# List of top-scoring protein chains for t04-100-30-n_sep-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 1ow4A 129 1.59e-01 a.39.2.1 93628 1jlwA 219 3.64e-01 a.45.1.1,c.47.1.5 71741,71742 1zcjA 463 4.12e-01 2c46A 241 4.55e-01 1i9sA 210 5.71e-01 1i9sA c.45.1.1 62099 1ym3A 215 9.49e-01 2a5vA 213 9.57e-01 2d0sA 79 1.51e+00 2fbqA 235 2.22e+00 1dmhA 311 2.64e+00 1dmhA b.3.6.1 22633 2clbA 188 3.28e+00 1zbsA 291 3.58e+00 1eexA 554 3.69e+00 1dioA c.1.19.3 29650 1ifqA 138 3.83e+00 1ifqA d.110.4.1 62350 1sfkA 76 4.62e+00 a.190.1.1 105488 1h3gA 601 5.92e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2cmwA 310 6.39e+00 1s1eA 224 6.73e+00 1sumB 235 6.82e+00 a.7.12.1 106025 1z67A 135 7.48e+00 1ysrA 150 7.86e+00 1u5uA 374 8.05e+00 1i9bA 217 8.49e+00 1i9bA b.96.1.1 62084 1babA 143 8.66e+00 1abwA a.1.1.2 15235 1irdA 141 8.67e+00 a.1.1.2 66286 1orvA 728 9.00e+00 b.70.3.1,c.69.1.24 87354,87355 1ojrA 274 9.59e+00 c.74.1.1 93147 2fha 183 9.92e+00 2fha a.25.1.1 16674 1ux2A 212 1.03e+01 b.96.1.1 100132 1cpq 129 1.31e+01 1cpq a.24.3.2 16556 1nt2A 210 1.32e+01 c.66.1.3 86149 1j7yA 141 1.35e+01 a.1.1.2 66426 1t1vA 93 1.36e+01 c.47.1.14 106278 1uw6A 211 1.44e+01 b.96.1.1 100079 1g8fA 511 1.48e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1m9xC 146 1.54e+01 a.73.1.1 84907 1khbA 625 1.58e+01 c.91.1.1,c.109.1.1 68606,68607 1tp6A 128 1.58e+01 d.17.4.12 107184 1d3gA 367 1.59e+01 1d3gA c.1.4.1 28600 1ua4A 455 1.69e+01 c.72.1.3 99128 1woyA 500 1.80e+01 1cmcA 104 1.82e+01 1cmbA a.43.1.5 17462 1a8h 500 1.89e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1hx1B 114 1.91e+01 1hx1B a.7.7.1 61350 1e0eA 55 1.93e+01 1wjcA a.4.10.1 59147 2azqA 311 1.98e+01 1r6xA 395 1.98e+01 b.122.1.3,c.26.1.5 97167,97168 1cmbA 104 2.00e+01 1cmbA a.43.1.5 17460 1ylmA 144 2.08e+01 2d2yA 145 2.09e+01 1xzoA 174 2.09e+01 1uv6A 210 2.17e+01 b.96.1.1 100030 1qsgA 265 2.23e+01 1eny c.2.1.2 29935 1zowA 313 2.26e+01 1hztA 190 2.38e+01 1i9aA d.113.1.2 61459 1gw5S 142 2.40e+01 d.110.4.2 70633 1puc 105 2.43e+01 1puc d.97.1.1 40675 1xmpA 170 2.52e+01 1djtA 64 2.56e+01 1aho g.3.7.1 44132 1fxxA 482 2.63e+01 1fxxA c.55.3.5 33726 1mun 225 2.82e+01 1mun a.96.1.2 18744 1dcqA 278 2.87e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 2a7kA 250 2.95e+01 1i7hA 111 2.96e+01 d.15.4.1 71122 2bsjA 133 3.03e+01 2bbeA 108 3.06e+01 1ckiA 317 3.07e+01 1csn d.144.1.7 41660 1x84A 189 3.15e+01 1ix9A 205 3.16e+01 a.2.11.1,d.44.1.1 76899,76900 1cxzB 86 3.22e+01 1cxzB a.2.6.1 15705 1uohA 226 3.32e+01 d.211.1.1 99690 1zmbA 290 3.32e+01 5reqA 727 3.34e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1v9sA 208 3.37e+01 1ypqA 135 3.42e+01 1fa0A 537 3.53e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 2a1xA 308 3.58e+01 1i0hA 205 3.58e+01 1avmA a.2.11.1,d.44.1.1 15760,38685 1e9mA 106 3.62e+01 1ayfA d.15.4.1 59397 1j0fA 100 3.67e+01 c.47.1.14 90739 1xw5A 217 3.76e+01 2b0mA 393 3.77e+01 1reqA 727 3.82e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1zr5A 214 3.91e+01 1oqyA 368 3.92e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1d4aA 273 3.95e+01 1d4aA c.23.5.3 31219 1o8vA 134 3.96e+01 b.60.1.2 86680 2herA 368 4.04e+01 1db1A 259 4.04e+01 1db1A a.123.1.1 19329 1yd9A 193 4.26e+01 1lswA 131 4.27e+01 d.110.3.2 78181 1dik 874 4.47e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1nd4A 264 4.53e+01 d.144.1.6 91815 1g8kB 133 4.54e+01 1g8jB b.33.1.1 24435 1n0qA 93 4.60e+01 k.37.1.1 79754 1g1eB 89 4.65e+01 1g1eB a.59.1.1 17931 2b0cA 206 4.68e+01 2ixiA 184 4.69e+01 2dhqA 146 4.70e+01 2dhqA c.23.13.1 31382 1qwgA 251 4.83e+01 c.1.27.1 96473 2btcI 29 4.97e+01 g.3.2.1 44070 2g2dA 193 4.98e+01 1xg1A 67 5.00e+01 1dhs 344 5.04e+01 1dhs c.31.1.1 31727 2gk9A 426 5.09e+01 2gupA 292 5.10e+01 2d5xA 141 5.10e+01 1b04A 318 5.11e+01 1b04A d.142.2.2 41579 1ofgA 381 5.15e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1s6cA 183 5.18e+01 a.39.1.5 98594 1iwhA 141 5.37e+01 a.1.1.2 76882 2c4jA 218 5.52e+01 1bbzA 58 5.59e+01 1bbzA b.34.2.1 24477 1zelA 298 5.59e+01 1yz1A 174 5.64e+01 2f4mB 61 5.71e+01 1x92A 199 5.74e+01 2d9bA 109 5.74e+01 1ijtA 128 5.88e+01 1bfg b.42.1.1 62510 1amuA 563 5.90e+01 1amuA e.23.1.1 43351 1k0mA 241 5.94e+01 a.45.1.1,c.47.1.5 67949,67950 1s8nA 205 5.94e+01 c.23.1.1 105374 2aa4A 289 5.96e+01 2bl2A 156 6.02e+01 1aboA 62 6.02e+01 1bbzA b.34.2.1 24474 1ykiA 217 6.03e+01 1sqhA 312 6.07e+01 d.108.1.5 98966 1ie9A 259 6.09e+01 1db1A a.123.1.1 62318 1r5zA 323 6.11e+01 f.40.1.1 97135 1xb2B 291 6.19e+01 2gasA 307 6.21e+01 1gtmA 419 6.52e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1t9iA 163 6.53e+01 1sd4A 126 6.56e+01 a.4.5.39 105428 1u3dA 509 6.57e+01 a.99.1.1,c.28.1.1 107638,107639 1g9zA 152 6.57e+01 1bp7A d.95.2.1 60408 1mwvA 714 6.63e+01 a.93.1.3,a.93.1.3 85161,85162 1umgA 362 6.64e+01 d.280.1.1 107956 1qbgA 272 6.68e+01 1d4aA c.23.5.3 31227 1xrtA 467 6.68e+01 1icrA 217 6.69e+01 1vfrA d.90.1.1 62274 1x1nA 524 6.75e+01 1ucpA 91 6.97e+01 a.77.1.5 99186 2f4qA 346 7.00e+01 1uh4A 637 7.01e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 2f8yA 223 7.17e+01 1z2nX 324 7.23e+01 1l5oA 356 7.23e+01 c.39.1.1 77711 1o57A 291 7.27e+01 a.4.5.40,c.61.1.1 92483,92484 2cohA 202 7.27e+01 1n00A 321 7.30e+01 a.65.1.1 85241 1xszA 356 7.32e+01 1uok 558 7.35e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1qw9A 502 7.45e+01 b.71.1.2,c.1.8.3 96466,96467 2a19B 284 7.53e+01 1q4gA 553 7.55e+01 a.93.1.2,g.3.11.1 95789,95790 1v58A 241 7.57e+01 c.47.1.9,d.17.3.1 108371,108372 1mw9X 592 7.61e+01 e.10.1.1 91480 1elvA 333 7.64e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1vhoA 346 7.68e+01 b.49.3.1,c.56.5.4 100694,100695 1ji1A 637 7.71e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1i3zA 103 7.80e+01 d.93.1.1 83667 1q4uA 151 7.82e+01 d.38.1.5 95828 1or7A 194 7.87e+01 a.4.13.2,a.177.1.1 87332,87333 1t2dA 322 7.87e+01 c.2.1.5,d.162.1.1 99084,99085 1wdcB 156 7.88e+01 1wdcB a.39.1.5 17302 1h7cA 108 7.92e+01 a.7.5.1 70914 2b69A 343 7.95e+01 1zzgA 415 7.97e+01 1t0qC 86 8.10e+01 d.15.12.1 106222 1furA 467 8.10e+01 1furA a.127.1.1 19403 1xj4A 119 8.12e+01 1cjxA 357 8.14e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1gmlA 178 8.15e+01 c.8.5.2 70273 1gz8A 299 8.16e+01 d.144.1.7 83405 2gwnA 452 8.30e+01 1mba 147 8.31e+01 2fal a.1.1.2 15149 1dfoA 417 8.31e+01 1bj4A c.67.1.4 34480 1x8hA 228 8.32e+01 3rp2A 224 8.40e+01 1a7s b.47.1.2 26298 1wfdA 93 8.53e+01 1uumA 372 8.53e+01 c.1.4.1 100010 2bhoA 130 8.54e+01 2au3A 407 8.56e+01 1heiA 451 8.59e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1gzwA 134 8.66e+01 b.29.1.3 90535 2aq2B 237 8.78e+01 1jd1A 129 8.78e+01 1qu9A d.79.1.1 62890 1nnjA 271 8.80e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 2f69A 261 8.83e+01 1xkmB 25 8.83e+01 1kblA 873 8.94e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1upvA 257 8.95e+01