# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1mjhA 162 2.67e-02 1mjhA c.26.2.4 31639 1to3A 304 1.94e-01 c.1.10.1 107161 1ubeA 349 2.52e-01 c.37.1.11,d.48.1.1 88412,88413 1o20A 427 2.76e-01 c.82.1.1 86556 1uqrA 154 3.33e-01 c.23.13.1 99779 1i60A 278 4.04e-01 c.1.15.4 71118 2anuA 255 4.83e-01 1edt 271 6.16e-01 2ebn c.1.8.5 28993 1fezA 256 7.89e-01 1fezA c.108.1.3 43343 1z41A 338 7.98e-01 1ps9A 671 9.60e-01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1c93A 265 1.05e+00 2ebn c.1.8.5 28998 1rtwA 220 1.12e+00 a.132.1.3 97823 2bkxA 242 1.35e+00 1d0iA 156 1.37e+00 2dhqA c.23.13.1 31383 1lh0A 213 1.40e+00 c.61.1.1 73896 1a4iA 301 1.45e+00 1a4iA c.2.1.7,c.58.1.2 30278,33926 1bu7A 455 1.55e+00 1bu7A a.104.1.1 18937 1gtzA 156 1.60e+00 c.23.13.1 70539 2dhqA 146 1.66e+00 2dhqA c.23.13.1 31382 1gudA 288 1.91e+00 c.93.1.1 83326 1rdfA 267 1.96e+00 c.108.1.3 104884 1s2xA 206 2.12e+00 a.47.3.1 105229 2f5xA 312 2.18e+00 1mdwA 328 2.36e+00 d.3.1.3 84934 1ru8A 232 2.65e+00 c.26.2.1 97849 1n7oA 721 2.81e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1wc9A 169 2.81e+00 1vpgA 192 2.97e+00 1u2zA 433 3.43e+00 c.66.1.31 107626 1xqiA 195 3.61e+00 1opr 213 3.77e+00 1opr c.61.1.1 34091 1l4uA 176 3.97e+00 c.37.1.2 73568 1o60A 292 4.07e+00 c.1.10.4 92532 1swvA 267 4.19e+00 1ji8A 111 4.31e+00 d.203.1.1 66733 1khyA 148 4.38e+00 a.174.1.1 77410 1nfp 228 4.39e+00 1nfp c.1.16.2 29555 1p0kA 349 4.41e+00 c.1.4.1 87648 1o9rA 162 4.42e+00 a.25.1.1 86706 1ydyA 356 4.43e+00 1vdkA 466 4.43e+00 a.127.1.1 100561 1f6fA 199 4.47e+00 1f6fA a.26.1.1 16839 1pnsC 206 4.53e+00 i.1.1.1 88170 1eguA 731 4.56e+00 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1fjgC 239 4.61e+00 1fjfC d.52.3.1,d.53.1.1 38831,38839 1x1nA 524 4.70e+00 2g8lA 299 4.76e+00 1uuyA 167 4.76e+00 c.57.1.1 108059 1tqgA 105 4.80e+00 a.24.10.3 107224 1zbqA 327 4.84e+00 1eswA 500 4.92e+00 1cwyA c.1.8.1 59500 1h05A 146 4.95e+00 c.23.13.1 76433 1sjqA 105 4.96e+00 d.58.7.1 105660 1khtA 192 4.97e+00 c.37.1.1 84401 1rqlA 267 5.13e+00 c.108.1.3 97750 2fyxA 143 5.22e+00 1xr4A 509 5.73e+00 1sz7A 200 5.94e+00 1ezwA 349 6.20e+00 1ezwA c.1.16.3 29558 1h3nA 878 6.78e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1o6vA 466 7.14e+00 b.1.18.15,c.10.2.1 81099,81100 2cbiA 594 7.32e+00 2ewrA 170 7.46e+00 1vl8A 267 7.86e+00 c.2.1.2 108733 1rpjA 288 7.92e+00 2dri c.93.1.1 35656 1xzoA 174 8.39e+00 1i0lA 221 8.69e+00 c.61.1.1 71096 1k4nA 192 8.75e+00 d.32.1.5 72059 1ug7A 128 8.98e+00 a.24.24.1 107824 1w0mA 226 9.11e+00 c.1.1.1 109027 1xszA 356 9.16e+00 2a19B 284 9.23e+00 1gz6A 319 9.39e+00 c.2.1.2 76410 1t8qA 336 9.43e+00 c.1.18.3 106669 1php 394 9.56e+00 16pk c.86.1.1 35452 1vjgA 218 1.00e+01 c.23.10.6 100810 1ufoA 238 1.01e+01 c.69.1.27 99344 2d13A 227 1.03e+01 1xfiA 367 1.06e+01 e.50.1.1 109584 1lxnA 99 1.08e+01 d.58.48.1 84737 1fzqA 181 1.10e+01 1hurA c.37.1.8 32060 1o9iA 266 1.12e+01 a.25.1.3 92671 2f6hX 419 1.13e+01 2g76A 335 1.14e+01 1vr6A 350 1.14e+01 1xnaA 183 1.14e+01 1xnaA b.18.1.8 23773 2bgkA 278 1.16e+01 1wu7A 434 1.17e+01 1knwA 425 1.18e+01 b.49.2.3,c.1.6.1 90969,90970 1h5qA 265 1.18e+01 1cydA c.2.1.2 60643 1y2qA 143 1.23e+01 1pii 452 1.24e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1vjtA 483 1.26e+01 c.2.1.5,d.162.1.2 100833,100834 1i5nA 146 1.27e+01 1i5nA a.24.10.3 61805 1jkvA 266 1.33e+01 a.25.1.3 71719 1w1kA 560 1.34e+01 d.58.32.1,d.145.1.1 109059,109060 1jpzA 473 1.36e+01 a.104.1.1 67069 1eq1A 166 1.41e+01 a.63.1.1 64910 1yzfA 195 1.41e+01 1cc1L 498 1.42e+01 1h2rL e.18.1.1 43301 1a8i 842 1.43e+01 1a8i c.87.1.4 35490 2c2xA 281 1.43e+01 1uhvA 500 1.45e+01 b.71.1.2,c.1.8.3 99402,99403 1dxy 333 1.49e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1e8gA 560 1.51e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 2aexA 346 1.53e+01 1ki9A 192 1.53e+01 c.37.1.1 84404 1zu4A 320 1.56e+01 1jayA 212 1.57e+01 c.2.1.6 66478 2c1gA 431 1.59e+01 1wwkA 307 1.61e+01 1yzgA 179 1.66e+01 1lvaA 258 1.67e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2ad9A 119 1.70e+01 1jmvA 141 1.71e+01 c.26.2.4 66897 1vplA 256 1.72e+01 1uv7A 110 1.77e+01 d.67.4.1 100040 2dfkA 402 1.82e+01 1ihjA 98 1.83e+01 1pdr b.36.1.1 62382 1wpoA 256 1.84e+01 1lay b.57.1.1 27012 1t3gA 159 1.87e+01 1u55A 188 1.89e+01 d.278.1.1 107677 2cc0A 195 1.91e+01 2g45A 129 1.93e+01 1xyzA 347 1.97e+01 1taxA c.1.8.3 28804 2czdA 208 1.98e+01 1jnyA 435 2.01e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1vbuA 328 2.03e+01 2fclA 169 2.03e+01 1on2A 142 2.04e+01 a.4.5.24,a.76.1.1 87103,87104 1pv5A 264 2.04e+01 d.251.1.1 95150 1nt2B 258 2.06e+01 a.183.1.1 86150 1k1xA 659 2.11e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1bn7A 294 2.11e+01 1bn6A c.69.1.8 34677 1qd1A 325 2.13e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1h5uA 842 2.15e+01 1a8i c.87.1.4 60655 1hyuA 521 2.17e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1ra6A 461 2.23e+01 e.8.1.4 104879 1f2dA 341 2.25e+01 1f2dA c.79.1.1 35298 1emvA 86 2.26e+01 1cei a.28.2.1 16944 1ursA 402 2.31e+01 c.94.1.1 99833 2axpA 173 2.32e+01 1oyjA 231 2.34e+01 a.45.1.1,c.47.1.5 87597,87598 1c02A 166 2.36e+01 1qspA a.24.10.2 16633 1r85A 379 2.38e+01 c.1.8.3 104839 1zkdA 387 2.38e+01 1kkoA 413 2.39e+01 c.1.11.2,d.54.1.1 68675,68676 1g5hA 454 2.39e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1j0dA 341 2.41e+01 c.79.1.1 83902 2f5gA 133 2.58e+01 1j0aA 325 2.72e+01 c.79.1.1 83871 1zp4A 304 2.72e+01 7odcA 424 2.76e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1hf8A 289 2.83e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1dugA 234 2.83e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1qo2A 241 2.85e+01 1qo2A c.1.2.1 28533 1cliA 345 2.92e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1yb0A 159 2.95e+01 1meoA 209 2.96e+01 c.65.1.1 79035 1dosA 358 3.04e+01 1dosA c.1.10.2 29175 2tpsA 227 3.09e+01 2tpsA c.1.3.1 28591 2c1iA 431 3.10e+01 1d4oA 184 3.10e+01 1d4oA c.31.1.4 31748 1mun 225 3.12e+01 1mun a.96.1.2 18744 2c3zA 222 3.20e+01 2a5hA 416 3.23e+01 1cr1A 296 3.24e+01 1cr1A c.37.1.11 32286 2b5dX 528 3.26e+01 1g6oA 330 3.32e+01 1g6oA c.37.1.11 32430 2aclB 244 3.33e+01 1cv2A 296 3.34e+01 1bn6A c.69.1.8 34680 1vqoO 116 3.37e+01 1ex1A 605 3.42e+01 1ex1A c.1.8.7,c.23.11.1 29013,31347 1f89A 291 3.53e+01 d.160.1.1 64988 1tc1A 220 3.59e+01 1tc1A c.61.1.1 34083 1q92A 197 3.66e+01 c.108.1.8 96250 1x38A 602 3.67e+01 1sflA 238 3.69e+01 2bwfA 77 3.74e+01 1rzmA 338 3.81e+01 c.1.10.4 105137 1qtwA 285 3.89e+01 1qumA c.1.15.1 29392 1x42A 232 3.91e+01 1jae 471 3.99e+01 1smd b.71.1.1,c.1.8.1 27773,28760 1gefA 123 4.00e+01 1gefA c.52.1.18 60465 1tl9A 339 4.00e+01 1e6cA 173 4.09e+01 1shkA c.37.1.2 59296 1tdpA 111 4.09e+01 a.29.8.1 106781 1sz9A 144 4.25e+01 a.118.9.4 106139 1mv8A 436 4.30e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1z0xA 220 4.31e+01 2feaA 236 4.31e+01 1t3lA 337 4.36e+01 b.34.2.1,c.37.1.1 106358,106359 1bxkA 355 4.44e+01 1bxkA c.2.1.2 29803 1q6cA 495 4.46e+01 c.1.8.1 95970 1xpjA 126 4.49e+01 1r1mA 164 4.50e+01 d.79.7.1 96820 1bt0A 76 4.61e+01 1ubi d.15.1.1 37607 1x3zA 335 4.61e+01 1s72O 116 4.66e+01 c.12.1.1 105334 1ep3A 311 4.70e+01 2dorA c.1.4.1 28597 1sfjA 238 4.70e+01 4pgaA 337 4.74e+01 4pgaA c.88.1.1 35565 2a33A 215 4.76e+01 1wdpA 495 4.80e+01 2cw6A 298 4.82e+01 1e3oC 160 4.83e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1fl2A 310 5.04e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1dp4A 435 5.04e+01 1dp4A c.93.1.1 35710 1yacA 208 5.05e+01 1yacA c.33.1.3 31757 1rw6A 210 5.06e+01 a.47.4.1 105113 1oroA 213 5.10e+01 1opr c.61.1.1 34093 1zcoA 262 5.21e+01 1p80A 753 5.23e+01 c.23.16.3,e.5.1.1 94337,94338 1j96A 323 5.27e+01 c.1.7.1 71616 2c4wA 176 5.30e+01 1mj5A 302 5.31e+01 c.69.1.8 91285 1y0zA 330 5.40e+01 1rztA 331 5.40e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1j1jA 240 5.41e+01 a.118.16.1 90762 1lnzA 342 5.42e+01 b.117.1.1,c.37.1.8 78112,78113 1rdr 461 5.45e+01 1rdr e.8.1.4 43116 1sazA 381 5.51e+01 1allA 160 5.61e+01 1qgwC a.1.1.3 15647 2akoA 251 5.62e+01 2bvlA 543 5.66e+01 1azsA 220 5.70e+01 1azsA d.58.29.1 39416 1q1gA 276 5.71e+01 c.56.2.1 95574 1f46A 140 5.73e+01 1f46A d.129.4.1 59643 1mh9A 197 5.74e+01 c.108.1.8 79118 1b24A 188 5.80e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1pdo 135 5.83e+01 1pdo c.54.1.1 33376 1tzjA 338 5.88e+01 1cydA 244 5.91e+01 1cydA c.2.1.2 29825 1vh7A 265 6.04e+01 c.1.2.1 100646 1jclA 260 6.10e+01 c.1.10.1 66501 1wyzA 242 6.13e+01 1y5eA 169 6.15e+01 1igs 248 6.19e+01 1a53 c.1.2.4 28565 1p1xA 260 6.28e+01 c.1.10.1 104060 2rslA 140 6.28e+01 2rslA c.53.1.1 33345 1cf9A 753 6.33e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1wy1A 172 6.34e+01 1r4aA 165 6.34e+01 c.37.1.8 96986 1octC 156 6.37e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1vjoA 393 6.38e+01 c.67.1.3 100827 1t0yA 122 6.44e+01 d.15.1.1 99066 1sr2A 116 6.46e+01 2fl7A 232 6.46e+01 1r71A 178 6.50e+01 a.4.14.1 104823 1fds 327 6.51e+01 1fds c.2.1.2 29838 1pa7A 130 6.54e+01 a.40.1.1 94410 1sg6A 393 6.58e+01 e.22.1.1 105522 1o70A 324 6.59e+01 b.118.1.1,b.118.1.1 81115,81116 1zuwA 272 6.66e+01 1vhnA 318 6.72e+01 c.1.4.1 100693 1urvA 190 6.73e+01 1ut0A 190 6.73e+01 a.1.1.2 108012 1v1rB 342 6.74e+01 c.36.1.7,c.48.1.2 108273,108274 1mw9X 592 6.75e+01 e.10.1.1 91480 1qxhA 167 6.75e+01 c.47.1.10 96528 1vizA 240 6.76e+01 c.1.4.1 100784 1aoa 275 6.76e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1usmA 80 6.78e+01 d.74.1.1 99876 1wd5A 208 6.97e+01 1xfhA 422 6.97e+01 1lucB 324 6.99e+01 1lucA c.1.16.1 29548 1vpqA 273 7.03e+01 1ve3A 227 7.07e+01 1deoA 233 7.07e+01 1deoA c.23.10.4 31345 2bptA 861 7.12e+01 1cy9A 264 7.19e+01 1ecl e.10.1.1 43236 1sig 339 7.24e+01 1sig a.177.1.1 19068 1kn1A 160 7.43e+01 a.1.1.3 77455 1e4yA 214 7.47e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1x72A 334 7.51e+01 d.126.1.6 109495 2a19A 175 7.53e+01 1ur4A 399 7.57e+01 2bfdB 345 7.58e+01 1ryiA 382 7.61e+01 1x7yB 342 7.68e+01 1amuA 563 7.70e+01 1amuA e.23.1.1 43351 1uptA 171 7.70e+01 c.37.1.8 99767 1lw7A 365 7.70e+01 c.26.1.3,c.37.1.1 74295,74296 1olsB 342 7.72e+01 c.36.1.7,c.48.1.2 93332,93333 1k3yA 221 7.72e+01 a.45.1.1,c.47.1.5 77245,77246 1b6g 310 7.74e+01 1b6g c.69.1.8 34661 1lucA 355 7.80e+01 1lucA c.1.16.1 29547 1dhn 121 7.82e+01 1dhn d.96.1.3 40663 1adjA 421 7.82e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1tm9A 137 7.83e+01 a.225.1.1 107150 1syyA 346 7.83e+01 a.25.1.2 106126 1o0wA 252 7.85e+01 a.149.1.1,d.50.1.1 80751,80752 2auwA 170 7.85e+01 1o3yA 166 7.86e+01 c.37.1.8 86618 1txvB 440 7.92e+01 1ki1B 352 7.94e+01 a.87.1.1,b.55.1.1 72497,72498 1pztA 286 7.95e+01 c.68.1.2 95470 1ur5A 309 7.99e+01 c.2.1.5,d.162.1.1 99807,99808 1ng4A 390 8.02e+01 c.3.1.2,d.16.1.3 85666,85667 1k0wA 231 8.05e+01 c.74.1.1 77220 1ohvA 472 8.10e+01 c.67.1.4 93031 1keyA 235 8.16e+01 a.118.16.1 72389 1dfaA 454 8.18e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28375,40575,40576 8abp 306 8.27e+01 8abp c.93.1.1 35647 1d2kA 392 8.28e+01 1d2kA c.1.8.5,d.26.3.1 29008,38442 1lid 131 8.33e+01 1hmt b.60.1.2 27184 1p7gA 222 8.37e+01 a.2.11.1,d.44.1.1 94223,94224 1m12A 84 8.39e+01 a.64.1.1 84745 1xtaA 221 8.40e+01 1zowA 313 8.42e+01 1wr2A 238 8.44e+01 1nar 290 8.49e+01 1nar c.1.8.5 28988 1s95A 333 8.51e+01 d.159.1.3 105375 1ybhA 590 8.56e+01 1m0uA 249 8.58e+01 a.45.1.1,c.47.1.5 78359,78360 1pfo 500 8.61e+01 1pfo f.9.1.1 43826 1v3hA 495 8.64e+01 c.1.8.1 108303 1byb 495 8.72e+01 1byb c.1.8.1 28790 2es9A 115 8.79e+01 1vydA 116 8.83e+01 a.3.1.1 108900 1s7hA 200 8.83e+01 d.58.48.2 105349 1y6zA 263 8.91e+01 1msk 331 8.92e+01 1msk d.173.1.1 42495 1uf3A 228 8.98e+01 d.159.1.6 99317