# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1i2kA 269 7.48e-01 e.17.1.1 90661 2i53A 258 8.46e-01 a.74.1.1,a.74.1.1 147505,147506 1e3dB 542 8.85e-01 1h2rL e.18.1.1 59189 2frvB 536 1.09e+00 1h2rL e.18.1.1 43291 1jlvA 209 1.76e+00 a.45.1.1,c.47.1.5 71729,71730 2fmyA 220 1.93e+00 1txvA 452 2.37e+00 2qmcA 377 2.38e+00 2vdrA 452 2.67e+00 1oltA 457 2.88e+00 c.1.28.2 93334 1et0A 269 2.98e+00 1et0A e.17.1.1 43289 1dzlA 505 3.99e+00 1dzlA b.121.6.1 23586 2nqoA 376 4.18e+00 d.153.1.6 138473 1h2aL 567 4.53e+00 1h2rL e.18.1.1 43299 1h2rL 534 5.17e+00 1h2rL e.18.1.1 43298 2acvA 463 5.28e+00 c.87.1.10 146047 1nf1A 333 6.10e+00 1nf1A a.116.1.2 19110 1tw9A 206 6.56e+00 a.45.1.1,c.47.1.5 107381,107382 1xeaA 323 6.83e+00 c.2.1.3,d.81.1.5 109572,109573 3do7A 296 7.08e+00 2zuvA 759 7.29e+00 1ypxA 375 8.39e+00 1frvB 536 8.44e+00 1h2rL e.18.1.1 43296 1wuiL 534 8.56e+00 e.18.1.1 121289 1ubkL 534 8.78e+00 e.18.1.1 88422 3bevA 274 9.19e+00 2yzsA 315 1.00e+01 2kuaA 170 1.01e+01 3eh2A 766 1.09e+01 2o4vA 411 1.10e+01 3abaA 403 1.11e+01 2db0A 253 1.16e+01 2i5iA 263 1.27e+01 c.6.2.8 147514 1pujA 282 1.33e+01 c.37.1.8 88294 1ez4A 318 1.37e+01 c.2.1.5,d.162.1.1 64917,64918 2ijmA 281 1.43e+01 d.144.1.7 147714 1dcoA 104 1.47e+01 1dcpA d.74.1.1 39680 1gqiA 708 1.51e+01 c.1.8.10,d.92.2.2 76279,76280 3bxjA 507 1.52e+01 1wozA 177 1.56e+01 2a8aA 439 1.57e+01 1xiwB 79 1.58e+01 b.1.1.4 115368 2a97A 439 1.62e+01 1sgoA 139 1.65e+01 d.82.3.1 98857 3kucB 81 1.77e+01 2px2A 269 1.80e+01 2p4dA 172 1.89e+01 3e5jA 403 1.91e+01 1t8hA 277 1.92e+01 d.194.1.2 106664 3gy9A 150 1.96e+01 3gthA 337 2.10e+01 1pg4A 652 2.11e+01 e.23.1.1 88067 1ru0A 105 2.14e+01 d.74.1.1 111937 2rfvA 398 2.17e+01 2pm7A 399 2.19e+01 2wk6A 482 2.21e+01 1y4iA 398 2.26e+01 c.67.1.3 122619 3h3xQ 549 2.27e+01 2e56A 144 2.30e+01 1iknA 286 2.40e+01 1a3qA b.1.18.1,b.2.5.3 21936,22449 3gtxA 339 2.48e+01 2z4tA 514 2.63e+01 1qvtA 194 2.65e+01 a.4.1.9,a.121.1.1 104602,104603 1tit 98 2.68e+01 1tit 2jesA 503 2.70e+01 1guaB 81 2.74e+01 1c1yB d.15.1.5 37619 2qklA 127 2.76e+01 3btiA 188 2.81e+01 a.4.1.9,a.121.1.1 155566,155567 1jt6A 188 2.82e+01 a.4.1.9,a.121.1.1 67247,67248 1qupA 222 2.88e+01 1qupA b.1.8.1,d.58.17.1 22301,39352 3fdhA 499 2.96e+01 3ilhA 146 3.16e+01 1ah7 245 3.16e+01 1ah7 1ah7A 245 3.16e+01 a.124.1.1 19339 3gtfA 337 3.20e+01 3dclA 284 3.21e+01 3gtiA 337 3.22e+01 1u55A 188 3.24e+01 d.278.1.1 107677 2phjA 251 3.25e+01 3gmeA 549 3.31e+01 3g87A 394 3.31e+01 1p49A 562 3.53e+01 c.76.1.2 94089 1yviA 149 3.53e+01 a.24.10.2 124099 1aym1 285 3.56e+01 1aym1 2igvA 173 3.58e+01 b.62.1.1 147667 2q4fA 149 3.60e+01 a.24.10.2 139847 2x2dB 165 3.60e+01 1edg 380 3.65e+01 1edg 1edgA 380 3.65e+01 c.1.8.3 28807 3ir4A 218 3.67e+01 2b69A 343 3.68e+01 c.2.1.2 127974 3kudB 81 3.68e+01 3ipqA 283 3.74e+01 1tu7A 208 3.77e+01 a.45.1.1,c.47.1.5 112653,112654 1mp8A 281 3.79e+01 d.144.1.7 91384 3dnhA 258 3.80e+01 2x10A 545 3.87e+01 1yndA 165 3.89e+01 b.62.1.1 123721 3ksyA 1049 4.00e+01 2oerA 214 4.01e+01 2bemA 170 4.02e+01 b.1.18.2 116698 2zc1A 333 4.04e+01 3md7A 293 4.05e+01 1vppV 102 4.11e+01 1vpfA g.17.1.1 44753 3cc6A 281 4.17e+01 3k1qI 639 4.29e+01 3cdjA 559 4.39e+01 1a22B 238 4.51e+01 1axiB b.1.2.1,b.1.2.1 22003,22004 3lahA 188 4.62e+01 2w5yA 192 4.66e+01 3gu2A 336 4.68e+01 1nfiA 301 4.79e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 2es4D 332 4.79e+01 a.137.15.1 145122 1vkxA 273 4.82e+01 1a3qA b.1.18.1,b.2.5.3 21941,22454 2qugA 394 4.86e+01 2wqkA 251 4.88e+01 3exaA 322 4.95e+01 1rh2F 165 4.96e+01 1rh2F a.26.1.3 16898 1awqA 164 4.99e+01 2cpl b.62.1.1 27461 2gwdA 449 4.99e+01 1b26A 416 5.09e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 2raaA 204 5.14e+01 1ydxA 406 5.27e+01 d.287.1.2,d.287.1.2 123004,123005 3k0mA 165 5.28e+01 1ldnA 316 5.38e+01 1hyhA c.2.1.5,d.162.1.1 30166,42133 3br2A 194 5.42e+01 1uouA 474 5.44e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 3pga1 337 5.47e+01 4pgaA 1sb2A 133 5.51e+01 d.169.1.1 118927 1waaA 93 5.55e+01 1c1yB 77 5.57e+01 1c1yB d.15.1.5 37618 1awsA 164 5.59e+01 2cpl b.62.1.1 27431 3hf2A 482 5.60e+01 3canA 182 5.73e+01 3gu1A 337 5.77e+01 3dliA 240 5.78e+01 1amuA 563 5.79e+01 1amuA e.23.1.1 43351 1jbjA 186 5.96e+01 b.1.1.4,b.1.1.4 66482,66483 3glkA 540 5.99e+01 3bqzA 194 6.08e+01 2wlwA 165 6.17e+01 3kyjA 144 6.19e+01 1w0hA 204 6.24e+01 c.55.3.5 114064 3cuzA 532 6.28e+01 2fikA 287 6.32e+01 b.1.1.2,d.19.1.1 133524,133525 2dktA 143 6.40e+01 g.89.1.1,g.93.1.1 146537,146538 3dkbA 390 6.42e+01 1y97A 238 6.42e+01 c.55.3.5 122773 3gu9A 331 6.46e+01 2j22A 148 6.48e+01 3htwA 328 6.51e+01 1xqoA 256 6.55e+01 a.96.1.6 115853 2aclB 244 6.83e+01 a.123.1.1 144801 1rrmA 386 6.85e+01 e.22.1.2 105081 3c9uA 342 6.86e+01 d.79.4.1,d.139.1.1 156144,156145 2hb5A 164 6.92e+01 2vgaA 207 6.94e+01 3m9vA 439 7.12e+01 3cm3A 176 7.14e+01 2hujA 140 7.15e+01 a.24.26.1 136777 3br5A 194 7.19e+01 1awe 130 7.19e+01 1awe 3fdkA 323 7.20e+01 1p27B 106 7.35e+01 d.58.7.1 93908 2bvlA 543 7.39e+01 c.68.1.22 146219 1kcw 1046 7.44e+01 1kcw 1kcwA 1046 7.44e+01 b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3,b.6.1.3 23151,23152,23153,23154,23155,23156 2oyrA 258 7.45e+01 c.66.1.55 149078 3br3A 194 7.45e+01 3b4rA 224 7.48e+01 3gw9A 450 7.51e+01 3eyxA 216 7.52e+01 3bk2A 562 7.57e+01 2k5gA 191 7.62e+01 d.129.3.5 148273 1wirA 121 7.74e+01 g.37.1.5 114679 2akrA 285 7.78e+01 b.1.1.2,d.19.1.1 126931,126932 1we9A 64 7.88e+01 g.50.1.2 114549 2hxpA 155 7.91e+01