# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-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.cse.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 2b06A 155 5.24e-01 1rypI 222 1.04e+00 d.153.1.4 41877 1zxxA 319 3.31e+00 1tjyA 316 3.81e+00 c.93.1.1 107062 1amuA 563 4.00e+00 1amuA e.23.1.1 43351 1fkmA 396 4.14e+00 1fkmA a.69.2.1,a.69.2.1 18315,18316 1ofdA 1520 4.29e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1z90A 469 5.35e+00 1vjoA 393 6.56e+00 c.67.1.3 100827 1wdjA 187 6.64e+00 1vquA 374 7.15e+00 1pbyB 337 8.04e+00 b.69.2.2 94422 1khtA 192 9.54e+00 c.37.1.1 84401 1jv1A 505 9.88e+00 c.68.1.5 71892 1ryp2 233 1.03e+01 1ryp2 1jmxB 349 1.27e+01 b.69.2.2 66906 3cox 507 1.31e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1vicA 262 1.33e+01 c.68.1.13 100756 1sl4A 155 1.42e+01 d.169.1.1 105710 2c78A 405 1.42e+01 1hnjA 317 1.51e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2f6rA 281 1.56e+01 1p6oA 161 1.56e+01 c.97.1.2 94185 1o50A 157 1.56e+01 d.37.1.1,d.37.1.1 92478,92479 1uasA 362 1.61e+01 b.71.1.1,c.1.8.1 88388,88389 1t2dA 322 1.69e+01 c.2.1.5,d.162.1.1 99084,99085 1jmsA 381 1.76e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1j5sA 463 1.76e+01 c.1.9.8 71580 1lm4A 194 1.77e+01 d.167.1.1 84626 2g9zA 348 1.83e+01 1j79A 347 1.97e+01 1j79A c.1.9.4 62675 1pswA 348 1.98e+01 c.87.1.7 88287 1pzgA 331 1.98e+01 c.2.1.5,d.162.1.1 95425,95426 1hjsA 332 1.99e+01 c.1.8.3 83492 2au3A 407 2.05e+01 1z94A 147 2.06e+01 1p1mA 406 2.08e+01 b.92.1.4,c.1.9.9 87696,87697 1u7nA 336 2.18e+01 c.77.1.4 107726 1hm9A 468 2.23e+01 b.81.1.4,c.68.1.5 65866,65867 1om4A 422 2.26e+01 d.174.1.1 87067 1u9iA 519 2.35e+01 1jubA 311 2.45e+01 c.1.4.1 90908 1li5A 461 2.47e+01 a.27.1.1,c.26.1.1 73912,73913 1pj5A 830 2.52e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1ayaA 101 2.55e+01 1qadA d.93.1.1 40460 1h0hA 977 2.69e+01 b.52.2.2,c.81.1.1 76435,76436 1frb 315 2.76e+01 1frb c.1.7.1 28665 1r9dA 787 2.88e+01 c.7.1.1 104865 1d0cA 444 2.89e+01 d.174.1.1 64769 1i1nA 226 2.90e+01 c.66.1.7 71102 1zowA 313 2.92e+01 1m22A 503 3.04e+01 c.117.1.1 78464 1u7eB 154 3.06e+01 2awfA 172 3.07e+01 1xr4A 509 3.09e+01 1wmzA 140 3.24e+01 d.169.1.1 109422 1k2xB 143 3.30e+01 1tbfA 347 3.31e+01 a.211.1.2 106743 1wzaA 488 3.31e+01 1g38A 393 3.40e+01 2admA c.66.1.27 60235 1xffA 240 3.41e+01 d.153.1.1 109580 1o0xA 262 3.42e+01 d.127.1.1 80755 1tv8A 340 3.42e+01 c.1.28.3 107352 1kfwA 435 3.46e+01 c.1.8.5,d.26.3.1 77376,77377 1zgdA 312 3.57e+01 2a5lA 200 3.59e+01 1xneA 113 3.63e+01 1ra0A 430 3.65e+01 1g31A 111 3.71e+01 1g31A b.35.1.1 24656 1wg8A 285 3.73e+01 1o6zA 303 3.75e+01 c.2.1.5,d.162.1.1 81107,81108 1tedA 393 3.75e+01 c.95.1.2 106807 1qwrA 319 3.78e+01 b.82.1.3 96491 1go4A 205 3.79e+01 d.135.1.1 70292 2a1kA 233 3.82e+01 1j96A 323 3.87e+01 c.1.7.1 71616 1zzmA 259 3.88e+01 1wsrA 375 3.90e+01 1edqA 540 3.91e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1wq3A 322 3.96e+01 2fctA 313 3.99e+01 1mngA 203 4.00e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1vjpA 394 4.07e+01 c.2.1.3,d.81.1.3 100828,100829 1sz2A 332 4.07e+01 1s0yA 76 4.13e+01 d.80.1.1 98314 1zm8A 259 4.15e+01 1yrrA 382 4.17e+01 1n7kA 234 4.23e+01 c.1.10.1 85374 1ykiA 217 4.28e+01 2awpA 198 4.40e+01 2aa4A 289 4.41e+01 1jtvA 327 4.48e+01 c.2.1.2 84230 1wznA 252 4.59e+01 1yleA 342 4.60e+01 1vjzA 341 4.81e+01 c.1.8.3 100838 1af7 274 4.83e+01 1af7 a.58.1.1,c.66.1.8 17928,34203 1qtnA 164 4.91e+01 1pauA c.17.1.1 30999 1m7vA 363 4.91e+01 d.174.1.1 78748 2a6hC 1119 4.93e+01 1dd9A 338 4.94e+01 1dd9A e.13.1.1 43254 2g03A 194 5.00e+01 1mdoA 393 5.03e+01 c.67.1.4 79013 1wosA 364 5.05e+01 b.44.2.1,d.250.1.1 109468,109469 1sr4C 166 5.09e+01 b.42.2.1 105950 1vqoE 178 5.31e+01 1ig0A 319 5.47e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1ym3A 215 5.50e+01 1molA 94 5.62e+01 1molA d.17.1.1 37988 1zc6A 305 5.70e+01 1rlzA 369 5.75e+01 c.31.1.1 104989 1fs5A 266 5.78e+01 c.124.1.1 65044 1oe1A 336 5.79e+01 b.6.1.3,b.6.1.3 86891,86892 2amhA 207 5.84e+01 1j2rA 199 5.84e+01 c.33.1.3 90788 1ev7A 317 5.84e+01 1ev7B c.52.1.9 33315 1fcqA 350 5.87e+01 c.1.8.9 65006 1xnzA 264 5.89e+01 1v0lA 313 5.91e+01 c.1.8.3 108207 1onwA 390 5.91e+01 b.92.1.7,c.1.9.13 87172,87173 1czaN 917 5.95e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1mhnA 59 5.97e+01 b.34.9.1 84964 1nmeA 146 6.00e+01 c.17.1.1 85874 1shuX 182 6.01e+01 c.62.1.1 98882 1gpc 218 6.06e+01 1gpc b.40.4.7 25393 1g6aA 271 6.15e+01 1btl e.3.1.1 42704 1d7uA 433 6.30e+01 2dkb c.67.1.4 34439 1j9lA 247 6.32e+01 c.106.1.1 62762 2fo3A 125 6.33e+01 1wwrA 171 6.42e+01 1gcyA 527 6.42e+01 1jdc b.71.1.1,c.1.8.1 27788,28775 2cvzA 289 6.48e+01 2fjbA 643 6.49e+01 2bw4A 340 6.52e+01 1dosA 358 6.55e+01 1dosA c.1.10.2 29175 1ksiA 642 6.61e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1dpjA 329 6.68e+01 1smrA b.50.1.2 26828 1rypH 205 6.69e+01 d.153.1.4 41876 2gq1A 332 6.70e+01 1jnrA 643 6.73e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1sw5B 275 6.76e+01 c.94.1.1 106070 1xn5A 146 6.78e+01 2gaiA 633 6.83e+01 1w0mA 226 6.84e+01 c.1.1.1 109027 1w32A 348 6.88e+01 1z8sA 146 6.99e+01 1jdc 429 7.01e+01 1jdc b.71.1.1,c.1.8.1 27789,28776 1whi 122 7.01e+01 1whi b.39.1.1 24810 1lrzA 426 7.01e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1te5A 257 7.02e+01 d.153.1.1 106795 2msbA 115 7.05e+01 1rtm1 d.169.1.1 42355 1f89A 291 7.13e+01 d.160.1.1 64988 2f2fC 186 7.14e+01 2apr 325 7.18e+01 2er7E b.50.1.2 26819 1sg6A 393 7.22e+01 e.22.1.1 105522 2c2aA 258 7.27e+01 1jndA 420 7.32e+01 c.1.8.5,d.26.3.1 71757,71758 1in4A 334 7.34e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1xzoA 174 7.37e+01 1bf6A 291 7.45e+01 1pscA c.1.9.3 29065 1zy9A 564 7.52e+01 1pbwA 216 7.54e+01 1pbwA a.116.1.1 19103 1fjhA 257 7.56e+01 1fjhB c.2.1.2 29870 1w44A 331 7.59e+01 2anuA 255 7.65e+01 1f2tA 149 7.71e+01 1f2tA c.37.1.12 32373 1i9gA 280 7.75e+01 c.66.1.13 62090 1ckmA 330 7.82e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1n4wA 504 7.85e+01 c.3.1.2,d.16.1.1 91676,91677 1sdjA 310 7.88e+01 d.21.1.2,d.21.1.2 98807,98808 1e5mA 416 7.88e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1fyeA 229 7.90e+01 1fyeA c.23.16.4 31477 1zlmA 58 7.92e+01 1lucA 355 8.03e+01 1lucA c.1.16.1 29547 1nni1 174 8.04e+01 1i1wA 303 8.09e+01 c.1.8.3 76732 1swxA 209 8.16e+01 a.224.1.1 106075 1bc5A 269 8.18e+01 1af7 a.58.1.1,c.66.1.8 17929,34204 1uesA 191 8.19e+01 a.2.11.1,d.44.1.1 107798,107799 7taa 478 8.26e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1p4kA 295 8.28e+01 d.153.1.5 87772 1ki9A 192 8.29e+01 c.37.1.1 84404 1xphA 150 8.30e+01 1vqoT 120 8.33e+01 2aboA 136 8.46e+01 1mxgA 435 8.53e+01 b.71.1.1,c.1.8.1 85193,85194 2g84A 197 8.58e+01 7odcA 424 8.64e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1wzlA 585 8.74e+01 1mkyA 439 8.78e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 3psg 370 8.81e+01 1smrA b.50.1.2 26841 2b4lA 268 8.84e+01 1qpcA 279 8.88e+01 1fgkA d.144.1.7 41685 1ruwA 69 8.93e+01 1iu4A 331 8.94e+01 d.3.1.8 71430 1gcvB 136 8.96e+01 1cg5B a.1.1.2 15589 1bli 483 8.98e+01 1bli b.71.1.1,c.1.8.1 27715,28702