# List of top-scoring protein chains for t04-100-30-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.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 2drhA 361 9.13e-43 1b65A 375 2.02e-39 1b65A d.154.1.1 42020 1vz6A 393 4.57e-01 d.154.1.2 108949 3it4B 205 7.30e-01 2hlzA 312 1.45e+00 2hqqA 298 1.91e+00 2v3aA 384 2.42e+00 2eq6A 464 2.86e+00 3f8xA 148 3.00e+00 1vm6A 228 3.69e+00 d.81.1.3,c.2.1.3 108877,118631 3di4A 286 3.98e+00 1fc6A 388 4.32e+00 1fc6A b.36.1.3,c.14.1.2 64738,64739 2w0mA 235 4.94e+00 1zjkA 403 5.07e+00 b.47.1.2,g.18.1.1,g.18.1.1 125149,125150,125151 2v4iB 213 5.11e+00 3kpkA 434 5.68e+00 1q3kA 259 6.00e+00 c.125.1.1 95693 3ib5A 348 6.07e+00 1scuA 288 6.15e+00 2scuA c.2.1.8,c.23.4.1 30307,31135 1e4eA 343 6.26e+00 1iow c.30.1.2,d.142.1.1 59221,59222 1t70A 255 7.14e+00 d.159.1.9 112275 1v7zA 260 7.52e+00 c.125.1.1 100488 3lqyA 190 7.93e+00 2p0lA 288 8.01e+00 d.104.1.3 149135 3a6fA 260 8.04e+00 2gjlA 328 8.23e+00 1mj3A 260 8.62e+00 c.14.1.3 79183 1o2dA 371 8.82e+00 e.22.1.2 86591 3kpiA 434 9.26e+00 1gqoA 143 9.71e+00 c.23.13.1 76295 2k3aA 155 1.04e+01 1e3pA 757 1.06e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 3ijpA 288 1.06e+01 1vljA 407 1.09e+01 e.22.1.2 108832 2d59A 144 1.11e+01 c.2.1.8 131266 2dh2A 424 1.12e+01 1e8gA 560 1.21e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1gmlA 178 1.26e+01 c.8.5.2 70273 2cg7A 90 1.29e+01 g.27.1.1,g.27.1.1 130423,130424 2wqpA 349 1.31e+01 2c30A 321 1.35e+01 2zdrA 349 1.36e+01 b.85.1.1,c.1.10.6 154398,154399 1xuuA 349 1.37e+01 b.85.1.1,c.1.10.6 116067,116068 1s9jA 341 1.42e+01 d.144.1.7 112049 1zedA 484 1.52e+01 c.76.1.1 124980 1ew2A 513 1.54e+01 1b8jA c.76.1.1 59525 3eqcA 360 1.55e+01 1ybxA 143 1.62e+01 1rovA 857 1.64e+01 a.119.1.1,b.12.1.1 97674,97675 3hywA 430 1.65e+01 1kmqA 184 1.74e+01 c.37.1.8 84412 3dv3A 322 1.75e+01 2ztsA 251 1.79e+01 1augA 215 1.79e+01 1a2zA c.56.4.1 33798 1te5A 257 1.82e+01 d.153.1.1 106795 1g4wR 383 1.83e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1ac5 483 1.83e+01 1ac5 1ac5A 483 1.83e+01 c.69.1.5 34653 2p9rA 102 1.87e+01 1nuiA 255 1.88e+01 e.13.1.2,g.41.3.2 86194,86195 3el6A 313 2.11e+01 1odfA 290 2.12e+01 c.37.1.6 92782 2g6bA 180 2.24e+01 c.37.1.8 134701 3k9cA 289 2.27e+01 1vraB 215 2.28e+01 1nox 205 2.33e+01 1nox 1noxA 205 2.33e+01 d.90.1.1 40242 1dbwA 126 2.34e+01 1dbwA c.23.1.1 31095 1at3A 247 2.34e+01 1at3A b.57.1.1 27021 2rkuA 294 2.40e+01 2zbwA 335 2.46e+01 2yrxA 451 2.46e+01 1l0gA 358 2.46e+01 e.3.1.1 73400 3m4rA 222 2.46e+01 1pt6A 213 2.52e+01 c.62.1.1 95091 1nhsA 447 2.56e+01 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2ajrA 331 2.59e+01 c.72.1.1 126892 2whdA 351 2.61e+01 3lxrA 185 2.66e+01 3ihwA 184 2.69e+01 1mh1 186 2.70e+01 1eesA 1mh1A 186 2.70e+01 c.37.1.8 32002 3ixdA 358 2.87e+01 3kb7A 311 2.90e+01 1tx4B 178 2.96e+01 1ctqA c.37.1.8 32045 2owbA 335 2.98e+01 2fg1A 158 3.07e+01 c.50.1.2 133400 1jjiA 311 3.11e+01 c.69.1.2 66766 1g7fA 298 3.11e+01 1pty c.45.1.2 60330 3fd5A 394 3.12e+01 3hg3A 404 3.13e+01 2r3bA 310 3.13e+01 2id1A 130 3.20e+01 d.218.1.12 147622 2fiwA 172 3.22e+01 d.108.1.1 133539 2ja2A 498 3.29e+01 3hb9A 1150 3.31e+01 1nhp 447 3.31e+01 1nhp 1nhpA 447 3.31e+01 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 2yv1A 294 3.38e+01 1gu3A 149 3.38e+01 b.18.1.14 76350 2fb9A 322 3.39e+01 2dbsA 90 3.42e+01 d.374.1.1 146483 3dmoA 138 3.49e+01 1xfkA 336 3.53e+01 c.42.1.1 115264 1ezwA 349 3.55e+01 1ezwA c.1.16.3 29558 1fsyA 358 3.55e+01 1gceA e.3.1.1 60016 1ukvY 206 3.59e+01 c.37.1.8 107918 1eudA 311 3.60e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 2afcA 168 3.63e+01 c.50.1.2 126676 2obbA 142 3.67e+01 c.108.1.25 148715 3h4oA 191 3.75e+01 2j0iA 303 3.75e+01 2cbiA 594 3.75e+01 a.246.1.1,c.1.8.10,d.92.2.3 130179,130180,130181 2wk2A 540 3.75e+01 2ppvA 332 3.78e+01 2qsjA 154 3.87e+01 1edqA 540 3.88e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 2nx2A 181 3.89e+01 c.129.1.2 148498 3ju0A 108 3.92e+01 2dg5B 190 3.92e+01 2a5lA 200 3.93e+01 c.23.5.8 126176 2p3pA 207 3.98e+01 d.383.1.1 149183 2cm2A 304 3.99e+01 c.45.1.2 130610 3iwiA 361 4.04e+01 3ilsA 265 4.07e+01 1v7pC 200 4.11e+01 c.62.1.1 108408 3b82A 842 4.16e+01 1zu4A 320 4.19e+01 2rp4A 76 4.29e+01 1ktbA 405 4.29e+01 b.71.1.1,c.1.8.1 72960,72961 2j7vA 298 4.33e+01 2bcgY 206 4.34e+01 c.37.1.8 128285 3a1yG 284 4.34e+01 1qhlA 227 4.35e+01 1qhlA c.37.1.12 32382 3ey5A 181 4.35e+01 2gcoA 201 4.43e+01 3emxA 135 4.51e+01 2b3oA 532 4.51e+01 2b5oA 402 4.52e+01 2chcA 170 4.63e+01 d.17.4.25 146394 3fbsA 297 4.71e+01 3bruA 222 4.72e+01 1ctn 540 4.72e+01 1ctn 2wlzA 548 4.77e+01 2j9oA 298 4.82e+01 2rdeA 251 4.83e+01 b.45.2.1,b.45.2.2 151924,151925 3ixbA 358 4.83e+01 2qj8A 332 4.86e+01 1iu1A 146 5.02e+01 b.1.10.2 71428 2qmcB 188 5.05e+01 1oi7A 288 5.06e+01 c.2.1.8,c.23.4.1 87049,87050 1mtzA 293 5.07e+01 c.69.1.7 79467 2f71A 298 5.12e+01 c.45.1.2 133070 1i7qB 193 5.13e+01 1qdlB c.23.16.1 61902 1vm7A 311 5.18e+01 c.72.1.1 108884 1zq1C 633 5.24e+01 a.182.1.2,d.74.4.1,d.128.1.5 125493,125494,125495 2j73A 103 5.24e+01 b.3.1.3 147899 3fmeA 290 5.26e+01 1qnxA 209 5.26e+01 1qnxA d.111.1.1 40914 1n0uA 842 5.28e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1gkuB 1054 5.37e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 2douA 376 5.41e+01 2ww5A 468 5.43e+01 1h5yA 253 5.43e+01 c.1.2.1 65638 1qc5A 192 5.45e+01 1aoxA c.62.1.1 34147 2nqoB 188 5.46e+01 2q3xA 171 5.49e+01 1ptvA 321 5.50e+01 1pty c.45.1.2 32665 2h9bA 312 5.52e+01 2graA 277 5.53e+01 3a32A 471 5.53e+01 1pea 385 5.56e+01 1pea 1peaA 385 5.56e+01 c.93.1.1 35662 3h55A 400 5.57e+01 1s4qA 228 5.58e+01 c.37.1.1 98507 1znwA 207 5.63e+01 c.37.1.1 125412 2aexA 346 5.84e+01 3emrA 310 5.88e+01 2hi6A 141 5.90e+01 c.8.2.3 136523 2waeA 680 5.93e+01 2dknA 255 5.98e+01 1h8eA 510 6.02e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 3lmbA 165 6.03e+01 1xtpA 254 6.11e+01 c.66.1.42 116031 2p6xA 309 6.16e+01 2gvhA 288 6.21e+01 d.38.1.1,d.38.1.1 135776,135777 2p5iA 288 6.25e+01 d.104.1.3 149248 3cswA 285 6.25e+01 1yxaA 398 6.30e+01 2wafA 682 6.35e+01 2r79A 283 6.36e+01 2vdxA 373 6.60e+01 1pg4A 652 6.63e+01 e.23.1.1 88067 2ffyA 358 6.66e+01 e.3.1.1 133394 3d34A 223 6.71e+01 3mcrA 213 6.74e+01 2c0rA 362 6.74e+01 c.67.1.4 129604 3lxwA 247 6.81e+01 2o6sA 208 6.86e+01 3en8A 128 6.92e+01 d.17.4.20 158188 1ylnA 252 6.97e+01 b.45.2.1,b.45.2.2 123657,123658 3hisA 257 6.99e+01 2px7A 236 7.02e+01 2vqaA 361 7.02e+01 2g19A 244 7.10e+01 2vjwA 149 7.11e+01 2gc7D 147 7.16e+01 a.3.1.1 134957 1mg2D 155 7.25e+01 a.3.1.1 79062 1iu8A 206 7.27e+01 c.56.4.1 71436 3gzxA 457 7.27e+01 2gz6A 388 7.27e+01 3djaA 579 7.31e+01 1mb3A 124 7.33e+01 c.23.1.1 78907 3hu5A 204 7.36e+01 2oryA 346 7.44e+01 1xx1A 285 7.45e+01 2h0uA 217 7.53e+01 2f6uA 234 7.57e+01 c.1.4.1 133061 1aipC 196 7.58e+01 1tfe a.5.2.2,d.43.1.1 58930,58931 1yliA 153 7.59e+01 d.38.1.1 123651 2b8eA 273 7.61e+01 c.108.1.7,d.220.1.1 128068,128069 1xrjA 261 7.62e+01 c.37.1.6 122256 1aq0A 306 7.65e+01 1aq0A c.1.8.3 28842 1uj2A 252 7.67e+01 c.37.1.6 99452 1ou0A 207 7.81e+01 c.23.17.1 93536 1y71A 130 7.82e+01 b.34.16.1 122677 1nbaA 264 7.90e+01 1nbaA c.33.1.3 31753 3cgxA 242 7.90e+01 2cjtA 131 7.91e+01 b.7.1.1 130549 3iwoA 358 7.93e+01 2wadA 680 7.93e+01