# 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 1i2kA 269 5.03e-01 e.17.1.1 90661 2i53A 258 5.69e-01 a.74.1.1 147505 a.74.1.1 147506 1e3dB 542 5.95e-01 1h2rL e.18.1.1 59189 2frvB 536 7.36e-01 1h2rL e.18.1.1 43291 1jlvA 209 1.18e+00 a.45.1.1 71729 c.47.1.5 71730 2fmyA 220 1.30e+00 1txvA 452 1.59e+00 2qmcA 377 1.60e+00 2vdrA 452 1.80e+00 1oltA 457 1.94e+00 c.1.28.2 93334 1et0A 269 2.00e+00 1et0A e.17.1.1 43289 1dzlA 505 2.68e+00 1dzlA b.121.6.1 23586 2nqoA 376 2.81e+00 d.153.1.6 138473 1h2aL 567 3.05e+00 1h2rL e.18.1.1 43299 1h2rL 534 3.48e+00 1h2rL e.18.1.1 43298 2acvA 463 3.55e+00 c.87.1.10 146047 1nf1A 333 4.10e+00 1nf1A a.116.1.2 19110 1tw9A 206 4.41e+00 a.45.1.1 107381 c.47.1.5 107382 1xeaA 323 4.59e+00 c.2.1.3 109572 d.81.1.5 109573 3do7A 296 4.76e+00 2zuvA 759 4.90e+00 1ypxA 375 5.64e+00 1frvB 536 5.68e+00 1h2rL e.18.1.1 43296 1wuiL 534 5.76e+00 e.18.1.1 121289 1ubkL 534 5.91e+00 e.18.1.1 88422 3bevA 274 6.18e+00 2yzsA 315 6.75e+00 2kuaA 170 6.82e+00 3eh2A 766 7.36e+00 2o4vA 411 7.41e+00 3abaA 403 7.43e+00 2db0A 253 7.80e+00 2i5iA 263 8.56e+00 c.6.2.8 147514 1pujA 282 8.96e+00 c.37.1.8 88294 1ez4A 318 9.21e+00 c.2.1.5 64917 d.162.1.1 64918 2ijmA 281 9.59e+00 d.144.1.7 147714 1dcoA 104 9.87e+00 1dcpA d.74.1.1 39680 1gqiA 708 1.01e+01 c.1.8.10 76279 d.92.2.2 76280 3bxjA 507 1.02e+01 1wozA 177 1.05e+01 2a8aA 439 1.06e+01 1xiwB 79 1.06e+01 b.1.1.4 115368 2a97A 439 1.09e+01 1sgoA 139 1.11e+01 d.82.3.1 98857 3kucB 81 1.19e+01 2px2A 269 1.21e+01 2p4dA 172 1.27e+01 3e5jA 403 1.28e+01 1t8hA 277 1.29e+01 d.194.1.2 106664 3gy9A 150 1.32e+01 3gthA 337 1.41e+01 1pg4A 652 1.42e+01 e.23.1.1 88067 1ru0A 105 1.44e+01 d.74.1.1 111937 2rfvA 398 1.46e+01 2pm7A 399 1.47e+01 2wk6A 482 1.48e+01 1y4iA 398 1.52e+01 c.67.1.3 122619 3h3xQ 549 1.53e+01 2e56A 144 1.55e+01 1iknA 286 1.62e+01 1a3qA b.1.18.1 21936 b.2.5.3 22449 3gtxA 339 1.67e+01 2z4tA 514 1.77e+01 1qvtA 194 1.78e+01 a.4.1.9 104602 a.121.1.1 104603 1tit 98 1.80e+01 1tit 2jesA 503 1.82e+01 1guaB 81 1.84e+01 1c1yB d.15.1.5 37619 2qklA 127 1.86e+01 3btiA 188 1.89e+01 a.4.1.9 155566 a.121.1.1 155567 1jt6A 188 1.89e+01 a.4.1.9 67247 a.121.1.1 67248 1qupA 222 1.94e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 3fdhA 499 1.99e+01 3ilhA 146 2.12e+01 1ah7 245 2.13e+01 1ah7 1ah7A 245 2.13e+01 a.124.1.1 19339 3gtfA 337 2.15e+01 3dclA 284 2.16e+01 3gtiA 337 2.17e+01 1u55A 188 2.18e+01 d.278.1.1 107677 2phjA 251 2.19e+01 3gmeA 549 2.22e+01 3g87A 394 2.23e+01 1p49A 562 2.37e+01 c.76.1.2 94089 1yviA 149 2.38e+01 a.24.10.2 124099 1aym1 285 2.40e+01 1aym1 2igvA 173 2.41e+01 b.62.1.1 147667 2q4fA 149 2.42e+01 a.24.10.2 139847 2x2dB 165 2.42e+01 1edg 380 2.46e+01 1edg 1edgA 380 2.46e+01 c.1.8.3 28807 3ir4A 218 2.47e+01 2b69A 343 2.47e+01 c.2.1.2 127974 3kudB 81 2.48e+01 3ipqA 283 2.51e+01 1tu7A 208 2.53e+01 a.45.1.1 112653 c.47.1.5 112654 1mp8A 281 2.55e+01 d.144.1.7 91384 3dnhA 258 2.56e+01 2x10A 545 2.60e+01 1yndA 165 2.62e+01 b.62.1.1 123721 3ksyA 1049 2.69e+01 2oerA 214 2.70e+01 2bemA 170 2.70e+01 b.1.18.2 116698 2zc1A 333 2.72e+01 3md7A 293 2.72e+01 1vppV 102 2.77e+01 1vpfA g.17.1.1 44753 3cc6A 281 2.80e+01 3k1qI 639 2.89e+01 3cdjA 559 2.95e+01 1a22B 238 3.03e+01 1axiB b.1.2.1 22003 b.1.2.1 22004 3lahA 188 3.10e+01 2w5yA 192 3.14e+01 3gu2A 336 3.15e+01 1nfiA 301 3.22e+01 1a3qA b.1.18.1 21942 b.2.5.3 22455 2es4D 332 3.22e+01 a.137.15.1 145122 1vkxA 273 3.24e+01 1a3qA b.1.18.1 21941 b.2.5.3 22454 2qugA 394 3.27e+01 2wqkA 251 3.29e+01 3exaA 322 3.33e+01 1rh2F 165 3.34e+01 1rh2F a.26.1.3 16898 1awqA 164 3.35e+01 2cpl b.62.1.1 27461 2gwdA 449 3.36e+01 1b26A 416 3.43e+01 1hwyA c.2.1.7 30232 c.58.1.1 33880 2raaA 204 3.46e+01 1ydxA 406 3.54e+01 d.287.1.2 123004 d.287.1.2 123005 3k0mA 165 3.55e+01 1ldnA 316 3.62e+01 1hyhA c.2.1.5 30166 d.162.1.1 42133 3br2A 194 3.65e+01 1uouA 474 3.66e+01 a.46.2.1 99706 c.27.1.1 99707 d.41.3.1 99708 3pga1 337 3.68e+01 4pgaA 1sb2A 133 3.71e+01 d.169.1.1 118927 1waaA 93 3.73e+01 1c1yB 77 3.75e+01 1c1yB d.15.1.5 37618 1awsA 164 3.76e+01 2cpl b.62.1.1 27431 3hf2A 482 3.76e+01 3canA 182 3.85e+01 3gu1A 337 3.88e+01 3dliA 240 3.88e+01 1amuA 563 3.90e+01 1amuA e.23.1.1 43351