# List of top-scoring protein chains for t06-100-30-str2-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 1zkiA 133 2.40e-20 1o0iA 138 2.78e-20 d.38.1.5 86532 1vh5A 148 5.91e-20 d.38.1.5 100642 2fs2A 151 5.43e-19 1wluA 136 9.45e-19 1j1yA 136 1.09e-18 d.38.1.5 90776 1yliA 153 1.51e-17 1vpmA 169 3.12e-17 1q4uA 151 2.34e-16 d.38.1.5 95828 1z6bA 154 7.79e-16 1yocA 147 1.56e-15 2gvhA 288 2.71e-15 1ixlA 131 4.57e-15 d.38.1.5 90717 1t82A 155 4.23e-14 d.38.1.5 106639 2cyeA 133 4.67e-14 1sh8A 154 4.03e-13 d.38.1.5 105549 1s5uA 138 8.29e-13 d.38.1.1 98573 1z54A 132 2.56e-11 2gf6A 135 4.03e-10 2b3nA 159 2.13e-09 2cwzA 141 2.94e-09 2aliA 158 8.75e-09 1iq6A 134 4.21e-08 d.38.1.4 76755 1lo7A 141 4.30e-08 d.38.1.1 74144 1mkaA 171 7.92e-08 1mkaA d.38.1.2 38543 1tbuA 118 2.62e-07 2essA 248 2.84e-07 1c8uA 285 1.20e-06 1c8uA d.38.1.3,d.38.1.3 38547,38548 2bi0A 337 1.83e-05 1yycA 174 1.49e-03 2bm3A 166 8.13e-02 1pn2A 280 8.72e-02 d.38.1.4,d.38.1.4 94930,94931 1te5A 257 5.01e-01 d.153.1.1 106795 1lshA 1056 5.34e-01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1vrmA 325 7.15e-01 1xkpC 143 9.67e-01 1h3nA 878 1.01e+00 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1kt6A 183 1.03e+00 b.60.1.1 84466 2bf6A 449 1.05e+00 1zo2A 129 1.22e+00 2covD 104 1.23e+00 2cu6A 103 1.40e+00 1n9pA 207 1.49e+00 b.1.18.16 80343 1l0wA 580 1.86e+00 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1ry9A 145 2.00e+00 d.198.1.1 98094 1s1fA 406 2.40e+00 1oruA 195 2.70e+00 b.58.1.2 93464 1ww7A 160 2.75e+00 1ve4A 206 2.79e+00 1v74A 107 2.98e+00 d.243.1.1 100442 1txqA 93 3.69e+00 2fg1A 158 3.76e+00 1wteA 272 3.93e+00 2sli 679 4.06e+00 2sli b.29.1.9,b.68.1.1 24274,27611 1w66A 232 4.09e+00 1fm0E 150 4.09e+00 1fmaE d.41.5.1 38629 1wcdJ 441 4.15e+00 1l8bA 190 4.18e+00 d.86.1.1 73683 1ttwA 138 4.22e+00 d.198.1.1 107308 1snzA 344 4.23e+00 b.30.5.4 98930 2fm8A 135 4.26e+00 1su8A 636 4.46e+00 e.26.1.2 98999 1w9hA 427 4.84e+00 1yewA 382 5.44e+00 1yq2A 1024 6.19e+00 1swxA 209 6.22e+00 a.224.1.1 106075 1tyjA 170 6.35e+00 1mdc 133 6.48e+00 1hmt b.60.1.2 27198 1sdjA 310 6.61e+00 d.21.1.2,d.21.1.2 98807,98808 2g3aA 152 6.74e+00 2hgsA 474 6.92e+00 2hgsA c.30.1.4,d.142.1.6 31722,75997 2gr8A 99 7.24e+00 1vk3A 615 7.28e+00 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1w6nA 134 7.43e+00 1wbeA 209 7.67e+00 1erjA 393 7.91e+00 1erjA b.69.4.1 27660 1ex2A 189 7.99e+00 1ex2A c.51.4.2 33225 2bwqA 129 8.02e+00 1l2tA 235 8.08e+00 c.37.1.12 73514 2fimA 276 8.23e+00 2eifA 136 8.44e+00 1bkb b.34.5.2,b.40.4.5 24607,25339 1iznA 286 8.58e+00 e.43.1.1 83847 1aym2 261 8.84e+00 1aym2 1cbs 137 9.03e+00 1hmt b.60.1.2 27201 2bc4A 211 9.60e+00 1oh0A 131 9.65e+00 d.17.4.3 87004 1pjhA 280 1.02e+01 c.14.1.3 94761 1t4wA 196 1.04e+01 b.2.5.2 106427 2fmmA 74 1.08e+01 1rkiA 102 1.09e+01 1wgzA 510 1.14e+01 2bo9B 222 1.15e+01 1n9eA 787 1.17e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1ujnA 348 1.17e+01 e.22.1.1 99460 1fhgA 154 1.18e+01 1tlk b.1.1.4 21706 1tiqA 180 1.18e+01 d.108.1.1 107010 1b06A 210 1.24e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1d5tA 433 1.26e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 2c78A 405 1.26e+01 1u69A 163 1.33e+01 d.32.1.7 107699 1n4wA 504 1.37e+01 c.3.1.2,d.16.1.1 91676,91677 1rf6A 427 1.38e+01 d.68.2.2 97366 1r8gA 372 1.41e+01 d.128.1.3 104845 2d37A 176 1.44e+01 1l1qA 186 1.47e+01 c.61.1.1 77653 1dqeA 137 1.48e+01 1dqeA a.39.2.1 17388 1vbiA 344 1.50e+01 2bolA 314 1.54e+01 1ir21 140 1.54e+01 1vb3A 428 1.55e+01 1rz1A 161 1.57e+01 b.45.1.2 98124 2f6kA 307 1.58e+01 1uyjA 296 1.59e+01 f.8.1.2 108143 1n67A 359 1.62e+01 b.2.3.4,b.2.3.4 85354,85355 1vprA 374 1.62e+01 1tp6A 128 1.68e+01 d.17.4.12 107184 1nd4A 264 1.70e+01 d.144.1.6 91815 1v8hA 107 1.80e+01 2aq4A 434 1.81e+01 1wz8A 264 1.81e+01 1jnyA 435 1.82e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1xkrA 206 1.83e+01 1ab8A 220 1.84e+01 1azsA d.58.29.1 39414 1vcaA 202 1.84e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1cseI 71 1.84e+01 1egpA d.40.1.1 38559 1lyvA 306 1.88e+01 c.45.1.2 74348 1xocA 520 1.99e+01 2ghpA 292 2.04e+01 1g24A 211 2.06e+01 1g24A d.166.1.1 42270 1vdwA 254 2.06e+01 e.7.1.1 100569 1f60A 458 2.09e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2f57A 317 2.13e+01 1gk8I 140 2.13e+01 d.73.1.1 65242 1q52A 314 2.16e+01 c.14.1.3 95846 2gxfA 142 2.19e+01 1q2lA 939 2.21e+01 1unnC 115 2.27e+01 d.240.1.1 99680 1tz9A 367 2.31e+01 c.1.15.6 107466 1g38A 393 2.32e+01 2admA c.66.1.27 60235 1k3sA 113 2.32e+01 d.198.1.1 68120 1ydwA 362 2.32e+01 1senA 164 2.35e+01 c.47.1.1 105465 1xfrA 128 2.36e+01 1mkkA 96 2.36e+01 g.17.1.1 79240 1yi9A 309 2.38e+01 1j1lA 290 2.38e+01 b.82.1.12 90766 2gzqA 200 2.41e+01 2f5tX 233 2.55e+01 2giyA 191 2.60e+01 1xvsA 126 2.66e+01 1xnkA 196 2.68e+01 1g7sA 594 2.70e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1zthA 258 2.70e+01 1uvqA 197 2.74e+01 b.1.1.2,d.19.1.1 100062,100063 1xewY 172 2.75e+01 1o6vA 466 2.77e+01 b.1.18.15,c.10.2.1 81099,81100 1xkpB 124 2.81e+01 1zxxA 319 2.83e+01 1u5tB 169 2.89e+01 a.4.5.54,a.4.5.54 107686,107687 1cr5A 189 2.89e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1ju3A 583 2.94e+01 b.18.1.13,c.69.1.21 67300,67301 1vk8A 106 2.94e+01 d.58.48.1 108636 1jr7A 311 2.95e+01 b.82.2.3 63255 1f5mA 180 3.00e+01 1f5mB d.110.2.1 40895 1tuaA 191 3.01e+01 d.51.1.1,d.51.1.1 107321,107322 1o9gA 250 3.09e+01 c.66.1.29 86692 1js3A 486 3.12e+01 c.67.1.6 67215 1qyaA 307 3.19e+01 d.21.1.2,d.21.1.2 104653,104654 1zdrA 164 3.20e+01 1vr5A 547 3.21e+01 1ur1A 378 3.24e+01 c.1.8.3 99804 1q1rA 431 3.25e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1g87A 614 3.26e+01 a.102.1.2,b.2.2.2 83275,83276 1ofdA 1520 3.31e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1k32A 1045 3.32e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1kzfA 230 3.35e+01 d.108.1.3 73354 1tcvA 287 3.38e+01 1jyaA 130 3.41e+01 d.198.1.1 67453 1qhoA 686 3.43e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1zj8A 566 3.48e+01 1h6tA 291 3.52e+01 b.1.18.15,c.10.2.1 65686,65687 1whvA 100 3.53e+01 1vrbA 342 3.54e+01 1xeuA 263 3.54e+01 2ccvA 101 3.59e+01 1xypA 190 3.60e+01 1axkA b.29.1.11 24327 1yvoA 172 3.61e+01 3cox 507 3.70e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1rj8A 164 3.71e+01 b.22.1.1 97547 2g6yA 217 3.74e+01 1fqtA 112 3.75e+01 1fqtA b.33.1.1 24441 1w6gA 646 3.79e+01 1x8qA 184 3.80e+01 1o9yA 84 3.82e+01 b.139.1.1 92692 1owfB 94 3.86e+01 a.55.1.1 87488 1uv7A 110 3.89e+01 d.67.4.1 100040 1lqaA 346 3.94e+01 c.1.7.1 84674 2fyxA 143 3.97e+01 1mvfD 82 3.98e+01 b.129.1.1 85143 1kshB 152 4.10e+01 b.1.18.8 72915 1geeA 261 4.13e+01 c.2.1.2 90509 2fr2A 172 4.14e+01 1yoaA 159 4.16e+01 1rjoA 646 4.23e+01 1svvA 359 4.25e+01 c.67.1.1 106054 1pvgA 418 4.30e+01 d.14.1.3,d.122.1.2 95161,95162 1qexA 288 4.38e+01 1qexA b.32.1.1 24425 1nnxA 109 4.43e+01 b.40.10.1 92013 1c0pA 363 4.43e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1qqp3 220 4.49e+01 1qqp3 1j1bA 420 4.50e+01 d.144.1.7 90758 1ib8A 164 4.50e+01 b.38.2.1,d.52.4.1 71168,71169 2gk3A 256 4.51e+01 2azpA 318 4.63e+01 1ad2 228 4.65e+01 1ad2 e.24.1.1 43353 1j98A 157 4.66e+01 1j98A d.185.1.2 62755 1svdA 473 4.67e+01 1f39A 101 4.72e+01 1umuA b.87.1.1 28386 1ns5A 155 4.81e+01 c.116.1.3 80705 2beiA 170 4.89e+01 1qhxA 178 4.96e+01 1qhsA c.37.1.3 31936 1cb0A 283 4.98e+01 1cb0A c.56.2.1 33790 1k5nA 276 5.01e+01 b.1.1.2,d.19.1.1 77266,77267 2biqA 219 5.02e+01 1fxlA 167 5.03e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1d5yA 292 5.11e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 2audA 257 5.13e+01 1s7kA 182 5.16e+01 1yirA 408 5.20e+01 1z7lA 276 5.22e+01 1xknA 355 5.23e+01 1aqzA 149 5.25e+01 1aqzA d.1.1.3 36238 1is3A 135 5.28e+01 b.29.1.3 76773 1e8cA 498 5.29e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1ylnA 252 5.29e+01 1x3kA 152 5.34e+01 1wj9A 211 5.46e+01 1z2wA 192 5.49e+01 1ifc 132 5.52e+01 b.60.1.2 27173 1ncwH 222 5.62e+01 b.1.1.1,b.1.1.2 85555,85556 2b20A 403 5.68e+01 1tlyA 278 5.75e+01 f.4.6.1 107143 1gp6A 356 5.75e+01 b.82.2.1 65441 2aeuA 374 5.81e+01 1esxA 96 5.87e+01 1esxA j.11.1.1 59501 2btiA 63 5.87e+01 1svb 395 5.93e+01 1svb b.1.18.4,f.10.1.1 21814,43827 1bu8A 452 5.93e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1ufwA 95 5.95e+01 d.58.7.1 99358 2b1xA 470 6.10e+01 1cvrA 435 6.10e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1zhvA 134 6.13e+01 2a74A 643 6.16e+01 1w8oA 601 6.33e+01 1r4vA 171 6.42e+01 a.197.1.1 97049 1gai 472 6.44e+01 1ayx a.102.1.1 18819 1ux6A 350 6.44e+01 b.29.1.16,g.75.1.1 100145,100146 1o97C 264 6.48e+01 c.26.2.3 81232 2b9wA 424 6.54e+01 1cqxA 403 6.57e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1gttA 429 6.57e+01 d.177.1.1,d.177.1.1 70529,70530 1s9jA 341 6.59e+01 1f5vA 240 6.59e+01 1bkjA d.90.1.1 40255 1h6lA 353 6.60e+01 b.68.3.1 60687 2g8oA 264 6.63e+01 1v8bA 479 6.64e+01 1id2A 106 6.66e+01 1aac b.6.1.1 62288 2ganA 190 6.68e+01 1mg7A 417 6.75e+01 d.14.1.6,d.58.26.6 84954,84955 1meoA 209 6.82e+01 c.65.1.1 79035 2awkA 228 6.86e+01 1ustA 93 6.88e+01 a.4.5.13 99884 1b8oA 284 6.89e+01 1b8oA c.56.2.1 33762 1ykwA 435 6.95e+01 1u0kA 288 7.05e+01 d.21.1.2,d.21.1.2 107547,107548 1qqqA 264 7.05e+01 1bkpA d.117.1.1 40931 1g1cA 99 7.07e+01 b.1.1.4 65078 1kutA 230 7.12e+01 d.143.1.1 73017 1xi1A 575 7.13e+01 1v7zA 260 7.14e+01 c.125.1.1 100488 1zhxA 438 7.16e+01 2fauA 341 7.22e+01 2bi7A 384 7.27e+01 1vkpA 383 7.28e+01 d.126.1.6 108686 2dcyA 185 7.29e+01 1go4A 205 7.29e+01 d.135.1.1 70292 1q9uA 130 7.33e+01 d.129.7.1 96314 1se8A 301 7.37e+01 b.40.4.3 105448 1oltA 457 7.38e+01 c.1.28.2 93334 2fpqA 444 7.38e+01 1wdpA 495 7.42e+01 2esnA 310 7.47e+01 2foyA 260 7.52e+01 1z57A 339 7.52e+01 1r8eA 278 7.61e+01 a.6.1.3,d.60.1.1 104843,104844 1olrA 224 7.70e+01 b.29.1.11 93330 1nzyA 269 7.76e+01 1nzyA c.14.1.3 30903 1gnxA 479 7.78e+01 c.1.8.4 76241 1cs6A 382 7.82e+01 1cs6A b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21760,21761,21762,21763 3bamA 213 7.83e+01 1bam c.52.1.3 33288 1n82A 331 8.05e+01 c.1.8.3 91703 1ecfA 504 8.06e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2a15A 139 8.08e+01 1ufkA 254 8.18e+01 c.66.1.39 99340 1kqwA 134 8.18e+01 b.60.1.2 72887 1r7lA 110 8.19e+01 d.277.1.1 104837 1rp4A 389 8.26e+01 a.227.1.1 105027 2g8mA 264 8.33e+01 2agyA 361 8.38e+01 1qhlA 227 8.39e+01 1qhlA c.37.1.12 32382 1pfsA 78 8.41e+01 1pfsA b.40.4.7 25391 1iq4A 179 8.43e+01 1iq4A d.77.1.1 62641 1w44A 331 8.46e+01 1obfO 335 8.48e+01 c.2.1.3,d.81.1.1 86768,86769 1zdzA 302 8.50e+01 1o6dA 163 8.51e+01 c.116.1.3 92567 2b69A 343 8.54e+01 1dceA 567 8.59e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1jndA 420 8.61e+01 c.1.8.5,d.26.3.1 71757,71758 1hq0A 295 8.62e+01 1hzgA d.194.1.1 61122 1cfb 205 8.63e+01 1cfb b.1.2.1,b.1.2.1 21991,21992 1b5qA 472 8.63e+01 1b37B c.3.1.2,d.16.1.5 30404,37968 2amhA 207 8.69e+01 1g4mA 393 8.70e+01 b.1.18.11,b.1.18.11 65143,65144 1d3yA 301 8.76e+01 1d3yA e.12.1.1 43252 1m2tA 254 8.76e+01 d.165.1.1 84761 1ju2A 536 8.77e+01 c.3.1.2,d.16.1.1 77169,77170 1wqaA 455 8.79e+01 1oe4A 247 8.83e+01 c.18.1.3 86895 1pvtA 238 8.85e+01 c.74.1.1 95189 2tpt 440 8.87e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1wddS 128 8.88e+01 1n40A 396 8.89e+01 a.104.1.1 79977 1eo1A 124 8.90e+01 1eo1A c.55.5.1 33739 1aisA 182 8.94e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1o20A 427 8.95e+01 c.82.1.1 86556 1nh8A 304 8.97e+01 c.94.1.1,d.58.5.3 80507,80508