# List of top-scoring protein chains for t2k-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 2gvkA 317 1.37e-53 2d0tA 406 2.15e-01 1kezA 300 3.34e-01 c.69.1.22 68546 1vgoA 253 1.16e+00 1ia6A 441 1.40e+00 a.102.1.2 76738 1r8gA 372 1.49e+00 d.128.1.3 104845 1l1sA 113 1.61e+00 c.114.1.1 73484 1sgvA 316 1.70e+00 b.122.1.1,d.265.1.2 98858,98859 2bkkA 264 2.09e+00 1mo2A 294 2.13e+00 c.69.1.22 79331 1bpoA 494 2.25e+00 1bpoA a.118.1.4,b.69.6.1 19143,27670 1lepA 99 2.94e+00 1lepA b.35.1.1 24649 1rxqA 178 4.46e+00 a.213.1.1 105118 1utcA 363 4.48e+00 a.118.1.4,b.69.6.1 99914,99915 1wxxA 382 4.60e+00 2gnpA 266 5.42e+00 1f4pA 147 6.77e+00 5nul c.23.5.1 59651 1iicA 422 7.54e+00 1nmtA d.108.1.2,d.108.1.2 62422,62423 1v4pA 157 7.85e+00 1j6uA 469 8.02e+00 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1jqeA 292 1.13e+01 c.66.1.19 71789 1j7iA 264 1.14e+01 1j7iA d.144.1.6 62694 1kbqA 273 1.17e+01 c.23.5.3 68391 1gh6A 114 1.22e+01 a.2.3.1 65191 1lgpA 116 1.35e+01 b.26.1.2 73890 1z6fA 363 1.39e+01 1nzoA 363 1.40e+01 b.105.1.1,e.3.1.1 92383,92384 1hskA 326 1.41e+01 2mbr d.145.1.2,d.146.1.1 61241,61242 1d4aA 273 1.43e+01 1d4aA c.23.5.3 31219 1oj7A 408 1.43e+01 e.22.1.2 103971 1elrA 131 1.43e+01 1a17 a.118.8.1 19209 2hppP 79 1.44e+01 5hpgA g.14.1.1 44654 1uc2A 481 1.48e+01 d.261.1.1 99161 1ea7A 310 1.49e+01 c.41.1.1 70086 1qbgA 272 1.51e+01 1d4aA c.23.5.3 31227 1gggB 226 1.53e+01 1lst c.94.1.1 35818 1ve3A 227 1.68e+01 1gggA 226 1.70e+01 1lst c.94.1.1 35817 1m0wA 491 1.71e+01 c.30.1.4,d.142.1.6 78363,78364 1nr6A 473 1.74e+01 a.104.1.1 92085 2f1rA 171 1.74e+01 1uf2C 421 1.76e+01 a.115.1.3,b.19.1.1 99291,99292 1np7A 489 1.78e+01 a.99.1.1,c.28.1.1 80677,80678 1jkoC 52 1.90e+01 a.4.1.2 66809 1lu9A 287 1.91e+01 c.2.1.7,c.58.1.4 78210,78211 2aobA 99 2.00e+01 2aotA 292 2.16e+01 1z6kA 293 2.17e+01 1chmA 401 2.18e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1luaA 287 2.18e+01 c.2.1.7,c.58.1.4 78216,78217 1e79G 272 2.19e+01 1e79G c.49.2.1 33158 1n6bA 473 2.27e+01 a.104.1.1 85359 1i4nA 251 2.28e+01 c.1.2.4 71114 1it2A 146 2.30e+01 a.1.1.2 66365 1wmuA 141 2.33e+01 a.1.1.2 109416 2aioA 269 2.35e+01 1qwrA 319 2.37e+01 b.82.1.3 96491 1nfp 228 2.44e+01 1nfp c.1.16.2 29555 1tiqA 180 2.47e+01 d.108.1.1 107010 1us5A 314 2.47e+01 c.94.1.1 99856 2g0dA 409 2.50e+01 1omzA 293 2.53e+01 c.68.1.15 87093 1b57A 358 2.58e+01 1dosA c.1.10.2 29177 2fp1A 166 2.62e+01 1wr2A 238 2.67e+01 1dgjA 907 2.69e+01 1alo a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 17909,37694,38585,41415 1x1iA 752 2.72e+01 1v64A 108 2.75e+01 a.21.1.1 108392 2f6lA 166 2.75e+01 1f0jA 377 2.78e+01 1f0jA a.211.1.2 19346 1yarO 237 2.90e+01 1jg1A 235 2.90e+01 c.66.1.7 66661 2bl9A 238 2.95e+01 2cb2A 318 2.97e+01 1fpqA 372 3.04e+01 1fpqA a.4.5.29,c.66.1.12 59947,59948 1cp3A 277 3.14e+01 1pauA c.17.1.1 30992 2apoA 357 3.15e+01 1j7lA 264 3.23e+01 d.144.1.6 62697 1smlA 269 3.36e+01 1smlA d.157.1.1 42053 1sbp 310 3.38e+01 1sbp c.94.1.1 35760 1senA 164 3.40e+01 c.47.1.1 105465 1cxvA 164 3.42e+01 1ck7A d.92.1.11 40404 2blcA 238 3.49e+01 1owqA 361 3.50e+01 c.1.8.5,d.26.3.1 104041,104042 1ni4B 341 3.63e+01 c.36.1.7,c.48.1.2 85729,85730 2cmd 312 3.77e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1xioA 261 3.78e+01 1dosA 358 3.82e+01 1dosA c.1.10.2 29175 1xxqA 161 3.83e+01 1v7oA 165 3.84e+01 d.67.1.2 100480 1otvA 259 3.85e+01 a.132.1.4 93526 1z3iX 644 3.89e+01 1zejA 293 3.91e+01 1wdnA 226 3.94e+01 1lst c.94.1.1 35816 1pii 452 3.95e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1suuA 312 4.03e+01 b.68.10.1 99006 1me4A 215 4.38e+01 d.3.1.1 79023 1d4oA 184 4.43e+01 1d4oA c.31.1.4 31748 1d7yA 408 4.46e+01 1d7yA c.3.1.5,c.3.1.5,d.87.1.1 30565,30566,40204 1aim 215 4.48e+01 1cs8A d.3.1.1 37044 1u5hA 273 4.50e+01 2bjqA 345 4.52e+01 1v4xA 144 4.59e+01 a.1.1.2 108363 1r8oB 71 4.59e+01 1a0hA 159 4.59e+01 1a0hA b.47.1.2,g.14.1.1 26229,44655 2b25A 336 4.63e+01 1mp9A 198 4.68e+01 d.129.1.1,d.129.1.1 91385,91386 1p4xA 250 4.70e+01 a.4.5.28,a.4.5.28 87784,87785 1j0mA 752 4.83e+01 a.102.3.2,b.24.1.1,b.30.5.2 83910,83911,83912 1huvA 380 4.87e+01 c.1.4.1 61277 1wzzA 334 4.89e+01 2acaA 189 5.07e+01 2a73B 991 5.10e+01 1f2aA 215 5.18e+01 1cs8A d.3.1.1 37040 1gheA 177 5.21e+01 d.108.1.1 76222 1me3A 215 5.23e+01 d.3.1.1 79022 1vicA 262 5.24e+01 c.68.1.13 100756 1ow5A 85 5.33e+01 a.60.1.2 93630 2aawA 222 5.38e+01 1t0qA 498 5.41e+01 a.25.1.2 106220 2spl 154 5.51e+01 1a6m a.1.1.2 15047 1vggA 161 5.53e+01 1dt6A 473 5.53e+01 1dt6A a.104.1.1 18977 1tf4A 605 5.55e+01 1tf4A a.102.1.2,b.2.2.2 18827,22393 1u5vA 273 5.56e+01 1e08A 371 5.58e+01 i.4.1.1 45914 1ys4A 354 5.64e+01 1tqxA 227 5.71e+01 1m12A 84 5.77e+01 a.64.1.1 84745 1f2dA 341 5.87e+01 1f2dA c.79.1.1 35298 1uu1A 335 5.97e+01 c.67.1.1 99993 1g61A 228 6.03e+01 1g61A d.126.1.1 41126 2bpqA 373 6.06e+01 2faoA 309 6.10e+01 1xnaA 183 6.23e+01 1xnaA b.18.1.8 23773 2bkyX 89 6.25e+01 2beiA 170 6.25e+01 1aye 401 6.27e+01 1aye c.56.5.1,d.58.3.1 33824,39065 1tygB 87 6.35e+01 d.15.3.2 107455 1httA 423 6.46e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 1hlrA 907 6.47e+01 1vlbA 907 6.47e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1vlpA 441 6.51e+01 d.41.2.2,d.41.2.3 108840,108841 1p4cA 380 6.62e+01 c.1.4.1 94100 830cA 168 6.64e+01 1ck7A d.92.1.11 40400 1fsz 372 6.66e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1t0tV 248 6.70e+01 d.58.4.10 106229 1nw3A 416 6.76e+01 c.66.1.31 86288 1ughI 82 6.79e+01 1ugiA d.17.5.1 38133 1f5aA 513 6.82e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1udiI 83 6.86e+01 1ugiA d.17.5.1 38124 1zq1C 633 6.87e+01 1dp4A 435 6.88e+01 1dp4A c.93.1.1 35710 1x3mA 415 6.91e+01 1wn5A 130 6.92e+01 1yagG 125 7.00e+01 1d0nA d.109.1.1 40846 1rcwA 231 7.03e+01 a.132.1.4 97299 1iqoA 88 7.10e+01 d.214.1.1 71277 1j08A 226 7.12e+01 c.47.1.2,c.47.1.2 83855,83856 1r71A 178 7.32e+01 a.4.14.1 104823 1bc5A 269 7.49e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1ou0A 207 7.55e+01 c.23.17.1 93536 1j0dA 341 7.58e+01 c.79.1.1 83902 1qvzA 237 7.68e+01 c.23.16.2 96453 1z77A 200 7.76e+01 2bleA 367 7.79e+01 1mvwB 145 7.81e+01 i.15.1.1 79524 1yp1A 202 7.83e+01 1d4xG 126 7.85e+01 1d0nA d.109.1.1 59109 1vmeA 410 7.88e+01 c.23.5.1,d.157.1.3 108893,108894 2bkrA 212 7.93e+01 1o08A 221 8.06e+01 c.108.1.6 86525 1to6A 371 8.20e+01 c.141.1.1 107170 1kmvA 186 8.21e+01 c.71.1.1 72757 1souA 194 8.24e+01 c.124.1.6 105858 2c6qA 351 8.26e+01 1q1aA 289 8.31e+01 c.31.1.5 95561 1i1iP 681 8.37e+01 1i1iP d.92.1.5 40297 1pwxA 254 8.38e+01 c.2.1.2 95262 1v4sA 455 8.45e+01 c.55.1.3,c.55.1.3 100309,100310 1xsjA 778 8.50e+01 1iujA 106 8.65e+01 d.58.4.5 90701 2f94F 350 8.76e+01 1gkzA 388 8.79e+01 a.29.5.1,d.122.1.4 65268,65269 2bokA 241 8.89e+01 1rmvA 157 8.94e+01 1rmvA a.24.5.1 16589 1kmnD 424 8.94e+01 1adjA c.51.1.1,d.104.1.1 33185,40734