 2.07e+01 1wy5A 317 2.09e+01 1bjmA 216 2.09e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 2g6fX 59 2.15e+01 1zkkA 167 2.16e+01 1s1hC 192 2.18e+01 i.1.1.1 105156 1tbuA 118 2.18e+01 1qtnA 164 2.23e+01 1pauA c.17.1.1 30999 2fhxA 246 2.23e+01 1a6wL 109 2.24e+01 1mfa b.1.1.1 20252 1y55X 126 2.25e+01 1e3aB 560 2.25e+01 1ajqB 1wruA 379 2.25e+01 1bqhG 129 2.30e+01 1cd8 b.1.1.1 19715 2b3nA 159 2.31e+01 2ak5A 64 2.33e+01 2fytA 340 2.38e+01 1vkyA 347 2.44e+01 e.53.1.1 108696 1pmzA 86 2.48e+01 a.39.1.10 104195 1k3iA 656 2.48e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1o6sB 105 2.62e+01 b.1.6.1 81096 1zp7A 206 2.67e+01 1l9kA 305 2.71e+01 c.66.1.25 84569 2bwrA 401 2.72e+01 1theA 260 2.77e+01 1theB d.3.1.1 37056 1ni5A 433 2.86e+01 c.26.2.5,d.229.1.1 80533,80534 1s0uA 408 2.87e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2ghsA 326 2.88e+01 1y7mA 164 2.90e+01 1v04A 355 2.90e+01 b.68.6.2 100240 1vkiA 181 2.93e+01 d.116.1.1 108664 1ih8A 271 2.93e+01 2nsyA c.26.2.1 62377 1rznA 205 2.99e+01 1fftB 315 3.03e+01 1cyx b.6.1.2,f.17.2.1 23025,43628 2a7yA 83 3.10e+01 1xzoA 174 3.15e+01 1u3oA 82 3.20e+01 1ebdC 41 3.35e+01 1ebdC a.9.1.1 16355 1h09A 338 3.37e+01 b.109.1.1,c.1.8.8 83420,83421 1zvhA 134 3.38e+01 1tif 78 3.44e+01 1tif d.15.8.1 37836 1tlyA 278 3.45e+01 f.4.6.1 107143 1o91A 178 3.46e+01 b.22.1.1 92656 1cojA 212 3.48e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1lvmA 229 3.56e+01 b.47.1.3 78243 1ekgA 127 3.56e+01 1dlxA d.82.2.1 40021 1s3cA 141 3.57e+01 1j9bA 141 3.58e+01 c.47.1.12 66459 1nykA 165 3.62e+01 b.33.1.1 86408 1vjhA 122 3.63e+01 d.129.3.1 100811 1h9sA 140 3.65e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 1gk9B 557 3.65e+01 1wpnA 188 3.73e+01 1jnyA 435 3.75e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1t7lA 766 3.87e+01 1faoA 126 4.05e+01 1faoA b.55.1.1 26974 1m6yA 301 4.08e+01 a.60.13.1,c.66.1.23 78716,78717 1mexH 215 4.11e+01 b.1.1.1,b.1.1.2 91257,91258 1gt1A 159 4.13e+01 b.60.1.1 90515 1ebfA 358 4.13e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1hn2A 159 4.14e+01 b.60.1.1 65890 1zczA 464 4.14e+01 1h9mA 145 4.19e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1vj2A 126 4.20e+01 b.82.1.10 100796 1u1zA 168 4.21e+01 d.38.1.6 107602 1o6uA 403 4.30e+01 a.5.3.1,b.132.1.1,c.13.1.1 92589,92590,92591 1o0wA 252 4.30e+01 a.149.1.1,d.50.1.1 80751,80752 1qcsA 211 4.40e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1o4sA 389 4.41e+01 c.67.1.1 86620 1kqpA 271 4.43e+01 c.26.2.1 72883 1obpA 159 4.44e+01 1obpA b.60.1.1 27092 1zkiA 133 4.49e+01 1idsA 207 4.49e+01 1avmA a.2.11.1,d.44.1.1 15722,38730 1xs1A 193 4.51e+01 1olrA 224 4.51e+01 b.29.1.11 93330 1hlrA 907 4.58e+01 1vlbA 907 4.59e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1yhpA 212 4.65e+01 1nqeA 594 4.66e+01 f.4.3.3 86027 1mvfA 135 4.66e+01 b.1.1.1 85141 2a9mL 110 4.70e+01 1i7oA 429 4.74e+01 1i7oA d.177.1.1,d.177.1.1 61893,61894 1gotB 340 4.74e+01 1tbgA b.69.4.1 27648 1t82A 155 4.74e+01 d.38.1.5 106639 2eifA 136 4.75e+01 1bkb b.34.5.2,b.40.4.5 24607,25339 1czfA 362 4.76e+01 1czfA b.80.1.3 28031 2gjgA 248 4.84e+01 1w85I 49 4.85e+01 1el5A 389 4.86e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1hnf 182 4.89e+01 1qa9A b.1.1.1,b.1.1.3 19741,21680 1q7hA 153 4.90e+01 b.122.1.1,d.17.6.2 96042,96043 1fvuB 125 4.91e+01 1ixxB d.169.1.1 42346 1g5cA 170 4.94e+01 1g5cA c.53.2.1 60264 1f6fB 210 4.95e+01 1axiB b.1.2.1,b.1.2.1 22033,22034 2f4lA 297 4.96e+01 1afb1 154 5.08e+01 1rtm1 1x0vA 354 5.09e+01 1jguH 217 5.14e+01 b.1.1.1,b.1.1.2 66688,66689 1vddA 228 5.15e+01 e.49.1.1 108519 1q9jA 422 5.18e+01 c.43.1.2,c.43.1.2 104590,104591 1nn6A 228 5.18e+01 b.47.1.2 85893 1o9wA 177 5.19e+01 b.2.3.5 86713 1sltA 134 5.21e+01 1c1lA b.29.1.3 24186 1yg6A 193 5.22e+01 1kb0A 677 5.30e+01 a.3.1.6,b.70.1.1 68378,68379 2fzsA 193 5.31e+01 2as0A 396 5.34e+01 2bgoA 140 5.35e+01 1d3cA 686 5.49e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1yukA 103 5.52e+01 1wy2A 351 5.57e+01 1uaiA 224 5.59e+01 b.29.1.18 107761 1h54A 754 5.60e+01 a.102.1.4,b.30.5.3 60634,60635 1v3yA 192 5.66e+01 1kskA 234 5.73e+01 d.66.1.5,d.265.1.3 72920,90389 1c5cH 215 5.78e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1gmyA 261 5.79e+01 d.3.1.1 76236 1r8nA 185 5.88e+01 b.42.4.1 104851 1zeqX 84 5.92e+01 1qydA 313 5.95e+01 c.2.1.2 96583 1t0bA 252 5.95e+01 c.23.16.6 106199 1s72T 120 6.00e+01 b.34.5.1 105339 1jj2S 119 6.01e+01 1ffkQ b.34.5.1 63104 1vqoT 120 6.05e+01 1ecfA 504 6.09e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1qhdA 398 6.21e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 1wcgA 464 6.23e+01 2acaA 189 6.27e+01 1nlqA 108 6.27e+01 b.121.3.1 85853 1b9mA 265 6.32e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 2f7tA 227 6.32e+01 1qznA 173 6.32e+01 b.2.2.2 104669 2av9A 147 6.34e+01 1olmA 403 6.38e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1ru4A 400 6.44e+01 b.80.1.9 97836 1pjpA 226 6.46e+01 5ptp b.47.1.2 26301 1xypA 190 6.53e+01 1axkA b.29.1.11 24327 1kcvL 214 6.55e+01 b.1.1.1,b.1.1.2 72317,72318 1b25A 619 6.64e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ru8A 232 6.72e+01 c.26.2.1 97849 1vrmA 325 6.72e+01 1zrjA 50 6.72e+01 1yna 194 6.74e+01 1axkA b.29.1.11 24335 1v8hA 107 6.86e+01 2ahrA 259 6.89e+01 1ws0A 156 6.94e+01 1lktA 104 7.03e+01 1lktA b.90.1.1 28398 1xovA 326 7.06e+01 1yb3A 175 7.11e+01 1u24A 337 7.15e+01 1yruB 74 7.17e+01 1x67A 146 7.21e+01 1ve6A 582 7.27e+01 1bb8 71 7.31e+01 2bb8 d.10.1.1 37478 1osyA 115 7.40e+01 b.1.21.1 93502 2rhe 114 7.41e+01 8fabA b.1.1.1 20523 2bzsA 236 7.44e+01 1nkqA 259 7.50e+01 d.177.1.1 103862 1o9yA 84 7.51e+01 b.139.1.1 92692 1exrA 148 7.52e+01 1cll a.39.1.5 17299 1tyfA 193 7.64e+01 1tyfA c.14.1.1 30885 1chmA 401 7.72e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1hlvA 131 7.85e+01 a.4.1.7,a.4.1.7 65854,65855 1kapP 479 7.86e+01 1sat b.80.7.1,d.92.1.6 28012,40298 1dp4A 435 7.89e+01 1dp4A c.93.1.1 35710 1ixlA 131 7.94e+01 d.38.1.5 90717 1iq6A 134 7.95e+01 d.38.1.4 76755 2cc0A 195 8.00e+01 2aq8A 269 8.04e+01 1z4xA 532 8.04e+01 1rhs 296 8.06e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 2gpzA 111 8.06e+01 1cruA 454 8.06e+01 1c9uA b.68.2.1 27617 2asuB 234 8.09e+01 1oaqH 121 8.16e+01 b.1.1.1 92707 1jjeA 222 8.19e+01 1a7tA d.157.1.1 63117 2g76A 335 8.21e+01 1eny 268 8.22e+01 1eny c.2.1.2 29910 1hilB 220 8.23e+01 1igtB b.1.1.1,b.1.1.2 19787,20897 1gttA 429 8.28e+01 d.177.1.1,d.177.1.1 70529,70530 2aotA 292 8.33e+01 1msc 129 8.36e+01 1msc d.85.1.1 40039 1wluA 136 8.40e+01 1pguA 615 8.42e+01 b.69.4.1,b.69.4.1 88069,88070 1xrsA 516 8.44e+01 2crvA 120 8.48e+01 1jbeA 128 8.48e+01 3chy c.23.1.1 62845 2azqA 311 8.58e+01 1j8mF 297 8.58e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 4ubpB 126 8.59e+01 1ubpB b.85.3.1 28345 1z47A 355 8.59e+01 1j8yF 297 8.63e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1jpyA 137 8.65e+01 g.17.1.6 67065 1dzaA 129 8.67e+01 7rsa d.5.1.1 37275 1zvyA 136 8.67e+01 1kcxA 518 8.75e+01 b.92.1.3,c.1.9.6 90953,90954 1bxoA 323 8.75e+01 2er7E b.50.1.2 26805 1m2xA 223 8.76e+01 d.157.1.1 84764 1xfcA 384 8.78e+01 1l1eA 287 8.81e+01 c.66.1.18 73454 1z54A 132 8.87e+01 1p5hA 428 8.92e+01 c.123.1.1 87802 1bymA 97 8.95e+01 1bi0 b.34.1.2 24458 1xcrA 316 8.98e+01