# List of top-scoring protein chains for t04-100-30-bys-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.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 2uytA 489 4.26e-01 1lla 628 2.22e+00 1lla 1llaA 628 2.22e+00 a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 3e2cA 158 2.69e+00 2bwnA 401 4.39e+00 c.67.1.4 129368 2p3nA 256 5.08e+00 2fulA 178 6.04e+00 3ie1A 431 7.31e+00 2jjnA 411 8.00e+00 1neyA 247 8.06e+00 c.1.1.1 80449 2pv7A 298 8.22e+00 a.100.1.12,c.2.1.6 149887,149888 1jliA 112 8.60e+00 a.26.1.2 16884 3a4yA 431 9.17e+00 1j8yF 297 9.21e+00 1ng1 a.24.13.1,c.37.1.10 62747,62748 1jf4A 147 1.01e+01 a.1.1.2 71643 2pbxA 203 1.05e+01 1wy1A 172 1.13e+01 3idzA 431 1.14e+01 2q0tA 263 1.16e+01 a.152.1.1 149990 3evyA 239 1.19e+01 1j8mF 297 1.29e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1i45A 248 1.33e+01 1amk c.1.1.1 61665 3a8pA 263 1.35e+01 3e1qA 158 1.35e+01 1ppjD 241 1.36e+01 a.3.1.3,f.23.11.1 104258,104259 2z51A 154 1.36e+01 3ie2A 431 1.38e+01 3c4bA 265 1.38e+01 3fkkA 309 1.41e+01 2vxiA 158 1.42e+01 2ccmA 191 1.50e+01 2dkfA 431 1.53e+01 d.157.1.10 146536 2parA 201 1.54e+01 3fkrA 309 1.55e+01 1y1uA 585 1.57e+01 3ie0A 431 1.59e+01 3hr0A 263 1.61e+01 2puzA 419 1.62e+01 b.92.1.10,c.1.9.17 149873,149874 1evlA 401 1.65e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 3hmlA 258 1.65e+01 3etdA 501 1.69e+01 3dwcA 505 1.75e+01 2gokA 429 1.78e+01 b.92.1.10,c.1.9.17 147145,147146 1fx2A 235 1.81e+01 1fx2A d.58.29.1 39430 3cqxC 88 1.87e+01 1bcfA 158 1.88e+01 1bcfA a.25.1.1 16648 3g9dA 297 1.90e+01 1jd1A 129 1.95e+01 1qu9A d.79.1.1 62890 1qmqA 414 1.97e+01 1phd a.104.1.1 18907 3cbuA 214 1.98e+01 3js4A 227 2.04e+01 1eg5A 384 2.07e+01 1ecxA c.67.1.3 34429 1vb5A 276 2.09e+01 c.124.1.5 113604 3enbA 222 2.16e+01 c.55.3.14 158189 2zwuA 415 2.16e+01 1q2hA 69 2.23e+01 a.34.4.1 104498 3g8wA 169 2.27e+01 1t7sA 137 2.33e+01 a.7.7.1 106636 3cprA 304 2.37e+01 3kzqA 208 2.49e+01 3lhrA 93 2.55e+01 1wlxA 129 2.58e+01 3czgA 644 2.63e+01 2kvcA 103 2.64e+01 2hbg 147 2.68e+01 2hbg 1io7A 368 2.68e+01 1f4tA a.104.1.1 18971 1ng6A 148 2.70e+01 a.182.1.1 85670 2zdbA 195 2.73e+01 3d85C 178 2.79e+01 3fh3A 158 2.81e+01 3a9sA 595 2.90e+01 1wgzA 510 2.93e+01 1qf6A 642 2.94e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 3mw9A 501 2.96e+01 1v7mV 163 2.97e+01 a.26.1.2 100458 2paqA 201 2.97e+01 a.211.1.1 139643 2x1gF 971 2.97e+01 1hw5A 210 3.03e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1z6gA 218 3.03e+01 3cvzA 273 3.10e+01 1ps1A 337 3.11e+01 1ps1A a.128.1.4 19450 1h4lD 147 3.13e+01 a.74.1.1 70873 3cx5D 248 3.17e+01 a.3.1.3,f.23.11.1 157082,157083 1ezvD 245 3.18e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 2g8lA 299 3.18e+01 e.50.1.1 134775 1kb9D 246 3.19e+01 a.3.1.3,f.23.11.1 77317,77318 2q14A 410 3.21e+01 2eb1A 200 3.21e+01 2e8gA 241 3.21e+01 2ia0A 171 3.22e+01 1e4cP 215 3.24e+01 2fua c.74.1.1 34969 1w07A 659 3.29e+01 a.29.3.2,a.29.3.2,e.6.1.2 114046,114047,114048 2imsA 171 3.30e+01 2eg2A 112 3.30e+01 1neiA 60 3.39e+01 d.253.1.1 91843 3d79A 179 3.42e+01 3hoaA 509 3.45e+01 2h8aA 154 3.47e+01 f.56.1.1 147239 2ntzA 192 3.48e+01 1hwxA 501 3.65e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 2etsA 128 3.65e+01 a.24.26.1 132371 2qx5A 661 3.65e+01 1svfB 38 3.67e+01 1svfB h.3.2.1 45764 2qlzA 232 3.72e+01 3bhwA 209 3.79e+01 1yt3A 375 3.81e+01 a.60.8.3,a.60.8.3,c.55.3.5 123992,123993,123994 2cb5A 453 3.82e+01 3gcb d.3.1.1 37035 1tm9A 137 3.93e+01 a.225.1.1 107150 2vs7A 199 3.95e+01 1w2yA 229 4.06e+01 a.204.1.1 109140 3lk5A 380 4.19e+01 3hamA 299 4.27e+01 1o5hA 214 4.33e+01 a.191.1.1 92497 1n4kA 381 4.34e+01 a.118.22.1,b.42.6.1 79992,79993 1scfA 273 4.37e+01 1exzA a.26.1.2 16873 3b6hA 498 4.47e+01 1xmkA 79 4.48e+01 a.4.5.19 122165 2iagA 482 4.49e+01 1j7lA 264 4.50e+01 d.144.1.6 62697 3l55A 353 4.52e+01 2igpA 120 4.55e+01 3hdfA 140 4.58e+01 2fiaA 162 4.63e+01 d.108.1.1 133514 3c4rA 151 4.64e+01 2pm7A 399 4.69e+01 1j33A 335 4.70e+01 c.39.1.1 77069 1w0bA 102 4.73e+01 a.7.11.1 108985 2ftuA 118 4.74e+01 a.13.1.1 134082 2fcwA 109 4.75e+01 a.13.1.1 133288 2j9uA 96 4.75e+01 a.24.28.1 138155 2ddhA 661 4.83e+01 a.29.3.2,a.29.3.2,e.6.1.2 131394,131395,131396 2oc3A 303 4.89e+01 1rlw 126 4.91e+01 1rlw 1rlwA 126 4.91e+01 b.7.1.1 23177 1o5kA 306 4.98e+01 c.1.10.1 92504 3gbhA 213 4.99e+01 2ff4A 388 5.02e+01 a.4.6.1,a.118.8.3,b.26.1.2 133367,133368,133369 1nx8A 273 5.03e+01 b.82.2.8 86374 3b4rA 224 5.11e+01 3eypA 469 5.13e+01 1ud0A 113 5.14e+01 a.8.4.1 99198 1z8uA 102 5.16e+01 a.7.11.1 124724 3h0lC 94 5.16e+01 1nrwA 288 5.17e+01 c.108.1.10 86128 2ex3B 264 5.21e+01 a.263.1.1 132500 2bptA 861 5.21e+01 a.118.1.1 128951 2uuqA 414 5.22e+01 1evsA 187 5.22e+01 1evsA a.26.1.1 16845 3eb2A 300 5.27e+01 1odoA 408 5.29e+01 a.104.1.1 92783 1rz4A 226 5.32e+01 a.4.5.53,a.118.1.18 105131,105132 3hyjA 198 5.33e+01 2vl7A 540 5.40e+01 1bbhA 131 5.42e+01 1bbhA a.24.3.2 16546 3ljbA 271 5.42e+01 1hkkA 364 5.55e+01 c.1.8.5,d.26.3.1 90634,90635 3d36A 244 5.56e+01 3es7A 391 5.61e+01 3fx3A 237 5.64e+01 2golA 133 5.64e+01 a.61.1.1 135438 1sd4A 126 5.64e+01 a.4.5.39 105428 3hqsA 409 5.67e+01 3kkiA 409 5.67e+01 2cpmA 94 5.76e+01 3k4oA 266 5.78e+01 1omiA 248 5.80e+01 b.82.3.3,a.4.5.4 87079,87080 1unlD 208 5.81e+01 a.74.1.1 113326 1p2xA 159 5.82e+01 a.40.1.1 104062 1kvkA 395 5.88e+01 d.14.1.5,d.58.26.3 73060,73061 2q0xA 335 5.98e+01 2jhnA 295 6.00e+01 3gwbA 434 6.04e+01 1dz4A 414 6.21e+01 1phd a.104.1.1 18903 1yrcA 414 6.30e+01 a.104.1.1 123917 3g2mA 299 6.35e+01 1yu5X 67 6.39e+01 a.14.1.1 124039 1n35A 1267 6.41e+01 e.8.1.4 79935 3hznA 220 6.41e+01 2wvlA 391 6.42e+01 3jsjA 190 6.45e+01 2dfkA 402 6.48e+01 a.87.1.1,b.55.1.1 145077,145078 1hy0A 466 6.49e+01 1auwA a.127.1.1 61392 1jmoA 480 6.51e+01 e.1.1.1 77138 3gd6A 391 6.53e+01 1xg2B 153 6.60e+01 1r42A 615 6.62e+01 d.92.1.5 96968 2gtsA 86 6.68e+01 a.25.5.1 147176 1p6xA 334 6.72e+01 c.37.1.1 94195 1jf3A 147 6.74e+01 a.1.1.2 71642 1uby 367 6.76e+01 1uby 1cpcA 162 6.79e+01 1cpcA a.1.1.3 15643 2a6hC 1119 6.80e+01 e.29.1.1 126264 1nkpB 83 6.92e+01 a.38.1.1 80574 1r7jA 95 6.95e+01 a.4.5.49 104836 2e9lA 469 7.00e+01 1kgnA 329 7.05e+01 a.25.1.2 68584 3l1nA 194 7.07e+01 1mhyB 395 7.10e+01 1mtyB a.25.1.2 16781 1i6xA 209 7.21e+01 a.4.5.4,b.82.3.2 83673,83674 1v7nV 163 7.21e+01 a.26.1.2 100476 3kezA 461 7.25e+01 2zu9A 394 7.26e+01 1izmA 184 7.26e+01 a.199.1.1 90725 3ddhA 234 7.33e+01 2nz8B 313 7.39e+01 a.87.1.1,b.55.1.1 138838,138839 2pd6A 264 7.45e+01 3fj1A 344 7.47e+01 2oa6A 320 7.49e+01 1vmbA 140 7.49e+01 d.58.14.1 113672 3abbA 408 7.49e+01 1egaA 301 7.51e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 2a61A 145 7.52e+01 a.4.5.28 126187 2bgcA 238 7.55e+01 a.4.5.4,b.82.3.3 128458,128459 3e10A 168 7.55e+01 2g3kA 94 7.59e+01 a.24.28.1 134562 3ggyA 193 7.63e+01 2oqyA 391 7.65e+01 3fyyA 391 7.78e+01 2uvpA 186 7.87e+01 3c0qA 301 7.91e+01 1bu7A 455 7.95e+01 1bu7A a.104.1.1 18937 1rpa 342 7.95e+01 1cviA 1ii7A 333 7.97e+01 1ii7A d.159.1.4 62415