# List of top-scoring protein chains for t04-100-30-bys-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 1pjcA 361 5.89e-01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ouwA 152 9.41e-01 b.77.3.1 93571 1yfqA 342 3.30e+00 1k4mA 213 3.43e+00 c.26.1.3 77258 1a73A 163 4.34e+00 1a73A d.4.1.3 37145 1fjgP 88 4.55e+00 1emwA d.27.1.1 38444 1evxA 162 5.34e+00 1a73A d.4.1.3 37149 2ag9A 164 5.67e+00 1y89A 238 5.85e+00 1tc5A 194 6.03e+00 c.110.1.1 106752 2ag4A 164 6.62e+00 1q0uA 219 6.67e+00 c.37.1.19 95512 1o8uA 257 6.81e+00 c.14.1.3 81194 1e9rA 437 7.03e+00 c.37.1.11 64827 1szoA 257 7.11e+00 c.14.1.3 106164 2ew8A 249 7.19e+00 1pu5A 164 7.20e+00 b.95.1.1 104310 1ejbA 168 7.33e+00 1rvv1 c.16.1.1 59417 1nhcA 336 7.58e+00 b.80.1.3 91879 1qb5D 99 7.82e+00 b.40.2.1 88357 1oaoA 674 8.14e+00 e.26.1.2 86744 1fx3A 169 8.21e+00 1fx3B d.33.1.1 38524 2fliA 220 9.48e+00 1t8xA 267 9.80e+00 1j3bA 529 1.07e+01 c.91.1.1,c.109.1.1 77071,77072 1u4cA 349 1.08e+01 b.69.4.2 107666 2b4lA 268 1.11e+01 2cuaA 135 1.13e+01 2cuaA b.6.1.2 23039 1yal 218 1.15e+01 1cs8A d.3.1.1 37025 1o66A 275 1.26e+01 c.1.12.8 92547 1klo 162 1.26e+01 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 1bylA 125 1.30e+01 1bylA d.32.1.2 38495 1a48 306 1.33e+01 1a48 d.143.1.1 41590 1zhaA 267 1.34e+01 1mkyA 439 1.36e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1vdwA 254 1.37e+01 e.7.1.1 100569 1i24A 404 1.38e+01 c.2.1.2 83663 1rl6A 177 1.47e+01 1rl6A d.141.1.1,d.141.1.1 41473,41474 2c07A 285 1.51e+01 1qrrA 394 1.52e+01 1qrrA c.2.1.2 29824 1obdA 306 1.68e+01 d.143.1.1 86767 1pjqA 457 1.68e+01 c.2.1.11,c.90.1.1,e.37.1.1 94766,94767,94768 1pk6C 129 1.77e+01 b.22.1.1 94803 1h3nA 878 1.78e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1gq6A 313 1.79e+01 c.42.1.1 70341 1v5eA 590 1.81e+01 1uohA 226 1.87e+01 d.211.1.1 99690 2cnqA 306 2.07e+01 1xt5A 135 2.10e+01 1rxyA 253 2.20e+01 c.56.2.1 98065 1lx7A 253 2.26e+01 c.56.2.1 74329 1ejeA 192 2.27e+01 1ejeA b.45.1.2 25757 2b99A 156 2.29e+01 1oacA 727 2.29e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1f0iA 504 2.39e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1w85A 368 2.41e+01 1g13A 162 2.43e+01 1g13A b.95.1.1 60194 1czfA 362 2.55e+01 1czfA b.80.1.3 28031 1mb3A 124 2.60e+01 c.23.1.1 78907 1o97C 264 2.62e+01 c.26.2.3 81232 1tiiD 99 2.63e+01 1tiiD b.40.2.1 24965 2bryA 497 2.70e+01 1ww9A 392 2.72e+01 1rz1A 161 2.82e+01 b.45.1.2 98124 1ha3A 405 2.90e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1iuhA 198 2.94e+01 d.61.1.2 83711 1kq3A 376 3.09e+01 e.22.1.2 68790 1ydgA 211 3.14e+01 1wohA 305 3.18e+01 c.42.1.1 109446 1hqkA 154 3.21e+01 c.16.1.1 65902 2cg4A 152 3.22e+01 2as9A 210 3.36e+01 1v0wA 506 3.41e+01 d.136.1.2,d.136.1.2 108220,108221 1exmA 405 3.45e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1ns5A 155 3.45e+01 c.116.1.3 80705 1kewA 361 3.48e+01 c.2.1.2 68544 1c3mA 147 3.48e+01 1jotA b.77.3.1 27983 1y9aA 360 3.49e+01 1qsmA 152 3.49e+01 1qsmA d.108.1.1 40808 2ch8A 201 3.49e+01 2cz2A 223 3.65e+01 1lxa 262 3.71e+01 1lxa b.81.1.1 28052 1bia 321 3.76e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2cu1A 103 3.77e+01 1h7zA 194 3.82e+01 1qhvA b.21.1.1 60733 3ullA 132 3.82e+01 3ullA b.40.4.3 25282 1jcxA 267 3.85e+01 c.1.10.4 66510 2aq9A 262 3.87e+01 1kao 167 4.15e+01 1ctqA c.37.1.8 32014 1wxcA 281 4.23e+01 1jqlB 140 4.35e+01 c.37.1.20 63234 1h1yA 228 4.35e+01 c.1.2.2 76506 1hkfA 122 4.35e+01 b.1.1.1 83553 1jmmA 377 4.46e+01 b.30.6.1 71749 2cxcA 144 4.48e+01 1zesA 125 4.53e+01 2cxhA 217 4.53e+01 1r6vA 671 4.57e+01 1s7hA 200 4.57e+01 d.58.48.2 105349 1oywA 523 4.60e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1nhp 447 4.70e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1pe1A 267 4.70e+01 c.1.10.4 94591 1cc1S 283 4.74e+01 2frvA e.19.1.1 43313 1jnrA 643 4.75e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2fjbA 643 4.80e+01 1fxjA 331 4.81e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1kafA 108 4.83e+01 d.199.1.1 68372 1t9bA 677 4.86e+01 1qfxA 460 4.97e+01 1qfxA c.60.1.2 33994 1e12A 253 4.98e+01 1c3wA f.13.1.1 43428 1td4A 115 5.10e+01 1l5jA 865 5.12e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1hl2A 297 5.12e+01 c.1.10.1 83581 1ojxA 263 5.15e+01 c.1.10.1 93164 1zl0A 311 5.20e+01 1vjqA 79 5.26e+01 k.43.1.1 100830 1s62A 106 5.28e+01 1o0yA 260 5.41e+01 c.1.10.1 80756 2b81A 323 5.46e+01 1bxkA 355 5.53e+01 1bxkA c.2.1.2 29803 1fxqA 267 5.58e+01 1d9eA c.1.10.4 60108 1fwsA 267 5.62e+01 1d9eA c.1.10.4 60063 1zrsA 317 5.65e+01 2aumA 317 5.66e+01 1a6q 382 5.66e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1ws0A 156 5.68e+01 2aunA 317 5.77e+01 1ztuA 341 5.83e+01 1pfsA 78 5.88e+01 1pfsA b.40.4.7 25391 1hv9A 456 5.89e+01 1fwyA b.81.1.4,c.68.1.5 28060,34518 1yreA 197 5.91e+01 1wqaA 455 5.92e+01 1ujpA 271 5.94e+01 c.1.2.4 99462 1gg3A 279 5.95e+01 1ef1A a.11.2.1,b.55.1.5,d.15.1.4 16372,27007,37615 1wdeA 294 5.95e+01 1gx4A 289 6.15e+01 c.68.1.9 83362 1fonA 240 6.21e+01 5ptp b.47.1.2 26231 1xc3A 302 6.24e+01 1srrA 124 6.37e+01 1dz3A c.23.1.1 31110 1qycA 308 6.37e+01 c.2.1.2 96581 1kevA 351 6.41e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1qwoA 442 6.41e+01 c.60.1.2 104620 1w8sA 263 6.47e+01 1jqbA 351 6.48e+01 b.35.1.2,c.2.1.1 77151,77152 1ve2A 235 6.51e+01 3ladA 476 6.54e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1ws6A 171 6.54e+01 2bgcA 238 6.55e+01 1vfrA 218 6.66e+01 1vfrA d.90.1.1 40247 1o7qA 289 6.67e+01 c.68.1.9 92626 1zckA 154 6.71e+01 1lxjA 104 6.76e+01 d.58.48.1 84736 1vajA 214 6.79e+01 1ucdA 190 6.92e+01 d.124.1.1 107767 1nhs 447 6.98e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1xfsA 178 7.00e+01 d.129.3.5 109589 1hynP 379 7.00e+01 1hynP d.112.1.2 61408 1xkiA 162 7.02e+01 1n2zA 245 7.11e+01 c.92.2.2 79865 1aisB 200 7.12e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1om0A 274 7.12e+01 c.1.8.5 87058 2fkkA 206 7.21e+01 2cw5A 255 7.37e+01 1s99A 200 7.38e+01 1thqA 170 7.46e+01 f.4.1.2 106920 1rxdA 159 7.59e+01 1nal1 297 7.65e+01 1nal3 2es9A 115 7.73e+01 1ml8A 134 7.82e+01 d.227.1.2 85013 1j3mA 129 7.83e+01 d.129.7.1 103836 1wd6A 123 7.84e+01 1wleA 501 7.91e+01 2fiqA 420 7.91e+01 2a5lA 200 7.93e+01 1r88A 280 7.99e+01 c.69.1.3 97219 1o4vA 183 8.16e+01 c.23.8.1 86628 1fw1A 216 8.16e+01 a.45.1.1,c.47.1.5 60051,60052 1uacL 107 8.17e+01 b.1.1.1 99133 2arhA 203 8.34e+01 1z9lA 128 8.37e+01 1so9A 164 8.41e+01 b.146.1.1 105842 1xmeA 568 8.42e+01 1nzjA 298 8.45e+01 c.26.1.1 92377 1xbsA 149 8.46e+01 1kaeA 434 8.54e+01 c.82.1.2 72247 1g2iA 166 8.56e+01 1g2iA c.23.16.2 31438 2f71A 298 8.61e+01 1ez0A 510 8.66e+01 1eyyA c.82.1.1 35385 1h2cA 140 8.73e+01 b.31.1.1 83462 1go7P 462 8.85e+01 b.80.7.1,d.92.1.6 76245,76246 1cjcA 460 8.88e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1uw6A 211 8.92e+01 b.96.1.1 100079 1krhA 338 8.95e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1go3F 107 8.96e+01 a.60.8.2 65407