# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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 3h3lA 241 3.26e-33 3hbkA 245 8.64e-33 3immA 201 2.23e-25 2a6zA 222 6.75e-05 b.29.1.13 126319 1epwA 1290 1.13e-03 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1oq1A 223 1.68e-03 b.29.1.17 93408 1gv9A 260 4.74e-02 b.29.1.13 70596 1qu0A 191 6.95e-02 1dykA b.29.1.4 24225 1mveA 243 1.28e-01 b.29.1.2 85140 1dykA 394 1.54e-01 1dykA b.29.1.4 24223 b.29.1.4 24224 2ayh 214 1.73e-01 1axkA 2ayhA 214 1.73e-01 b.29.1.2 24172 3ilfA 268 1.77e-01 1o4yA 288 1.77e-01 b.29.1.2 92473 2wxuA 370 2.60e-01 3hr9A 241 2.78e-01 2vu9A 444 2.99e-01 1dypA 271 3.12e-01 1dypA b.29.1.2 24185 1upsA 420 3.14e-01 b.29.1.2 113394 b.42.2.3 113395 1hdkA 141 3.42e-01 b.29.1.3 65807 1ca1 370 3.60e-01 1ca1 1ca1A 370 3.60e-01 a.124.1.1 19340 b.12.1.3 23648 1umzA 278 5.34e-01 b.29.1.2 99639 1lcl 142 5.38e-01 1lcl 2uwaA 274 5.95e-01 2hykA 245 6.02e-01 2r16A 182 6.53e-01 2erfA 209 7.25e-01 b.29.1.4 132287 3juuA 280 8.00e-01 1ux6A 350 8.13e-01 b.29.1.16 100145 g.75.1.1 100146 2vxrA 482 8.45e-01 1d2sA 170 8.67e-01 1d2sA b.29.1.4 24221 2a6vA 226 1.02e+00 b.29.1.13 126312 2zzjA 238 1.27e+00 1ooyA 481 1.31e+00 c.124.1.3 93388 c.124.1.2 93389 3b9cA 144 1.43e+00 3hmyA 450 1.49e+00 2zglA 167 1.60e+00 1wmxA 205 1.64e+00 b.18.1.24 109418 2wjrA 214 1.82e+00 1axkA 394 2.24e+00 1axkA b.29.1.2 24181 b.29.1.11 24315 3gneA 252 2.28e+00 2w68A 195 2.57e+00 2nv4A 147 2.67e+00 1f5fA 205 2.68e+00 1d2sA b.29.1.4 24222 1uaiA 224 2.68e+00 b.29.1.18 107761 1gwmA 153 2.77e+00 b.18.1.19 83348 2jd4A 383 2.92e+00 1diwA 441 2.94e+00 1a8d b.29.1.6 24264 b.42.4.2 25609 1cpnA 208 2.95e+00 b.29.1.2 24175 3etpA 187 3.12e+00 1ww7A 160 3.32e+00 1bucA 383 3.64e+00 3mdeA a.29.3.1 16590 e.6.1.1 42851 2fuqA 747 3.70e+00 1jhnA 424 3.95e+00 b.29.1.12 70060 b.104.1.1 66722 1kdkA 177 4.05e+00 b.29.1.4 72351 1khoA 370 4.08e+00 a.124.1.1 72489 b.12.1.3 72490 1vclA 432 4.10e+00 b.42.2.1 108498 b.42.2.1 108499 d.281.1.1 108500 1kit 757 4.18e+00 1kit 1rwhA 757 4.27e+00 a.102.3.2 97984 b.24.1.1 97985 b.30.5.2 97986 1a8d 452 4.29e+00 1a8d 1a8dA 452 4.29e+00 b.29.1.6 24262 b.42.4.2 25607 1d0hA 469 4.33e+00 1a8d b.29.1.6 24265 b.42.4.2 25610 1qw1A 121 4.43e+00 b.34.1.2 145772 1fx5A 242 4.43e+00 1led b.29.1.1 24135 1mppA 361 4.53e+00 b.50.1.2 26856 2r0hA 164 4.55e+00 2c4xA 260 4.95e+00 1bymA 97 5.03e+00 1bi0 b.34.1.2 24458 1smdA 496 5.26e+00 b.71.1.1 27768 c.1.8.1 28755 1smd 496 5.26e+00 1smd 3iswA 99 5.34e+00 2v73A 191 5.44e+00 3dhpA 496 5.46e+00 b.71.1.1 157725 c.1.8.1 157726 2w0pA 94 5.48e+00 b.1.18.10 153738 1sq9A 397 5.57e+00 b.69.4.1 105889 2cwsA 237 5.82e+00 2yv8A 164 5.84e+00 1p9rA 418 5.87e+00 c.37.1.11 94399 1gbg 214 6.02e+00 1axkA 1gbgA 214 6.02e+00 b.29.1.2 24171 1d1rA 116 6.13e+00 1d1rA d.64.1.1 39548 3e7jA 749 6.98e+00 3hagA 504 7.62e+00 1yo8A 634 7.76e+00 1vjuA 309 7.95e+00 d.248.1.1 100835 1is3A 135 8.03e+00 b.29.1.3 76773 2h0bA 184 8.24e+00 3butA 136 8.40e+00 1f52A 468 8.58e+00 1lgr d.15.9.1 37839 d.128.1.1 41169 1zud1 251 8.83e+00 1gnyA 153 9.05e+00 b.18.1.11 65404 2brqA 97 9.31e+00 b.1.18.10 129008 2zhnA 148 9.52e+00 2d93A 134 9.87e+00 1rhfA 182 1.00e+01 b.1.1.1 97469 b.1.1.4 97470 1xaoA 121 1.01e+01 1e87A 118 1.07e+01 1b6e d.169.1.1 42327 2f99A 153 1.08e+01 d.17.4.9 147011 3ecqA 1531 1.13e+01 2nw2B 243 1.14e+01 3c8xA 206 1.14e+01 1erjA 393 1.17e+01 1erjA b.69.4.1 27660 2uurA 245 1.21e+01 1gwyA 175 1.21e+01 b.97.1.1 83356 1h3iA 293 1.22e+01 b.76.2.1 76635 b.85.7.1 76636 1qlgA 355 1.23e+01 1qlgA b.68.3.1 27627 1ajoA 214 1.27e+01 1axkA b.29.1.2 24179 1y4wA 518 1.28e+01 b.29.1.19 116470 b.67.2.3 116471 2ealA 148 1.30e+01 2pooA 355 1.31e+01 1qlgA b.68.3.1 27626 1dg6A 191 1.34e+01 1d4vB b.22.1.1 23883 2k46A 190 1.41e+01 1avaA 403 1.43e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1amy 403 1.44e+01 1jdc 2as9A 210 1.45e+01 3gsnB 243 1.46e+01 3hupA 130 1.51e+01 2dfuA 264 1.55e+01 2adgA 214 1.56e+01 1b7aA 186 1.56e+01 1a44 b.17.1.1 23705 2wd6A 349 1.56e+01 2wo1A 185 1.57e+01 2w39A 298 1.59e+01 2z5wA 136 1.59e+01 2jbrA 422 1.61e+01 2cl2A 298 1.65e+01 3ejaA 208 1.67e+01 1pvc1 301 1.70e+01 1pov1 1f3rB 257 1.73e+01 1f3rB b.1.1.1 20417 b.1.1.1 20416 1a4kA 217 1.82e+01 8fabA b.1.1.1 20236 b.1.1.2 21248 1w0pA 781 1.85e+01 b.29.1.8 109038 b.29.1.8 109039 b.68.1.1 109040 1uuzA 137 1.96e+01 d.233.1.1 100024 1guiA 155 1.98e+01 b.18.1.14 76351 2oyzA 94 2.01e+01 b.82.1.22 149082 3l9yA 154 2.03e+01 3ij8A 496 2.04e+01 1h80A 464 2.15e+01 b.80.1.8 65714 2vy0A 264 2.15e+01 3db5A 151 2.21e+01 2iqyA 190 2.21e+01 1rw7A 243 2.24e+01 c.23.16.2 97963 3ei3A 1158 2.27e+01 1mpuA 138 2.28e+01 d.169.1.1 85040 1behA 187 2.35e+01 1a44 b.17.1.1 23700 2d6mA 159 2.38e+01 2iyeA 263 2.38e+01 2jdiA 510 2.40e+01 a.69.1.1 145683 b.49.1.1 145684 c.37.1.11 145685 1wckA 220 2.42e+01 2vjxA 846 2.42e+01 b.1.4.1 153203 b.1.4.1 153204 b.1.4.1 153205 b.18.1.5 153206 c.1.8.3 153207 1yewA 382 2.48e+01 1u4cA 349 2.53e+01 b.69.4.2 107666 3fokA 307 2.55e+01 3gqnA 772 2.56e+01 3l4yA 875 2.58e+01 2c3gA 98 2.58e+01 1iktA 120 2.58e+01 d.106.1.1 66188 2eiyA 308 2.59e+01 1wrvA 308 2.59e+01 1axtL 216 2.59e+01 8fabA b.1.1.1 20304 b.1.1.2 21296 1upiA 225 2.60e+01 b.82.1.1 99757 2qmjA 870 2.61e+01 2wl7A 102 2.65e+01 1ajkA 214 2.68e+01 1axkA b.29.1.2 24176 2vphA 100 2.76e+01 3e9tA 114 2.76e+01 3cihA 739 2.77e+01 1xwnA 174 2.78e+01 b.62.1.1 122404 1f97A 212 2.79e+01 1f97A b.1.1.1 19763 b.1.1.4 21764 2okcA 445 2.81e+01 c.66.1.45 148801 1qvzA 237 2.83e+01 c.23.16.2 96453 1ky9A 448 2.83e+01 b.36.1.4 73198 b.47.1.1 73199 1h6lA 353 2.87e+01 b.68.3.1 60687 1bd2D 204 3.02e+01 1tcrA b.1.1.1 20622 b.1.1.2 21557 2kt7A 102 3.08e+01 2oztA 332 3.11e+01 2zzqA 552 3.12e+01 3flpA 217 3.12e+01 3f59A 161 3.13e+01 3bp5A 117 3.16e+01 b.1.1.1 155462 1h4gA 207 3.17e+01 b.29.1.11 70863 2oqeA 660 3.17e+01 b.30.2.1 139222 d.17.2.1 139223 d.17.2.1 139224 1ncwL 219 3.25e+01 b.1.1.1 85557 b.1.1.2 85558 1dbhA 354 3.28e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1b2iA 83 3.34e+01 5hpgA g.14.1.1 44640 3f3fA 351 3.35e+01 1ikpA 613 3.36e+01 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1lf6A 684 3.39e+01 a.102.1.5 77918 b.30.5.5 77919 1k3iA 656 3.39e+01 b.1.18.2 68113 b.18.1.1 68114 b.69.1.1 68115 2ookA 127 3.40e+01 c.13.2.2 148930 1bhgA 613 3.40e+01 1bhgA b.1.4.1 22161 b.18.1.5 23766 c.1.8.3 28889 2durA 253 3.47e+01 1bkzA 135 3.49e+01 1a3k b.29.1.3 24202 2x10A 545 3.51e+01 2x7kA 166 3.54e+01 1nukA 183 3.56e+01 1nukA b.18.1.4 23721 3gnmL 219 3.61e+01 1fm5A 199 3.65e+01 1fm5A d.169.1.1 42330 3kz4C 397 3.67e+01 2jjqA 425 3.70e+01 3bp6A 117 3.75e+01 1yh2A 175 3.75e+01 d.20.1.1 123158 3bikB 134 3.77e+01 b.1.1.1 155309 1q87A 221 3.79e+01 e.47.1.1 96192 1shwB 181 3.83e+01 b.18.1.4 105563 1qhdA 398 3.88e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 3gzuC 397 3.92e+01 3gq8A 609 3.95e+01 1j1lA 290 3.98e+01 b.82.1.12 90766