# List of top-scoring protein chains for t2k.100-30-str 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.soe.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 2hkjA 469 3.10e-06 a.156.1.3 136553 d.14.1.3 136554 d.122.1.2 136555 1mx0A 472 3.92e-06 a.156.1.3 79618 d.14.1.3 79619 d.122.1.2 79620 1tdzA 272 1.55e-05 a.156.1.2 106787 b.113.1.1 106788 g.39.1.8 106789 1mu5A 471 1.62e-05 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1pjjA 271 1.78e-05 a.156.1.2 104164 b.113.1.1 104165 g.39.1.8 104166 1k82A 268 1.52e-04 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1r2zA 274 2.88e-04 a.156.1.2 96892 b.113.1.1 96893 g.39.1.8 96894 1ee8A 266 3.05e-04 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1l1zA 274 4.03e-04 a.156.1.2 75911 b.113.1.1 75912 g.39.1.8 75913 1k3xA 262 7.87e-03 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1fjgM 126 1.04e-01 1fjfM a.156.1.1 16293 1s1hM 132 1.81e-01 i.1.1.1 105165 2vqeM 126 2.89e-01 1h8aC 128 3.01e-01 a.4.1.3 65731 a.4.1.3 65732 2qalM 117 3.22e-01 2r6fA 972 5.07e-01 1tdhA 364 6.22e-01 a.156.1.2 106772 b.113.1.1 106773 g.39.1.8 106774 2og1A 286 6.47e-01 2pujA 286 6.79e-01 2rhwA 283 6.98e-01 2puhA 286 8.09e-01 1jb7A 495 1.69e+00 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1otcA 495 1.94e+00 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 2hi0A 240 2.43e+00 1p3qQ 54 3.35e+00 a.5.2.4 87748 1twfB 1224 3.38e+00 e.29.1.1 112726 2p6xA 309 3.52e+00 2furA 209 4.43e+00 b.45.1.1 134185 2qmxA 283 4.61e+00 1umdA 367 4.81e+00 c.36.1.11 99599 1bqbA 301 5.12e+00 1hyt d.92.1.2 58962 2ol2A 395 5.43e+00 2v8pA 271 5.46e+00 2bijA 305 5.68e+00 1zo0A 126 6.10e+00 d.108.1.7 125416 2q4zA 312 6.33e+00 1rykA 69 6.38e+00 a.60.11.1 98105 2pibA 216 6.57e+00 1dik 874 6.65e+00 1dik 3buuA 229 6.96e+00 1eovA 487 6.99e+00 1b8aA b.40.4.1 25239 d.104.1.1 40760 2blfB 81 7.64e+00 3d2fA 675 7.95e+00 1xw2A 405 7.95e+00 a.102.1.2 122389 1h12A 405 8.34e+00 a.102.1.2 83447 2fh7A 595 8.48e+00 2bv5A 282 8.87e+00 1hmt 132 8.96e+00 1hmt 1hmtA 132 8.96e+00 b.60.1.2 27169 1xwtA 405 9.03e+00 a.102.1.2 122410 1jhnA 424 9.06e+00 b.29.1.12 70060 b.104.1.1 66722 1lpjA 133 9.24e+00 b.60.1.2 78123 1sgwA 214 9.83e+00 c.37.1.12 105541 1ej5A 107 9.97e+00 1ej5A a.68.1.1 18268 1uteA 313 1.04e+01 1uteA d.159.1.1 42078 2qdlA 165 1.08e+01 1mqkH 127 1.09e+01 b.1.1.1 85053 2gu2A 312 1.09e+01 1hxpA 348 1.09e+01 1guqA d.13.1.2 37530 d.13.1.2 37531 1cfr 285 1.13e+01 1cfr 1cfrA 285 1.13e+01 c.52.1.7 33312 1pvc1 301 1.13e+01 1pov1 1asyA 490 1.14e+01 1b8aA b.40.4.1 25242 d.104.1.1 40763 1b43A 340 1.15e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1uf5A 303 1.20e+01 d.160.1.2 107808 2bcgG 453 1.26e+01 c.3.1.3 128282 c.3.1.3 128283 d.16.1.6 128284 1f6fA 199 1.27e+01 1f6fA a.26.1.1 16839 2a1vA 144 1.30e+01 d.198.3.1 126019 1uheA 97 1.30e+01 2dyuA 334 1.38e+01 1qtqA 553 1.39e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1t3bA 211 1.43e+01 c.47.1.9 106341 d.17.3.1 106342 1ojqA 212 1.44e+01 d.166.1.1 93146 1g7fA 298 1.44e+01 1pty c.45.1.2 60330 1d2sA 170 1.45e+01 1d2sA b.29.1.4 24221 1ju5A 109 1.45e+01 d.93.1.1 77173 2oqyA 391 1.49e+01 2jhnA 295 1.49e+01 1vc3B 97 1.49e+01 2jv2A 83 1.51e+01 2qxlA 658 1.52e+01 1v63A 101 1.53e+01 a.21.1.1 108391 1u7bA 261 1.53e+01 d.131.1.2 113083 d.131.1.2 113084 2ch5A 347 1.55e+01 c.55.1.5 130453 c.55.1.5 130454 2e2rA 244 1.58e+01 2pidA 356 1.61e+01 1kj1D 109 1.61e+01 b.78.1.1 68639 1erzA 303 1.63e+01 1erzA d.160.1.2 59498 2ts1 419 1.64e+01 2ts1 2p25A 126 1.64e+01 2p62A 241 1.66e+01 1f1uA 323 1.67e+01 d.32.1.3 83200 d.32.1.3 83201 2cm2A 304 1.67e+01 c.45.1.2 130610 1vddA 228 1.70e+01 e.49.1.1 108519 2pbiB 354 1.71e+01 3b9fI 395 1.74e+01 1nm1G 125 1.75e+01 d.109.1.1 80653 1gtrA 553 1.75e+01 1gtrA b.53.1.2 26939 c.26.1.1 31578 2gpuA 230 1.75e+01 a.123.1.1 135493 1o97D 320 1.79e+01 c.26.2.3 81233 c.31.1.2 81234 1kblA 873 1.83e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1qc7A 101 1.84e+01 1qc7A a.118.14.1 18456 2gs8A 317 1.88e+01 1guqA 348 1.91e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 2uxyA 341 1.93e+01 1kb0A 677 1.94e+01 a.3.1.6 68378 b.70.1.1 68379 1cc5 83 1.95e+01 1cc5 1cc5A 83 1.95e+01 a.3.1.1 15901 1d4xG 126 1.97e+01 1d0nA d.109.1.1 59109 1s9pA 227 2.00e+01 a.123.1.1 105384 2qr7A 342 2.02e+01 1llnA 262 2.05e+01 d.165.1.1 84625 2jh2A 148 2.05e+01 1eudB 396 2.07e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1y1xA 191 2.09e+01 a.39.1.8 116374 2r31A 239 2.13e+01 1qyrA 252 2.19e+01 c.66.1.24 104657 1mn3A 54 2.22e+01 a.5.2.4 85024 1sfxA 109 2.29e+01 a.4.5.50 105505 2qdyA 207 2.29e+01 2uubD 209 2.32e+01 d.66.1.2 139935 3b7fA 394 2.38e+01 1gehA 444 2.38e+01 c.1.14.1 65181 d.58.9.1 65182 2cz1A 206 2.40e+01 d.149.1.1 131033 1yxaA 398 2.41e+01 1oaoA 674 2.49e+01 e.26.1.2 86744 1pa1A 310 2.49e+01 c.45.1.2 94404 2vdxA 373 2.51e+01 3cnwA 148 2.52e+01 1wkbA 810 2.53e+01 2f71A 298 2.54e+01 c.45.1.2 133070 2yx0A 342 2.54e+01 1t44G 147 2.57e+01 d.109.1.1 106395 1w36C 1122 2.58e+01 c.37.1.19 114125 c.37.1.19 114126 c.52.1.25 114127 1gm6A 175 2.59e+01 b.60.1.1 70272 1fjgD 209 2.64e+01 1c05A d.66.1.2 39553 1ptvA 321 2.65e+01 1pty c.45.1.2 32665 1vr5A 547 2.69e+01 c.94.1.1 120437 2jejA 358 2.70e+01 d.240.1.1 138284 e.8.1.7 138285 1q98A 165 2.85e+01 c.47.1.10 96253 1w0nA 131 2.86e+01 b.18.1.28 114069 1ynaA 194 2.87e+01 b.29.1.11 24335 1fdr 248 2.88e+01 1fdr 1fdrA 248 2.88e+01 b.43.4.2 25653 c.25.1.1 31543 1mkrA 294 2.93e+01 a.93.1.1 84997 1bvzA 585 2.93e+01 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 2imgA 151 2.94e+01 1op3H 225 2.96e+01 b.1.1.1 87208 b.1.1.2 87209 1sz7A 200 2.96e+01 1pty 321 2.98e+01 1pty 1ebmA 317 3.01e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 2j3wB 188 3.06e+01 1ou8A 111 3.06e+01 b.136.1.1 93543 1xd5A 112 3.06e+01 b.78.1.1 115155 2oznA 165 3.06e+01 1jjrA 151 3.07e+01 a.140.2.1 66772 1yhvA 297 3.07e+01 1kxqE 120 3.09e+01 b.1.1.1 73171 2obpA 96 3.11e+01 1fcdC 174 3.12e+01 1fcdC a.3.1.4 15966 a.3.1.4 15967 2jn6A 97 3.12e+01 2rkhA 180 3.13e+01 2hjqA 111 3.13e+01 2ejaA 338 3.14e+01 3b55A 451 3.15e+01 2in3A 216 3.15e+01 1p0iA 529 3.16e+01 c.69.1.1 93867 1khbA 625 3.18e+01 c.91.1.1 68606 c.109.1.1 68607 2nykA 285 3.18e+01 1gvnA 90 3.19e+01 a.8.2.1 76353 2rgxA 206 3.22e+01 1iurA 88 3.23e+01 a.2.3.1 90704 1sgvA 316 3.23e+01 b.122.1.1 98858 d.265.1.2 98859 2gwmA 200 3.30e+01 1f9zA 135 3.31e+01 1qipA d.32.1.1 38484 1zvhA 134 3.33e+01 2vl0A 321 3.34e+01 1f1xA 322 3.34e+01 d.32.1.3 83208 d.32.1.3 83209 2gqbA 130 3.35e+01 1kdkA 177 3.36e+01 b.29.1.4 72351 1spiA 358 3.36e+01 1frpA e.7.1.1 42939 2ahjA 206 3.36e+01 2ahjA d.149.1.1 41772 1xwiA 322 3.39e+01 1d3bB 91 3.42e+01 1d3bB b.38.1.1 24804 1eeoA 321 3.42e+01 1pty c.45.1.2 32655 2ohyA 539 3.43e+01 1jdrA 294 3.48e+01 1ryc a.93.1.1 62908 2z2uA 311 3.50e+01 2fp4B 395 3.53e+01 c.23.4.1 133897 d.142.1.4 133898 2qf2A 624 3.53e+01 2eutA 294 3.54e+01 a.93.1.1 132407 1blxA 326 3.56e+01 1hcl d.144.1.7 41596 2fikA 287 3.56e+01 b.1.1.2 133524 d.19.1.1 133525 1djrD 103 3.58e+01 3chbD b.40.2.1 24865 2qhoB 53 3.62e+01 1z53A 294 3.62e+01 a.93.1.1 124449 1mp1A 111 3.63e+01 a.188.1.1 91382 2hoeA 380 3.64e+01 a.4.5.63 136639 c.55.1.10 136640 c.55.1.10 136641 2qn0A 430 3.64e+01 1jx4A 352 3.67e+01 d.240.1.1 90378 e.8.1.7 90379 1y8qA 346 3.67e+01 2astA 159 3.68e+01 2hsaA 402 3.70e+01 1te5A 257 3.75e+01 d.153.1.1 106795 1nthA 458 3.78e+01 c.1.25.1 80730 2esbA 188 3.82e+01 2fdvA 476 3.84e+01 2vqeD 209 3.86e+01 1cf7B 95 3.88e+01 1cf7B a.4.5.17 16152 1lgyA 269 3.92e+01 3tgl c.69.1.17 34758 2rhsB 800 3.95e+01 1wmwA 330 3.98e+01 1m2xA 223 3.99e+01 d.157.1.1 84764 1jl0A 334 3.99e+01 1jenA d.156.1.1 63155