# 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 1zhvA 134 7.61e-03 1g61A 228 1.20e-02 1g61A d.126.1.1 41126 1dzkA 157 5.20e-02 1obpA b.60.1.1 27096 2g76A 335 7.28e-02 2g0dA 409 8.27e-02 2f06A 144 1.14e-01 1kwmA 402 1.27e-01 c.56.5.1,d.58.3.1 73079,73080 1wwkA 307 3.67e-01 1v6sA 390 4.86e-01 c.86.1.1 100424 1umgA 362 5.01e-01 d.280.1.1 107956 1yj7A 171 5.86e-01 1yqhA 109 6.34e-01 1lngA 87 7.51e-01 d.201.1.1 74045 1lb2B 84 1.02e+00 a.60.3.1 77871 1q1oA 98 1.16e+00 d.15.2.2 95596 1zvpA 133 1.53e+00 1fp2A 352 1.57e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1tyyA 339 1.62e+00 1l3iA 192 1.68e+00 c.66.1.22 77676 2gukA 120 1.83e+00 1vjqA 79 1.90e+00 k.43.1.1 100830 2b30A 301 1.92e+00 1cmbA 104 2.07e+00 1cmbA a.43.1.5 17460 1cmcA 104 2.23e+00 1cmbA a.43.1.5 17462 3chy 128 2.56e+00 3chy c.23.1.1 31038 1myn 44 2.71e+00 1gpt g.3.7.4 44172 1s9uA 207 3.07e+00 a.184.1.1 105390 1ccwA 137 3.12e+00 1be1 c.23.6.1 31238 1wh8A 111 3.18e+00 1kvkA 395 3.56e+00 d.14.1.5,d.58.26.3 73060,73061 2ct8A 497 3.59e+00 1wwpA 119 3.64e+00 1jqgA 433 3.68e+00 c.56.5.1,d.58.3.1 71791,71792 1yioA 208 3.72e+00 2atzA 180 3.79e+00 1yqgA 263 3.82e+00 2eueA 279 3.88e+00 1v3rA 116 3.89e+00 1bsg 266 3.94e+00 1btl e.3.1.1 42729 1t3tA 1303 4.02e+00 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 1vfjA 116 4.20e+00 1jetA 517 4.20e+00 1jevA c.94.1.1 35718 1v2xA 194 4.23e+00 c.116.1.1 100274 1oo0A 147 4.24e+00 d.232.1.1 87182 1rz4A 226 4.28e+00 a.4.5.53,a.118.1.18 105131,105132 1fjgP 88 4.48e+00 1emwA d.27.1.1 38444 1ve1A 304 4.68e+00 1jbeA 128 4.72e+00 3chy c.23.1.1 62845 1ctf 74 4.73e+00 1ctf d.45.1.1 38759 1dpe 507 4.99e+00 1dpe c.94.1.1 35799 2olbA 517 5.19e+00 1jevA c.94.1.1 35721 1tjyA 316 5.68e+00 c.93.1.1 107062 1wn0A 145 5.81e+00 1mzhA 225 6.07e+00 c.1.10.1 79698 1xriA 151 6.38e+00 1tl9A 339 6.57e+00 1a05A 358 6.73e+00 1cnzA c.77.1.1 35059 1mp1A 111 6.74e+00 a.188.1.1 91382 1z6kA 293 6.77e+00 2f60K 64 6.79e+00 1x54A 434 6.91e+00 2pii 112 6.98e+00 2pii d.58.5.1 39071 1gnkA 112 7.25e+00 2pii d.58.5.1 39073 1wd7A 261 7.28e+00 1umnA 165 7.82e+00 a.25.1.1 99607 1wcwA 261 7.95e+00 1qzzA 374 8.21e+00 a.4.5.29,c.66.1.12 96719,96720 1u5hA 273 8.49e+00 1mszA 86 8.56e+00 d.68.7.1 79428 1lvaA 258 8.63e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1xhfA 123 8.76e+00 1bed 181 8.79e+00 1fvkA c.47.1.13 90330 2g03A 194 8.80e+00 1o4vA 183 8.95e+00 c.23.8.1 86628 1pba 81 9.12e+00 1pytA d.58.3.1 39067 1sbxA 106 9.17e+00 a.6.1.4 105414 1v5xA 203 9.22e+00 c.1.2.4 100377 1ls1A 295 9.68e+00 a.24.13.1,c.37.1.10 78170,78171 2cvlA 124 9.89e+00 1e3dA 266 1.00e+01 2frvA e.19.1.1 59188 2d28C 149 1.01e+01 1wkrA 340 1.02e+01 b.50.1.2 109395 1vj1A 363 1.03e+01 b.35.1.2,c.2.1.1 100794,100795 1yqzA 438 1.06e+01 1ewsA 32 1.09e+01 1ewsA g.9.1.1 59534 1oxkB 134 1.12e+01 c.23.1.1 93691 1vmaA 306 1.16e+01 a.24.13.1,c.37.1.10 108887,108888 1nm2A 317 1.18e+01 c.19.1.1,d.58.23.1 80654,80655 1hxvA 113 1.21e+01 d.26.1.1 71089 2fe7A 166 1.24e+01 1gh9A 71 1.24e+01 1gh9A g.41.6.1 45266 2ffjA 300 1.27e+01 1z3eB 73 1.30e+01 1in0A 163 1.30e+01 d.58.49.1,d.58.49.1 83694,83695 1cxpC 466 1.30e+01 1mhlC 1jfuA 186 1.31e+01 c.47.1.10 62940 1h6pA 203 1.35e+01 a.146.1.1 60690 1r6xA 395 1.35e+01 b.122.1.3,c.26.1.5 97167,97168 1ospO 257 1.37e+01 1ospO b.76.1.1 27971 1lf7A 182 1.40e+01 b.60.1.1 73878 1cliA 345 1.41e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1rypL 212 1.42e+01 d.153.1.4 41880 1ble 163 1.43e+01 1ble c.38.1.1 32475 2aunA 317 1.43e+01 1v8fA 276 1.44e+01 c.26.1.4 100503 1j7xA 302 1.45e+01 c.14.1.2 66425 1rybA 212 1.46e+01 c.56.3.1 98098 1jmsA 381 1.46e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1wj7A 104 1.51e+01 1jd1A 129 1.53e+01 1qu9A d.79.1.1 62890 1vixA 420 1.57e+01 c.56.5.4,d.58.19.1 100777,100778 1yg2A 179 1.58e+01 2a9sA 171 1.58e+01 1v92A 46 1.59e+01 a.5.2.3 100531 1zrsA 317 1.61e+01 1o4sA 389 1.62e+01 c.67.1.1 86620 2aumA 317 1.65e+01 1o50A 157 1.69e+01 d.37.1.1,d.37.1.1 92478,92479 2ng1 293 1.70e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 2b61A 377 1.84e+01 1mwqA 101 1.85e+01 d.58.4.7 91481 1ve4A 206 1.88e+01 1wdyA 285 1.94e+01 1w6kA 732 1.95e+01 1xmpA 170 1.96e+01 1iseA 185 1.96e+01 d.67.3.1 90691 1meoA 209 1.97e+01 c.65.1.1 79035 1b65A 375 1.97e+01 1b65A d.154.1.1 42020 2occE 109 2.00e+01 2occE a.118.11.1 19224 1yrrA 382 2.05e+01 2b82A 211 2.08e+01 2f8lA 344 2.08e+01 1b0uA 262 2.08e+01 1b0uA c.37.1.12 32370 1xcbA 211 2.12e+01 a.4.5.38,c.2.1.12 109552,109553 1t1vA 93 2.13e+01 c.47.1.14 106278 2ewrA 170 2.15e+01 1ufkA 254 2.16e+01 c.66.1.39 99340 1u9cA 224 2.17e+01 1ul7A 102 2.17e+01 d.129.6.1 99540 1yzhA 214 2.19e+01 2cbzA 237 2.23e+01 1rmwA 212 2.23e+01 1jnyA 435 2.25e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1vqoB 338 2.28e+01 2gu3A 136 2.30e+01 1k66A 149 2.34e+01 c.23.1.1 90941 1x46A 150 2.40e+01 1z5oA 242 2.40e+01 1zl0A 311 2.40e+01 1s72B 338 2.41e+01 b.43.3.2 105320 1rtxA 123 2.41e+01 a.1.1.1 97827 1dlyA 164 2.42e+01 1dlyA a.1.1.1 14983 1v54E 109 2.44e+01 a.118.11.1 100326 1hdoA 206 2.46e+01 1he2A c.2.1.2 60965 1vfgA 390 2.48e+01 a.173.1.1,d.218.1.4 108570,108571 1jj2B 337 2.51e+01 1ffkB b.43.3.2 63086 1atlA 202 2.51e+01 1atlA d.92.1.9 40322 1fmjA 351 2.52e+01 c.37.1.5 59879 1g8fA 511 2.53e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1wy2A 351 2.57e+01 1d2vC 466 2.61e+01 1mhlC 2c60A 111 2.64e+01 1jysA 242 2.68e+01 c.56.2.1 77216 1ufzA 83 2.68e+01 a.5.9.1 107821 1v84A 253 2.72e+01 c.68.1.7 108419 1aua 296 2.72e+01 1aua a.5.3.1,c.13.1.1 16290,30882 1c0eA 157 2.74e+01 1dg9A c.44.1.1 32638 1evlA 401 2.81e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1r1qA 100 2.82e+01 d.93.1.1 104763 1x31C 206 2.83e+01 1u2zA 433 2.87e+01 c.66.1.31 107626 1ek8A 185 2.88e+01 1ek8A d.67.3.1 59444 1y81A 138 2.91e+01 1b16A 254 2.92e+01 1b16A c.2.1.2 29875 1whzA 70 2.97e+01 1m7yA 435 3.00e+01 c.67.1.4 78761 1uzcA 71 3.02e+01 a.159.2.1 100222 1eudB 396 3.03e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1f7uA 607 3.04e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1w8iA 156 3.06e+01 1vr5A 547 3.08e+01 1ijtA 128 3.10e+01 1bfg b.42.1.1 62510 1wyzA 242 3.11e+01 1sgwA 214 3.12e+01 c.37.1.12 105541 1zv1A 65 3.14e+01 1ug3A 339 3.17e+01 1d2zB 153 3.18e+01 1d2zB a.77.1.2 18439 2f4nA 273 3.20e+01 1mwyA 73 3.28e+01 d.58.17.1 79616 1v7rA 186 3.35e+01 c.51.4.1 100482 1u5vA 273 3.39e+01 2ax4A 198 3.40e+01 1iujA 106 3.40e+01 d.58.4.5 90701 1ys7A 233 3.44e+01 1iqzA 81 3.47e+01 d.58.1.4 66281 1ks8A 433 3.48e+01 a.102.1.2 77519 2fclA 169 3.48e+01 1ho1A 242 3.49e+01 1ho1A c.1.24.1 61097 1fgs 428 3.52e+01 1fgs c.59.1.2,c.72.2.2 33959,34962 1vk9A 151 3.54e+01 c.139.1.1 108640 1j93A 353 3.59e+01 c.1.22.1 66454 1yqtA 538 3.60e+01 2tct 207 3.61e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1whtA 256 3.67e+01 1ivyA c.69.1.5 34646 1c3pA 375 3.68e+01 1c3pA c.42.1.2 32606 1b9hA 388 3.69e+01 1b9hA c.67.1.4 34488 1sn4A 64 3.71e+01 1aho g.3.7.1 44136 1wi6A 88 3.76e+01 1pbgA 468 3.78e+01 1e70M c.1.8.4 28946 2hhmA 276 3.79e+01 1imbA e.7.1.1 42955 1fvkA 189 3.79e+01 1fvkA c.47.1.13 90351 2a8lA 420 3.79e+01 1u11A 182 3.82e+01 c.23.8.1 107576 1xt9A 212 3.85e+01 1b79A 119 3.85e+01 1b79A a.81.1.1 18451 1k4nA 192 3.86e+01 d.32.1.5 72059 2ci1A 275 3.86e+01 1ir3A 306 3.90e+01 1fmk d.144.1.7 41702 1vbkA 307 3.90e+01 1wy5A 317 3.92e+01 1o2dA 371 3.95e+01 e.22.1.2 86591 2gq1A 332 4.00e+01 1imbA 277 4.01e+01 1imbA e.7.1.1 42957 1fnoA 417 4.03e+01 d.58.19.1,c.56.5.4 70145,75841 1xwwA 157 4.05e+01 1s69A 124 4.05e+01 a.1.1.1 105305 1obpA 159 4.05e+01 1obpA b.60.1.1 27092 1whsA 255 4.10e+01 1ivyA c.69.1.5 34649 2cg4A 152 4.11e+01 1z5nA 242 4.11e+01 1j0fA 100 4.12e+01 c.47.1.14 90739 1oaiA 59 4.13e+01 a.5.2.3 81255 3ladA 476 4.14e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1y0hA 105 4.18e+01 1dg9A 157 4.20e+01 1dg9A c.44.1.1 32637 1guuA 52 4.24e+01 a.4.1.3 83332 1o70A 324 4.24e+01 b.118.1.1,b.118.1.1 81115,81116 1uiuA 502 4.28e+01 c.94.1.1 99434 1x6mA 196 4.37e+01 1sbyA 254 4.45e+01 2ex4A 241 4.51e+01 1mucA 373 4.57e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 2dpmA 284 4.57e+01 2dpmA c.66.1.28 34246 1n8nA 212 4.58e+01 c.108.1.12 91706 1gt1A 159 4.67e+01 b.60.1.1 90515 1swyA 164 4.67e+01 1acvA 189 4.67e+01 1fvkA c.47.1.13 90328 1z7mA 344 4.71e+01 1dd9A 338 4.71e+01 1dd9A e.13.1.1 43254 1z3iX 644 4.72e+01 1u3aA 189 4.78e+01 1xy7A 166 4.80e+01 1hn2A 159 4.81e+01 b.60.1.1 65890 1xahA 354 4.82e+01 1zlqA 502 4.83e+01 2scpA 174 4.87e+01 2scpA a.39.1.5 17256 2dcnA 311 5.00e+01 1isiA 265 5.00e+01 e.4.1.1 71394 1r5rA 119 5.01e+01 a.39.2.1 97104 1ylmA 144 5.06e+01 1kkhA 317 5.10e+01 d.14.1.5,d.58.26.3 72645,72646 2fp4B 395 5.16e+01 1mbe 53 5.18e+01 1mbe a.4.1.3 16038 1th8A 145 5.19e+01 d.122.1.3 106908 1ynuA 473 5.27e+01 2cveA 191 5.27e+01 1dk8A 147 5.32e+01 1agrE a.91.1.1 18548 1vg5A 73 5.35e+01 2bjcA 62 5.40e+01 1wv8A 73 5.44e+01 1mfmA 153 5.45e+01 1mfmA b.1.8.1 22246 1xocA 520 5.46e+01 1uspA 139 5.47e+01 d.227.1.1 99879 1ugmA 125 5.58e+01 d.15.1.3 107827 1qd9A 124 5.61e+01 1qu9A d.79.1.1 39758 1jf8A 131 5.63e+01 c.44.1.1 66621 1rkd 309 5.74e+01 1rkd c.72.1.1 34928 1ghhA 81 5.75e+01 1ghhA d.57.1.1 38940 1e19A 314 5.76e+01 1b7bA c.73.1.1 34967 1t1uA 639 5.76e+01 1pru 56 5.89e+01 1pru a.35.1.5 17104 1hzyA 332 5.92e+01 1pscA c.1.9.3 61468 1k0eA 453 5.92e+01 d.161.1.1 67938 1x9zA 188 5.97e+01 1qf6A 642 6.00e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1j3mA 129 6.05e+01 d.129.7.1 103836 2aqjA 538 6.10e+01 1p36A 164 6.14e+01 d.2.1.3 93978 1bv1 159 6.17e+01 1bv1 d.129.3.1 41313 1b8aA 438 6.20e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1t95A 240 6.23e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2csbA 519 6.29e+01 1p9qC 256 6.29e+01 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1oe4A 247 6.30e+01 c.18.1.3 86895 1iow 306 6.32e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1fm4A 159 6.33e+01 1bv1 d.129.3.1 76186 2gi9A 56 6.33e+01 1s7zA 117 6.35e+01 a.159.3.1 98715 1idrA 136 6.37e+01 1dlyA a.1.1.1 62301 2a8jA 420 6.42e+01 2al6A 375 6.51e+01 1i0dA 332 6.62e+01 1pscA c.1.9.3 61487 1uv7A 110 6.65e+01 d.67.4.1 100040 1jbwA 428 6.66e+01 c.59.1.2,c.72.2.2 62860,62861 1gsoA 431 6.66e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1f7zA 233 6.71e+01 5ptp b.47.1.2 59681 1ykjA 394 6.76e+01 1lw9A 164 6.76e+01 d.2.1.3 84727 1ezfA 340 6.86e+01 1ezfA a.128.1.2 19440 2a8mA 420 6.97e+01 1z0sA 278 7.01e+01 2g7jA 124 7.02e+01 1fkqA 124 7.07e+01 3lzt d.2.1.2 36601 1q2lA 939 7.09e+01 1rfzA 168 7.09e+01 a.195.1.1 97411 1xkqA 280 7.18e+01 1pm6A 72 7.21e+01 a.6.1.7 94894 1d7uA 433 7.30e+01 2dkb c.67.1.4 34439 1i2kA 269 7.32e+01 e.17.1.1 90661 1oxsC 353 7.36e+01 b.40.6.3,c.37.1.12 87519,87520 1et0A 269 7.36e+01 1et0A e.17.1.1 43289 1vjrA 271 7.40e+01 c.108.1.14 100832 2dkb 433 7.42e+01 2dkb c.67.1.4 34438 1s3zA 165 7.49e+01 d.108.1.1 105250 1yspA 181 7.49e+01 1ub9A 100 7.52e+01 a.4.5.28 99159 1jl3A 139 7.64e+01 c.44.1.1 66826 2bepA 159 7.68e+01 1oxxK 353 7.72e+01 b.40.6.3,c.37.1.12 93715,93716 1tzaA 134 7.74e+01 b.1.23.1 107468 2d2mD 145 7.75e+01 1fjgK 129 7.78e+01 1fjfK c.55.4.1 33733 1bxeA 113 7.84e+01 1bxeA d.55.1.1 38898 1ec7A 446 7.93e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1b8gA 429 7.94e+01 1b8gA c.67.1.4 34499 2b7eA 59 7.97e+01 1vk8A 106 8.24e+01 d.58.48.1 108636 1wu7A 434 8.24e+01 1pytA 94 8.27e+01 1pytA d.58.3.1 39064 1ihjA 98 8.29e+01 1pdr b.36.1.1 62382 2f94F 350 8.34e+01 1k1eA 180 8.42e+01 c.108.1.5 67995 1t3lA 337 8.47e+01 b.34.2.1,c.37.1.1 106358,106359 1frd 98 8.56e+01 1awd d.15.4.1 37648 1vhnA 318 8.57e+01 c.1.4.1 100693 2ahrA 259 8.57e+01 1pv9A 348 8.62e+01 c.55.2.1,d.127.1.1 95157,95158 2crbA 97 8.62e+01 1wznA 252 8.65e+01 1y5hA 133 8.66e+01 1gmmA 133 8.79e+01 b.18.1.10 65314 1ka2A 499 8.79e+01 d.92.1.5 77305 1sx7A 164 8.80e+01 1xqaA 113 8.83e+01 1fjgM 126 8.86e+01 1fjfM a.156.1.1 16293 2d0iA 333 8.92e+01 1wexA 104 8.98e+01