# 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 1mkmA 249 4.12e-32 a.4.5.33 79242 d.110.2.2 79243 1yspA 181 1.30e-31 1td5A 202 5.11e-30 d.110.2.2 106767 2o99A 182 2.18e-29 d.110.2.2 138952 1tf1A 198 2.76e-29 d.110.2.2 106826 2ia2A 265 5.30e-28 1ysqA 193 8.29e-27 2g7uA 257 9.77e-27 3bjnA 165 1.48e-22 2o0yA 260 5.47e-22 1mc0A 368 4.13e-04 d.110.2.1 78937 d.110.2.1 78938 1ykdA 398 7.48e-03 2qybA 181 9.88e-02 1f5mA 180 1.16e-01 1f5mB d.110.2.1 40895 1v5iB 76 2.65e-01 2v0uA 146 2.66e-01 2uv0E 175 2.84e-01 2aexA 346 3.29e-01 1n9lA 109 4.25e-01 d.110.3.6 85468 3caxA 369 4.85e-01 1itpA 77 5.02e-01 d.58.3.2 66371 1yw5A 177 8.06e-01 2gx5A 170 8.84e-01 2qdfA 335 1.04e+00 1id0A 152 1.08e+00 d.122.1.3 66111 2bjoA 136 1.19e+00 2b18A 164 1.61e+00 2ae6A 166 1.65e+00 d.108.1.1 126600 2o28A 184 1.86e+00 2f5gA 133 1.94e+00 d.58.57.1 132991 2pb2A 420 1.97e+00 2oqrA 230 2.34e+00 2ddzA 190 2.46e+00 2fgoA 82 2.59e+00 1p0zA 131 2.74e+00 d.110.6.1 93882 1gx1A 160 3.42e+00 d.79.5.1 70675 1r5jA 337 3.99e+00 c.77.1.5 97097 1w79A 489 4.19e+00 e.3.1.3 120680 1f9zA 135 4.39e+00 1qipA d.32.1.1 38484 2ob0A 170 4.44e+00 1s2oA 244 4.65e+00 c.108.1.10 118846 1hyeA 313 4.96e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1yexA 186 5.28e+00 c.47.1.10 123021 2debA 653 5.31e+00 2h4tA 626 5.62e+00 1o65A 246 5.83e+00 b.58.1.2 92544 2c21A 144 5.91e+00 d.32.1.1 129649 1q7lA 198 6.17e+00 c.56.5.4 96044 2ae0X 345 6.23e+00 2vjvA 159 6.34e+00 2ph0A 174 6.85e+00 1vr4A 103 6.88e+00 d.230.5.1 120432 1y96B 85 6.89e+00 2fug5 207 6.89e+00 1qwgA 251 6.92e+00 c.1.27.1 96473 2dgdA 223 7.22e+00 1rypF 233 7.30e+00 1rypF d.153.1.4 41937 2fcoA 200 7.56e+00 2ozhA 142 7.75e+00 2qmlA 198 7.86e+00 1wubA 178 7.88e+00 b.61.6.1 114891 1r7mA 235 8.09e+00 d.95.2.1 111713 d.95.2.1 111714 3c0wA 235 8.10e+00 2r6uA 148 8.17e+00 1xtmA 175 8.35e+00 1qxhA 167 8.38e+00 c.47.1.10 96528 1lpjA 133 8.38e+00 b.60.1.2 78123 2gjlA 328 8.52e+00 2hhpA 530 8.63e+00 a.160.1.1 136503 d.218.1.3 136504 d.58.16.1 136505 1twuA 139 8.75e+00 d.32.1.8 107413 2yvyA 278 9.16e+00 1n8jA 186 9.37e+00 c.47.1.10 85401 1l1lA 739 9.41e+00 c.7.1.4 73470 1ru8A 232 9.48e+00 c.26.2.1 97849 1s28A 132 9.88e+00 d.198.1.1 105223 2pc1A 201 1.01e+01 1lml 478 1.05e+01 1lml 1lmlA 478 1.05e+01 d.92.1.3 40295 1fyeA 229 1.17e+01 1fyeA c.23.16.4 31477 1fa8A 135 1.18e+01 1qipA d.32.1.1 38486 1fa0A 537 1.19e+01 1fa0B a.160.1.1 75837 d.218.1.3 75838 d.58.16.1 39335 1iurA 88 1.22e+01 a.2.3.1 90704 1vhmA 195 1.23e+01 d.110.2.1 100691 2j3xA 431 1.24e+01 1bg2 325 1.25e+01 1bg2 1bg2A 325 1.25e+01 c.37.1.9 32189 1louA 101 1.33e+01 1ris d.58.14.1 39323 3rubS 123 1.36e+01 1rboC d.73.1.1 39616 2c1cA 312 1.39e+01 c.56.5.1 129630 1jfuA 186 1.40e+01 c.47.1.10 62940 1bs2A 607 1.40e+01 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1t9mA 214 1.45e+01 b.45.1.1 112364 1zhhB 242 1.45e+01 1xtlA 175 1.46e+01 2pdrA 149 1.47e+01 1s4iA 175 1.47e+01 1hbxA 92 1.48e+01 1mnmA d.88.1.1 60930 1sgjA 284 1.54e+01 c.1.12.5 105535 2q81A 119 1.54e+01 1g71A 347 1.54e+01 1g71A d.264.1.1 43268 2hyvA 308 1.60e+01 2a8lA 420 1.63e+01 1u7bA 261 1.64e+01 d.131.1.2 113083 d.131.1.2 113084 2gaeA 346 1.64e+01 1w44A 331 1.66e+01 c.37.1.11 114147 2q04A 211 1.69e+01 2nx9A 464 1.71e+01 3cblA 377 1.71e+01 2hgcA 102 1.73e+01 1svdM 110 1.76e+01 d.73.1.1 119059 2a6mA 155 1.77e+01 d.58.57.1 126287 2qr6A 393 1.82e+01 2h5nA 133 1.84e+01 2pd8A 149 1.86e+01 1pz7A 204 1.86e+01 b.29.1.4 95405 1y1oA 203 1.87e+01 c.52.1.28 116345 1rkuA 206 1.94e+01 c.108.1.11 97627 1ev0A 58 1.99e+01 1ev0A d.71.1.1 39594 2atrA 138 1.99e+01 d.108.1.1 127305 2p2sA 336 2.01e+01 1jr3A 373 2.03e+01 a.80.1.1 63245 c.37.1.20 63246 2c5uA 375 2.05e+01 2qmaA 497 2.08e+01 3c6kA 381 2.09e+01 2qfmA 364 2.09e+01 1py5A 326 2.15e+01 d.144.1.7 104389 2ou6A 190 2.18e+01 3b42A 135 2.22e+01 2vgdA 218 2.27e+01 1yj7A 171 2.31e+01 2vfjA 366 2.33e+01 1twdA 256 2.33e+01 c.1.30.1 107397 1we0A 187 2.35e+01 c.47.1.10 120930 1rhcA 330 2.36e+01 c.1.16.3 97468 1b34A 119 2.38e+01 1d3bA b.38.1.1 24796 1nzjA 298 2.47e+01 c.26.1.1 92377 1qxoA 388 2.49e+01 d.258.1.1 96539 3canA 182 2.56e+01 1g0uE 234 2.57e+01 d.153.1.4 41950 2hx1A 284 2.57e+01 2v2gA 233 2.58e+01 3ladA 476 2.63e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 2d0oA 610 2.64e+01 c.8.6.1 131075 c.55.1.6 131076 c.55.1.6 131077 1jqgA 433 2.69e+01 c.56.5.1 71791 d.58.3.1 71792 2faoA 309 2.70e+01 3cloA 258 2.71e+01 2ghrA 302 2.72e+01 c.23.16.8 135208 1vjyA 303 2.72e+01 d.144.1.7 108633 9gafA 295 2.77e+01 1apyA d.153.1.5 42008 2q66A 525 2.77e+01 2j6vA 301 2.79e+01 1vs3A 249 2.83e+01 1ae9A 179 2.88e+01 1ae9A d.163.1.1 42153 1kv0A 66 2.91e+01 g.3.7.1 91040 1q1hA 110 2.92e+01 a.4.5.41 95580 1ir21 140 2.92e+01 1gk8I 140 2.94e+01 d.73.1.1 65242 1wdpA 495 2.95e+01 c.1.8.1 120907 2v79A 135 2.96e+01 1aerA 205 2.97e+01 1aerA d.166.1.1 42249 1w7bA 339 2.97e+01 a.65.1.1 114317 2pjsA 119 2.99e+01 1vliA 385 3.04e+01 b.85.1.1 108830 c.1.10.6 108831 1kvkA 395 3.04e+01 d.14.1.5 73060 d.58.26.3 73061 1v3hA 495 3.07e+01 c.1.8.1 108303 2mysB 166 3.10e+01 1wdcB a.39.1.5 17308 2i74A 189 3.14e+01 b.18.1.29 137100 1f7uA 607 3.15e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 2oajA 902 3.15e+01 1j31A 262 3.16e+01 d.160.1.2 90808 1klnA 605 3.17e+01 1xwl c.55.3.5 33693 e.8.1.1 42986 2au3A 407 3.19e+01 1fbnA 230 3.28e+01 1fbnA c.66.1.3 34181 1kwgA 645 3.29e+01 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 3bt3A 148 3.30e+01 2euiA 153 3.31e+01 d.108.1.1 132387 1x0pA 143 3.33e+01 d.58.10.2 121552 1zgdA 312 3.34e+01 2booA 247 3.34e+01 1uuqA 440 3.38e+01 c.1.8.3 100015 2hw2A 143 3.42e+01 1p4dA 330 3.45e+01 d.89.1.5 94101 1f7sA 139 3.51e+01 1cof d.109.1.2 40857 1bueA 265 3.51e+01 1btl e.3.1.1 42727 3c0fB 91 3.52e+01 2inpL 89 3.62e+01 1q2lA 939 3.62e+01 d.185.1.1 118731 d.185.1.1 118732 d.185.1.1 118733 d.185.1.1 118734 1sedA 117 3.63e+01 a.219.1.1 105449 2hjeA 221 3.63e+01 1byb 495 3.67e+01 1byb 2vdjA 301 3.68e+01 1zuyA 58 3.70e+01 2d4yA 463 3.72e+01 1g8sA 230 3.73e+01 c.66.1.3 90507 1bavA 309 3.74e+01 1aye c.56.5.1 33806 1s5lO 246 3.78e+01 2ofkA 183 3.79e+01 1v33A 366 3.80e+01 d.264.1.1 100278 5eau 548 3.85e+01 5eat 5eauA 548 3.85e+01 a.102.4.1 18851 a.128.1.3 19443 1f60A 458 3.86e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1mgqA 83 3.90e+01 b.38.1.1 79099 1w6uA 302 3.90e+01 c.2.1.2 114288 1crkA 380 3.94e+01 1qh4A a.83.1.1 18458 d.128.1.2 41193 1ygs 234 3.96e+01 1ygs 1ygsA 234 3.96e+01 b.26.1.1 23907 2e85A 159 3.96e+01 1b5pA 385 3.98e+01 c.67.1.1 90403