# List of top-scoring protein chains for t04-100-30-alpha-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 1dzlA 505 1.37e-01 1dzlA b.121.6.1 23586 1jlvA 209 5.43e-01 a.45.1.1,c.47.1.5 71729,71730 1e3dB 542 9.89e-01 1h2rL e.18.1.1 59189 2pm7A 399 2.58e+00 2px2A 269 2.65e+00 2fxqA 264 3.43e+00 1wuiL 534 3.57e+00 e.18.1.1 121289 1ubkL 534 3.62e+00 e.18.1.1 88422 1yymG 313 3.77e+00 d.172.1.1 124232 2b5lC 222 4.32e+00 2o4vA 411 4.48e+00 2x10A 545 4.62e+00 2zuvA 759 4.69e+00 1ez4A 318 5.06e+00 c.2.1.5,d.162.1.1 64917,64918 2h6rA 219 5.08e+00 1dcoA 104 5.30e+00 1dcpA d.74.1.1 39680 3gtxA 339 5.31e+00 1h2rL 534 5.96e+00 1h2rL e.18.1.1 43298 3gu9A 331 6.11e+00 1ockA 412 6.28e+00 c.117.1.1 86802 1jt6A 188 6.37e+00 a.4.1.9,a.121.1.1 67247,67248 3gthA 337 6.38e+00 2p4dA 172 6.69e+00 3f1tA 148 6.74e+00 1qvtA 194 6.87e+00 a.4.1.9,a.121.1.1 104602,104603 3lahA 188 7.03e+00 2gwgA 350 7.11e+00 c.1.9.15 135805 1oltA 457 7.14e+00 c.1.28.2 93334 1ru0A 105 7.29e+00 d.74.1.1 111937 2koeA 40 7.48e+00 3gocA 237 7.85e+00 3d0oA 317 8.16e+00 2fmyA 220 8.43e+00 2zc1A 333 8.53e+00 3lqaG 332 8.66e+00 3gtfA 337 8.67e+00 3h3xQ 549 8.78e+00 1txvA 452 9.40e+00 3kudB 81 9.78e+00 3bqzA 194 9.82e+00 3br2A 194 9.99e+00 3hqfA 181 1.02e+01 1u55A 188 1.06e+01 d.278.1.1 107677 3htwA 328 1.06e+01 2hb5A 164 1.12e+01 3ir4A 218 1.15e+01 2nqoA 376 1.16e+01 d.153.1.6 138473 3gu1A 337 1.18e+01 1waaA 93 1.20e+01 3ijdA 315 1.21e+01 3dnhA 258 1.24e+01 1dvpA 220 1.26e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 3fdkA 323 1.27e+01 2vdrA 452 1.36e+01 2qmcA 377 1.37e+01 2vj4A 294 1.37e+01 3gtiA 337 1.40e+01 2au3A 407 1.41e+01 3br5A 194 1.46e+01 1ypxA 375 1.49e+01 3btiA 188 1.51e+01 a.4.1.9,a.121.1.1 155566,155567 2z4tA 514 1.51e+01 1ah7 245 1.54e+01 1ah7 1ah7A 245 1.54e+01 a.124.1.1 19339 3cuzA 532 1.54e+01 2ewdA 317 1.57e+01 1tit 98 1.68e+01 1tit 2f9cA 334 1.68e+01 b.81.1.7 133158 2vu9A 444 1.72e+01 3br3A 194 1.73e+01 2p39A 155 1.77e+01 2pigA 334 1.78e+01 1nscA 390 1.80e+01 2qwc b.68.1.1 27591 2gvkA 317 1.80e+01 d.58.4.14 135782 3gy9A 150 1.82e+01 2b69A 343 1.87e+01 c.2.1.2 127974 3ezzA 144 1.96e+01 2kigA 161 1.97e+01 3ksyA 1049 2.00e+01 2eknA 159 2.02e+01 2ob9A 130 2.05e+01 3eheA 313 2.08e+01 1wozA 177 2.13e+01 3kucB 81 2.14e+01 1mkkA 96 2.15e+01 g.17.1.1 79240 1g7oA 215 2.18e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 3g4eA 297 2.19e+01 3dn7A 194 2.19e+01 3ipqA 283 2.24e+01 1zg2A 107 2.28e+01 2bvlA 543 2.30e+01 c.68.1.22 146219 2p5mA 83 2.31e+01 d.74.2.1 149254 3dzvA 273 2.39e+01 1i7nA 309 2.40e+01 c.30.1.5,d.142.1.3 83681,83682 2f6sA 201 2.43e+01 a.265.1.1 133058 2oerA 214 2.45e+01 3gu2A 336 2.52e+01 1na6A 404 2.55e+01 b.142.1.1,c.52.1.22 91748,91749 1mxrA 375 2.58e+01 a.25.1.2 85197 1amuA 563 2.70e+01 1amuA e.23.1.1 43351 1dbhA 354 2.79e+01 1awe a.87.1.1,b.55.1.1 18514,26967 1xikA 375 2.86e+01 1xikA a.25.1.2 16784 1e0tA 470 2.92e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xk4C 113 3.01e+01 a.39.1.2 122057 3mmiA 386 3.06e+01 3b4rA 224 3.16e+01 3d4pA 317 3.28e+01 2ajrA 331 3.29e+01 c.72.1.1 126892 3i3uA 112 3.39e+01 1fltV 98 3.39e+01 1vpfA g.17.1.1 44751 3cm3A 176 3.39e+01 3fc6B 266 3.42e+01 3abbA 408 3.49e+01 1wxiA 275 3.50e+01 c.26.2.1 121400 3cp8A 641 3.56e+01 1auvA 311 3.63e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 2ny1A 317 3.67e+01 d.172.1.1 145703 2aclB 244 3.68e+01 a.123.1.1 144801 1yrbA 262 3.69e+01 c.37.1.10 123915 1ux5A 411 3.74e+01 a.207.1.1 100144 1c3pA 375 3.74e+01 1c3pA c.42.1.2 32606 1bfd 528 3.75e+01 1bfd 3gmeA 549 3.76e+01 2gtlM 217 3.86e+01 b.61.7.1,g.12.1.1,h.1.32.1 135667,135668,135669 2k9hA 57 3.89e+01 1q6zA 528 4.04e+01 c.31.1.3,c.36.1.5,c.36.1.9 111655,111656,111657 1tw9A 206 4.13e+01 a.45.1.1,c.47.1.5 107381,107382 2fnaA 357 4.24e+01 a.4.5.11,c.37.1.20 133809,133810 2a97A 439 4.26e+01 1rzjG 321 4.30e+01 d.172.1.1 98200 1t4wA 196 4.32e+01 b.2.5.2 106427 3e5jA 403 4.33e+01 2wg4A 155 4.43e+01 1u36A 106 4.45e+01 b.1.18.1 107635 3c9uA 342 4.47e+01 d.79.4.1,d.139.1.1 156144,156145 3jq0A 493 4.48e+01 2otuA 115 4.48e+01 3do7A 296 4.52e+01 1vqvA 306 4.53e+01 d.79.4.1,d.139.1.1 114024,114025 3h08A 146 4.54e+01 2hqyA 305 4.58e+01 d.108.1.4,d.108.1.4 147365,147366 2j5gA 263 4.63e+01 1b9bA 255 4.64e+01 1amk c.1.1.1 28531 3hv0A 393 4.64e+01 3hzuA 318 4.68e+01 1w53A 84 4.69e+01 a.186.1.2 109175 2a6pA 208 4.83e+01 1v5dA 386 4.91e+01 a.102.1.2 113537 1u7gA 385 4.98e+01 f.44.1.1 107723 1p1jA 533 5.00e+01 c.2.1.3,d.81.1.3 87687,87688 1r6lA 239 5.02e+01 d.14.1.4,d.101.1.1 97153,97154 1r29A 127 5.10e+01 d.42.1.1 96856 3fdhA 499 5.11e+01 2ac7A 235 5.12e+01 c.56.2.1 126543 1ha1 184 5.21e+01 1ha1 2g7bA 137 5.24e+01 3ituA 345 5.26e+01 3bevA 274 5.29e+01 1ta0A 197 5.36e+01 c.108.1.16 106729 2gvhA 288 5.41e+01 d.38.1.1,d.38.1.1 135776,135777 1ddzA 496 5.45e+01 1ddzA c.53.2.1,c.53.2.1 33372,33373 2qtwB 546 5.45e+01 2inpA 494 5.50e+01 1xiwB 79 5.55e+01 b.1.1.4 115368 1wtaA 275 5.61e+01 1xhkA 187 5.78e+01 d.14.1.10 115299 2i53A 258 5.78e+01 a.74.1.1,a.74.1.1 147505,147506 1im5A 180 5.85e+01 c.33.1.3 66211 2q4fA 149 5.88e+01 a.24.10.2 139847 5cytR 104 5.95e+01 1ycc a.3.1.1 15878 1ivnA 190 5.95e+01 c.23.10.5 83719 3bp1A 290 6.01e+01 3khdA 520 6.07e+01 3dtrL 281 6.08e+01 2ccyA 128 6.13e+01 2ccyA a.24.3.2 16544 1et0A 269 6.17e+01 1et0A e.17.1.1 43289 1ofcX 304 6.25e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2cjqA 720 6.26e+01 2vfjA 366 6.30e+01 1bg6 359 6.31e+01 1bg6 1bg6A 359 6.31e+01 a.100.1.5,c.2.1.6 18810,30214 2hjhA 354 6.34e+01 3duqL 281 6.39e+01 3jstA 97 6.42e+01 2e56A 144 6.44e+01 2i5iA 263 6.48e+01 c.6.2.8 147514 1gnlA 544 6.51e+01 e.26.1.1 70287 2d4rA 147 6.53e+01 d.129.3.6 131256 1nf8A 207 6.53e+01 c.33.1.3 85630 1yviA 149 6.71e+01 a.24.10.2 124099 3abaA 403 6.72e+01 3l60A 250 6.77e+01 2gwdA 449 6.82e+01 3mbdA 342 6.84e+01 3h0gK 123 6.89e+01 1xx7A 184 6.89e+01 a.211.1.1 116143 2hxpA 155 6.93e+01 2wlwA 165 6.94e+01 2w2eA 279 6.97e+01 2r5kA 424 6.97e+01 1z57A 339 7.02e+01 3hidA 432 7.05e+01 3lc3B 57 7.06e+01 1vkdA 338 7.08e+01 b.67.2.4 108644 2es4D 332 7.13e+01 a.137.15.1 145122 3k25A 289 7.13e+01 3g5lA 253 7.21e+01 3l0yA 184 7.23e+01 2pbxA 203 7.24e+01 1n7zA 334 7.27e+01 b.127.1.1 85380 3g87A 394 7.30e+01 2fs6A 137 7.30e+01 b.60.1.2 134005 2vdvE 246 7.44e+01 3dnsA 135 7.50e+01 3f7xA 151 7.59e+01 1ofwA 296 7.62e+01 a.138.1.1 92850 1t1uA 639 7.65e+01 c.43.1.3,c.43.1.3 119110,119111 3mbfA 342 7.68e+01 3govA 155 7.76e+01 1mq7A 154 7.79e+01 b.85.4.1 79404 1s48A 609 7.95e+01 e.8.1.4 98475 2hujA 140 7.99e+01 a.24.26.1 136777