# List of top-scoring protein chains for t06-100-30-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 1mk4A 157 1.14e-04 d.108.1.1 84979 2fe7A 166 7.37e-02 2aj6A 159 9.52e-02 1ne9A 335 1.07e-01 d.108.1.4,d.108.1.4 91839,91840 1z4eA 153 1.75e-01 1cjwA 166 1.91e-01 1cjwA d.108.1.1 40818 1vhsA 175 1.99e-01 d.108.1.1 100698 2ge3A 170 2.10e-01 1tiqA 180 2.55e-01 d.108.1.1 107010 2d4pA 141 3.14e-01 1a53 247 3.28e-01 1a53 c.1.2.4 28564 1s3zA 165 3.62e-01 d.108.1.1 105250 1yx0A 159 4.12e-01 2fliA 220 5.07e-01 1puiA 210 5.14e-01 c.37.1.8 88292 1twyA 290 5.22e-01 1mf7A 194 9.43e-01 c.62.1.1 84937 1hc7A 477 1.05e+00 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1z9hA 290 1.33e+00 1h09A 338 1.35e+00 b.109.1.1,c.1.8.8 83420,83421 2fcr 173 1.59e+00 1rcf c.23.5.1 31151 2beiA 170 1.78e+00 1rz3A 201 2.16e+00 c.37.1.6 98132 2f1rA 171 2.17e+00 1w9gA 104 2.24e+00 1vqzA 341 2.44e+00 1wo8A 126 2.48e+00 1dxeA 256 2.53e+00 1dxeA c.1.12.5 29310 1yvoA 172 2.54e+00 1jmvA 141 2.77e+00 c.26.2.4 66897 1wdcC 156 3.57e+00 1wdcC a.39.1.5 17317 1lw7A 365 3.86e+00 c.26.1.3,c.37.1.1 74295,74296 2cy2A 174 3.94e+00 1ea5A 537 4.00e+00 2bce c.69.1.1 34592 1s4iA 175 4.05e+00 2c71A 216 4.10e+00 1u9lA 70 4.66e+00 a.60.4.2 107751 1cnv 299 4.72e+00 1cnv c.1.8.5 28989 1wwzA 159 4.72e+00 1v74A 107 4.85e+00 d.243.1.1 100442 1xtmA 175 4.92e+00 1t0tV 248 5.01e+00 d.58.4.10 106229 1z4rA 168 5.04e+00 1sqhA 312 5.08e+00 d.108.1.5 98966 1gpmA 525 5.13e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1e3oC 160 5.27e+00 1au7A a.4.1.1,a.35.1.1 59197,59198 1hs6A 611 5.38e+00 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1pgvA 197 5.45e+00 c.10.1.1 88073 1izcA 339 5.48e+00 c.1.12.5 83838 2rslA 140 5.50e+00 2rslA c.53.1.1 33345 1tqjA 230 6.07e+00 c.1.2.2 107228 1hf8A 289 6.40e+00 1hg5A a.7.8.2,a.118.9.3 90354,90355 1o20A 427 6.68e+00 c.82.1.1 86556 1dusA 194 6.82e+00 1dusA c.66.1.4 34182 1e5kA 201 6.98e+00 1fr9A c.68.1.8 34578 1tqgA 105 7.28e+00 a.24.10.3 107224 1a3aA 148 7.33e+00 1a3aA d.112.1.1 40917 1es9A 232 7.33e+00 1wab c.23.10.3 31340 2tpsA 227 7.35e+00 2tpsA c.1.3.1 28591 2fl4A 149 7.93e+00 1m5wA 243 8.19e+00 c.1.24.1 84836 1h4xA 117 8.35e+00 1auz c.13.2.1 60626 1vrtA 560 8.48e+00 1rthA c.55.3.1,e.8.1.2 33574,43023 1s99A 200 8.51e+00 2b5gA 171 8.75e+00 1dlyA 164 8.82e+00 1dlyA a.1.1.1 14983 2agkA 260 9.20e+00 1n71A 180 9.49e+00 d.108.1.1 85370 1llfA 534 9.53e+00 c.69.1.17 78094 1lj8A 493 9.77e+00 a.100.1.9,c.2.1.6 90392,90393 1p0hA 318 9.83e+00 d.108.1.1 93866 1z5bA 469 9.89e+00 1mho 88 1.03e+01 1b4cA a.39.1.2 17171 1m0wA 491 1.04e+01 c.30.1.4,d.142.1.6 78363,78364 1o5uA 101 1.08e+01 b.82.1.8 92518 1kg0C 136 1.20e+01 d.169.1.1 72445 1ro5A 201 1.22e+01 d.108.1.3 105023 1f5nA 592 1.25e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1vmeA 410 1.25e+01 c.23.5.1,d.157.1.3 108893,108894 1w8iA 156 1.26e+01 2fp8A 322 1.27e+01 1y7qA 98 1.29e+01 1o98A 511 1.29e+01 c.105.1.1,c.76.1.3 86684,86685 1wkbA 810 1.29e+01 1vkmA 297 1.29e+01 c.138.1.1 108670 1i12A 160 1.31e+01 1i21A d.108.1.1 61515 1jljA 189 1.33e+01 c.57.1.1 63169 1vliA 385 1.35e+01 b.85.1.1,c.1.10.6 108830,108831 1zchA 255 1.38e+01 1np6A 174 1.40e+01 c.37.1.10 85954 1dzkA 157 1.40e+01 1obpA b.60.1.1 27096 1onwA 390 1.40e+01 b.92.1.7,c.1.9.13 87172,87173 1sgwA 214 1.42e+01 c.37.1.12 105541 2ex5A 207 1.44e+01 1uf3A 228 1.45e+01 d.159.1.6 99317 1vc4A 254 1.46e+01 c.1.2.4 100557 2cvbA 188 1.49e+01 1z7aA 308 1.50e+01 1dc1A 323 1.51e+01 1dc1A c.52.1.11 33321 1iicA 422 1.53e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1h2wA 710 1.55e+01 b.69.7.1,c.69.1.4 76596,76597 1sqwA 188 1.57e+01 1o4wA 147 1.58e+01 c.120.1.1 86629 1vk0A 206 1.59e+01 c.55.3.5 100839 1eiwA 111 1.60e+01 1eiwA c.23.3.1 31130 1ad2 228 1.75e+01 1ad2 e.24.1.1 43353 2ga9D 469 1.76e+01 1lrzA 426 1.77e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1xmxA 385 1.77e+01 2atrA 138 1.82e+01 2c27A 315 1.85e+01 1gp6A 356 1.86e+01 b.82.2.1 65441 1muwA 386 1.87e+01 c.1.15.3 79495 1u46A 291 1.88e+01 d.144.1.7 107656 2faoA 309 1.91e+01 1f9vA 347 1.95e+01 1bg2 c.37.1.9 59745 2f7tA 227 2.08e+01 1jeoA 180 2.09e+01 c.80.1.3 66611 1p5dX 463 2.10e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2f5tX 233 2.12e+01 1a0jA 223 2.12e+01 5ptp b.47.1.2 26002 1xo0A 324 2.12e+01 1pea 385 2.18e+01 1pea c.93.1.1 35662 1zu0A 529 2.20e+01 1dpo 223 2.22e+01 5ptp b.47.1.2 25975 1hj8A 222 2.22e+01 b.47.1.2 65844 1wehA 171 2.27e+01 2a1hA 365 2.29e+01 1ujkA 147 2.33e+01 a.118.9.2 99457 1o5kA 306 2.35e+01 c.1.10.1 92504 1qoyA 318 2.35e+01 1qoyA h.4.4.1 45788 2ccmA 191 2.41e+01 1kkhA 317 2.44e+01 d.14.1.5,d.58.26.3 72645,72646 1wy9A 147 2.45e+01 1n4kA 381 2.53e+01 a.118.22.1,b.42.6.1 79992,79993 1sgjA 284 2.55e+01 c.1.12.5 105535 2ahrA 259 2.57e+01 2fjbA 643 2.58e+01 1ceo 343 2.58e+01 1ceo c.1.8.3 28808 1b93A 152 2.61e+01 1b93A c.24.1.2 31507 1lcyA 325 2.66e+01 b.36.1.4,b.47.1.1 73834,73835 1yemA 179 2.70e+01 1ep0A 185 2.71e+01 1dzrA b.82.1.1 28080 2h1rA 299 2.71e+01 1gy6A 127 2.77e+01 d.17.4.2 70736 2f8lA 344 2.78e+01 1wr2A 238 2.80e+01 1t6gC 184 2.80e+01 b.29.1.11 106569 1ulyA 192 2.84e+01 1k6iA 352 2.89e+01 c.2.1.2 68223 1i40A 175 2.90e+01 b.40.5.1 66024 1l8dA 112 2.94e+01 h.4.12.1 73687 1cqqA 180 2.95e+01 1cqqA b.47.1.4 26422 1g1xC 88 2.99e+01 1fjfR a.4.8.1 16249 1l7dA 384 3.02e+01 c.2.1.4,c.23.12.2 77774,77775 1gk9A 260 3.02e+01 d.153.1.2 65246 1pjcA 361 3.02e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1j27A 102 3.03e+01 d.58.50.1 90778 1fs1B 141 3.03e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1y8aA 332 3.07e+01 1sffA 426 3.07e+01 c.67.1.4 105482 1ukfA 188 3.10e+01 d.3.1.10 99488 1o8xA 146 3.10e+01 c.47.1.10 86681 1gca 309 3.12e+01 1gca c.93.1.1 35659 1f7zA 233 3.15e+01 5ptp b.47.1.2 59681 1q44A 326 3.17e+01 c.37.1.5 95779 2b9eA 303 3.22e+01 2fxuA 375 3.24e+01 1n81A 186 3.26e+01 a.185.1.1 85388 2asbA 251 3.26e+01 2glfA 450 3.30e+01 1r8mE 203 3.35e+01 a.118.3.1 97242 1xjcA 169 3.38e+01 1qz5A 375 3.39e+01 c.55.1.1,c.55.1.1 96614,96615 1spjA 238 3.41e+01 1lxjA 104 3.45e+01 d.58.48.1 84736 1sz9A 144 3.47e+01 a.118.9.4 106139 1o13A 136 3.50e+01 c.55.5.1 80762 1z8sA 146 3.53e+01 1s0aA 429 3.54e+01 c.67.1.4 98263 1ton 235 3.54e+01 5ptp b.47.1.2 26307 1aop 497 3.56e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1x59A 73 3.59e+01 1p1xA 260 3.61e+01 c.1.10.1 104060 1gveA 327 3.63e+01 c.1.7.1 70597 1ghhA 81 3.66e+01 1ghhA d.57.1.1 38940 1jmsA 381 3.66e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1u8vA 490 3.67e+01 1lc5A 364 3.68e+01 c.67.1.1 73827 1lhpA 312 3.74e+01 c.72.1.5 77960 1dy9A 187 3.77e+01 1jxpA b.47.1.3 26400 1nv8A 284 3.80e+01 c.66.1.30 86224 1kafA 108 3.80e+01 d.199.1.1 68372 1em9A 154 3.81e+01 1d1dA a.73.1.1 18333 2cxaA 256 3.97e+01 1xgkA 352 3.97e+01 1gw5S 142 3.97e+01 d.110.4.2 70633 1ysjA 404 3.97e+01 2bswA 146 4.06e+01 2avyM 117 4.15e+01 1xuuA 349 4.16e+01 1vr6A 350 4.19e+01 1v7wA 807 4.21e+01 a.102.1.4,b.30.5.3 108411,108412 1ehiA 377 4.22e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1cr1A 296 4.22e+01 1cr1A c.37.1.11 32286 2ae6A 166 4.24e+01 1hz4A 373 4.26e+01 a.118.8.2 65960 1h4wA 224 4.29e+01 b.47.1.2 65622 1fo8A 343 4.31e+01 1foaA c.68.1.10 59927 5pal 109 4.33e+01 1a75A a.39.1.4 17215 1h9hE 223 4.34e+01 b.47.1.2 103810 1oshA 232 4.36e+01 a.123.1.1 93496 1tl9A 339 4.38e+01 2fi9A 128 4.38e+01 2cwkA 160 4.40e+01 2c1iA 431 4.45e+01 1qy1A 174 4.45e+01 b.60.1.1 96568 1vjzA 341 4.50e+01 c.1.8.3 100838 1jnrA 643 4.50e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1xm7A 195 4.55e+01 1pii 452 4.59e+01 1pii c.1.2.4,c.1.2.4 28559,28563 1nf2A 268 4.60e+01 c.108.1.10 91849 1lj2A 110 4.61e+01 h.1.13.2 73926 1zndA 174 4.66e+01 1xv2A 237 4.71e+01 2g2dA 193 4.71e+01 1wzuA 300 4.72e+01 1vc1A 110 4.72e+01 c.13.2.1 108493 1ib2A 349 4.74e+01 1ib2A a.118.1.8 62141 1geqA 248 4.82e+01 2tysA c.1.2.4 28589 1pq1A 196 4.84e+01 f.1.4.1 94986 1ppfE 218 4.84e+01 1a7s b.47.1.2 26234 2as9A 210 4.87e+01 1sfxA 109 4.87e+01 a.4.5.50 105505 1zo0A 126 4.94e+01 1lehA 364 4.95e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1e29A 135 4.95e+01 1e29A a.3.1.1 59161 1j0hA 588 5.00e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1vzyA 291 5.05e+01 1frb 315 5.08e+01 1frb c.1.7.1 28665 1nu5A 370 5.09e+01 c.1.11.2,d.54.1.1 92183,92184 1wj5A 120 5.10e+01 1bkjA 240 5.10e+01 1bkjA d.90.1.1 40243 1vpqA 273 5.13e+01 1xypA 190 5.13e+01 1axkA b.29.1.11 24327 1wd5A 208 5.16e+01 1uhvA 500 5.16e+01 b.71.1.2,c.1.8.3 99402,99403 1z47A 355 5.17e+01 1colA 204 5.23e+01 1a87 f.1.1.1 43378 1vljA 407 5.26e+01 e.22.1.2 108832 1q2yA 140 5.29e+01 d.108.1.1 95655 1sziA 247 5.29e+01 a.24.23.1 106159 2bkxA 242 5.31e+01 1zo2A 129 5.34e+01 1n3yA 198 5.42e+01 c.62.1.1 79976 1r44A 202 5.59e+01 d.65.1.4 104787 2c4jA 218 5.62e+01 1qlmA 316 5.64e+01 1qlmA d.147.1.1 41765 2bgsA 344 5.66e+01 1xi3A 215 5.68e+01 c.1.3.1 109601 2ctoA 93 5.69e+01 2ah5A 210 5.72e+01 1tzyD 103 5.73e+01 a.22.1.1 107533 1ufyA 122 5.78e+01 d.79.1.2 88489 1xk4C 113 5.85e+01 2gb7A 305 5.89e+01 1y08A 323 6.00e+01 1xfjA 261 6.01e+01 d.194.1.2 109585 2g40A 224 6.03e+01 1yb3A 175 6.05e+01 2fmpA 335 6.08e+01 2a1iA 146 6.15e+01 1pzxA 289 6.17e+01 c.119.1.1 95484 1zzpA 130 6.18e+01 2bg1A 494 6.22e+01 1h1dA 221 6.24e+01 c.66.1.1 83452 1ta8A 332 6.26e+01 1sgpE 185 6.26e+01 1qq4A b.47.1.1 25816 1agjA 242 6.29e+01 1agjA b.47.1.1 25827 1r8sE 203 6.32e+01 a.118.3.1 97248 1f0xA 571 6.35e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1zczA 464 6.37e+01 1nh2B 53 6.37e+01 a.32.1.1 91874 2bjrA 368 6.42e+01 1uzeA 589 6.47e+01 d.92.1.5 108174 1q7lA 198 6.52e+01 c.56.5.4 96044 1g6eA 87 6.54e+01 1g6eA b.11.1.6 60317 1uptB 60 6.57e+01 a.193.1.1 99768 1tw7A 99 6.60e+01 1qv9A 283 6.61e+01 c.127.1.1 96356 2cvjA 180 6.61e+01 5nul 138 6.65e+01 5nul c.23.5.1 31191 1g3mA 294 6.67e+01 c.37.1.5 83268 1ut9A 609 6.69e+01 a.102.1.2,b.1.18.2 99912,99913 1kb9A 431 6.69e+01 d.185.1.1,d.185.1.1 77311,77312 1k3yA 221 6.72e+01 a.45.1.1,c.47.1.5 77245,77246 1y88A 199 6.76e+01 2d2sA 235 6.78e+01 1z3eB 73 6.78e+01 1ri5A 298 6.81e+01 c.66.1.34 97502 1k94A 165 6.87e+01 a.39.1.8 68333 1ig3A 263 6.90e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 2aefA 234 6.91e+01 1xmtA 103 7.00e+01 2cobA 70 7.00e+01 2gviA 204 7.00e+01 1l8wA 348 7.02e+01 a.154.1.1 73704 1l8aA 886 7.06e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1wmiB 67 7.16e+01 2arhA 203 7.17e+01 1wnaA 131 7.21e+01 2gcuA 245 7.23e+01 1vkcA 158 7.31e+01 1tuzA 118 7.37e+01 2c8vA 288 7.41e+01 1xzoA 174 7.42e+01 1fmjA 351 7.47e+01 c.37.1.5 59879 1ngkA 128 7.51e+01 a.1.1.1 85673 1f00I 282 7.55e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1jflA 228 7.57e+01 c.78.2.1,c.78.2.1 71656,71657 1eexB 224 7.57e+01 1dioB c.51.3.1 33213 1bw0A 416 7.57e+01 1bw0A c.67.1.1 34385 1gefA 123 7.61e+01 1gefA c.52.1.18 60465 1uliB 187 7.67e+01 d.17.4.4 107923 1eteA 134 7.72e+01 1eteA a.26.1.2 16869 2gwnA 452 7.76e+01 1s83A 223 7.76e+01 b.47.1.2 98718 1pz7A 204 7.79e+01 b.29.1.4 95405 1zzmA 259 7.81e+01 1gtzA 156 7.82e+01 c.23.13.1 70539 2exrA 524 7.86e+01 2sfa 191 7.87e+01 1qq4A b.47.1.1 25815 1wqgA 185 7.87e+01 2bhuA 602 7.88e+01 1zd3A 555 7.92e+01 1xfrA 128 7.95e+01 1ockA 412 7.96e+01 c.117.1.1 86802 1mswD 883 8.08e+01 e.8.1.3 79427 2fgeA 995 8.09e+01 1v1aA 309 8.11e+01 c.72.1.1 100249 1atzA 189 8.13e+01 1atzA c.62.1.1 34132 2aq2B 237 8.14e+01 1ezwA 349 8.19e+01 1ezwA c.1.16.3 29558 1pb6A 212 8.21e+01 a.4.1.9,a.121.1.1 88017,88018 1ylmA 144 8.23e+01 1odkA 235 8.24e+01 c.56.2.1 86863 1ux5A 411 8.25e+01 a.207.1.1 100144 1o0yA 260 8.28e+01 c.1.10.1 80756 1rd5A 262 8.28e+01 1elkA 157 8.36e+01 1dvpA a.118.9.2 19217 2hvm 273 8.38e+01 1cnv c.1.8.5 28985 1jmxA 494 8.60e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1xebA 150 8.61e+01 2gwgA 350 8.61e+01 1qs1A 462 8.63e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 1aa7A 158 8.65e+01 1aa7A a.95.1.1 18741 1ursA 402 8.68e+01 c.94.1.1 99833 1s2oA 244 8.69e+01 1f1eA 154 8.71e+01 a.22.1.2 64927 2akoA 251 8.75e+01 1gnkA 112 8.76e+01 2pii d.58.5.1 39073 1m2xA 223 8.79e+01 d.157.1.1 84764 1zupA 315 8.80e+01 1t9hA 307 8.80e+01 2fcwA 109 8.81e+01 2b0jA 358 8.83e+01 1j1iA 296 8.83e+01 c.69.1.10 83977 1ymtA 246 8.84e+01 2fp7B 172 8.86e+01 1j5uA 136 8.89e+01 d.208.1.1 71584 1sb0A 87 8.90e+01 a.12.1.1 98789 2chgA 226 8.90e+01 2sga 181 8.91e+01 1qq4A b.47.1.1 25808 1yozA 116 8.93e+01 1nlfA 279 8.94e+01 c.37.1.11 85850 1p7gA 222 8.94e+01 a.2.11.1,d.44.1.1 94223,94224 1k4mA 213 8.99e+01 c.26.1.3 77258