# List of top-scoring protein chains for t06-100-30-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 3.59e-01 1sayA c.2.1.4,c.23.12.2 30101,31361 1ouwA 152 4.37e-01 b.77.3.1 93571 1yfqA 342 1.04e+00 1fjgP 88 1.96e+00 1emwA d.27.1.1 38444 2fliA 220 2.10e+00 1k4mA 213 2.36e+00 c.26.1.3 77258 1tc5A 194 2.93e+00 c.110.1.1 106752 1ejbA 168 2.94e+00 1rvv1 c.16.1.1 59417 2b4lA 268 2.99e+00 1nhcA 336 3.40e+00 b.80.1.3 91879 1a73A 163 3.54e+00 1a73A d.4.1.3 37145 1y89A 238 3.67e+00 1i24A 404 4.74e+00 c.2.1.2 83663 1qsmA 152 5.49e+00 1qsmA d.108.1.1 40808 2ew8A 249 6.19e+00 1e9rA 437 6.40e+00 c.37.1.11 64827 1j3bA 529 6.44e+00 c.91.1.1,c.109.1.1 77071,77072 1rl6A 177 6.55e+00 1rl6A d.141.1.1,d.141.1.1 41473,41474 2c07A 285 6.59e+00 1w85A 368 6.66e+00 1aisB 200 6.69e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1yal 218 6.75e+00 1cs8A d.3.1.1 37025 1mkyA 439 6.93e+00 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 2ag4A 164 7.03e+00 1vjqA 79 7.38e+00 k.43.1.1 100830 2b99A 156 7.71e+00 1szoA 257 8.06e+00 c.14.1.3 106164 1qb5D 99 8.13e+00 b.40.2.1 88357 2f71A 298 8.42e+00 1yreA 197 8.48e+00 1obdA 306 9.24e+00 d.143.1.1 86767 1czfA 362 9.62e+00 1czfA b.80.1.3 28031 1zhaA 267 9.66e+00 1o66A 275 9.70e+00 c.1.12.8 92547 1oaoA 674 9.79e+00 e.26.1.2 86744 2cuaA 135 9.89e+00 2cuaA b.6.1.2 23039 2cnqA 306 1.02e+01 1gq6A 313 1.04e+01 c.42.1.1 70341 1v0wA 506 1.07e+01 d.136.1.2,d.136.1.2 108220,108221 1vdwA 254 1.10e+01 e.7.1.1 100569 1q0uA 219 1.12e+01 c.37.1.19 95512 1pk6C 129 1.15e+01 b.22.1.1 94803 1h3nA 878 1.16e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1wleA 501 1.17e+01 1klo 162 1.29e+01 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 2cxcA 144 1.30e+01 2cwyA 94 1.31e+01 1v5eA 590 1.32e+01 1a6q 382 1.35e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1kewA 361 1.36e+01 c.2.1.2 68544 1pa1A 310 1.51e+01 c.45.1.2 94404 1kafA 108 1.59e+01 d.199.1.1 68372 1ns5A 155 1.61e+01 c.116.1.3 80705 2cg4A 152 1.68e+01 1xt5A 135 1.69e+01 1o97C 264 1.73e+01 c.26.2.3 81232 1w8sA 263 1.73e+01 1c3mA 147 1.77e+01 1jotA b.77.3.1 27983 1hkfA 122 1.81e+01 b.1.1.1 83553 1nhs 447 1.83e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2a1fA 247 1.86e+01 1w0mA 226 1.90e+01 c.1.1.1 109027 1ejeA 192 1.98e+01 1ejeA b.45.1.2 25757 1oacA 727 1.99e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1wohA 305 2.13e+01 c.42.1.1 109446 1o0yA 260 2.14e+01 c.1.10.1 80756 2ch8A 201 2.17e+01 1tl9A 339 2.18e+01 1xfsA 178 2.24e+01 d.129.3.5 109589 1vajA 214 2.28e+01 1ujpA 271 2.32e+01 c.1.2.4 99462 1krhA 338 2.32e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1o6aA 96 2.34e+01 b.139.1.1 92562 1h1yA 228 2.37e+01 c.1.2.2 76506 1pfsA 78 2.39e+01 1pfsA b.40.4.7 25391 1r6vA 671 2.53e+01 1rxyA 253 2.59e+01 c.56.2.1 98065 1ve2A 235 2.61e+01 1oywA 523 2.65e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1ws0A 156 2.66e+01 1ww9A 392 2.71e+01 1kgsA 225 2.75e+01 a.4.6.1,c.23.1.1 68596,68597 1vpjA 192 2.77e+01 2g8jA 339 2.77e+01 2bryA 497 2.81e+01 1odfA 290 2.85e+01 c.37.1.6 92782 1t9bA 677 2.89e+01 1xzoA 174 2.90e+01 2gm3A 175 2.94e+01 1td4A 115 2.98e+01 2as9A 210 2.99e+01 1bia 321 3.04e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1rz1A 161 3.08e+01 b.45.1.2 98124 1kq3A 376 3.10e+01 e.22.1.2 68790 1vhvA 268 3.14e+01 c.90.1.1 100704 1wxcA 281 3.14e+01 1uacL 107 3.17e+01 b.1.1.1 99133 1ydgA 211 3.21e+01 2cz2A 223 3.33e+01 1qfxA 460 3.35e+01 1qfxA c.60.1.2 33994 2fiqA 420 3.35e+01 1x42A 232 3.36e+01 3ullA 132 3.40e+01 3ullA b.40.4.3 25282 2fkkA 206 3.45e+01 1pe1A 267 3.48e+01 c.1.10.4 94591 1y9aA 360 3.61e+01 1nwwA 149 3.64e+01 d.17.4.8 86306 1k5cA 335 3.67e+01 b.80.1.3 72076 3pviA 157 3.67e+01 3pviA c.52.1.6 33300 1s62A 106 3.70e+01 1r88A 280 3.84e+01 c.69.1.3 97219 1zl0A 311 3.87e+01 1g2iA 166 3.90e+01 1g2iA c.23.16.2 31438 1czpA 98 3.90e+01 1awd d.15.4.1 37645 1vl7A 157 3.96e+01 b.45.1.1 108732 1hqkA 154 3.99e+01 c.16.1.1 65902 1jnrA 643 4.15e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 2fjbA 643 4.20e+01 1ocxA 182 4.37e+01 b.81.1.3 86814 2bzlA 325 4.39e+01 2bneA 241 4.41e+01 1m2dA 110 4.46e+01 c.47.1.11 78476 1ta3A 274 4.46e+01 c.1.8.5 106731 1jqlB 140 4.47e+01 c.37.1.20 63234 1d3yA 301 4.53e+01 1d3yA e.12.1.1 43252 1hw7A 255 4.57e+01 1i7fA d.193.1.1 61297 1hruA 188 4.57e+01 1hruA d.115.1.1 40926 1srrA 124 4.71e+01 1dz3A c.23.1.1 31110 1fuiA 591 4.72e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 1vb5A 276 4.73e+01 1vclA 432 4.75e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 2bgcA 238 4.75e+01 1hl2A 297 4.79e+01 c.1.10.1 83581 1o4vA 183 4.98e+01 c.23.8.1 86628 1x0vA 354 5.07e+01 1tbd 134 5.11e+01 2tbd d.89.1.1 40240 1z9lA 128 5.13e+01 1qkkA 155 5.14e+01 1dbwA c.23.1.1 31104 2bm8A 236 5.22e+01 1e12A 253 5.39e+01 1c3wA f.13.1.1 43428 1vljA 407 5.43e+01 e.22.1.2 108832 2aq9A 262 5.44e+01 1jkmB 361 5.44e+01 1jkmA c.69.1.2 34634 2asuB 234 5.50e+01 1uhvA 500 5.51e+01 b.71.1.2,c.1.8.3 99402,99403 1h2cA 140 5.57e+01 b.31.1.1 83462 1fonA 240 5.61e+01 5ptp b.47.1.2 26231 1kao 167 5.78e+01 1ctqA c.37.1.8 32014 1w7lA 422 5.79e+01 c.67.1.1 109226 2bwfA 77 5.82e+01 1hynP 379 5.91e+01 1hynP d.112.1.2 61408 2cw5A 255 5.93e+01 1ukuA 102 6.00e+01 d.58.5.2 99533 1h7zA 194 6.07e+01 1qhvA b.21.1.1 60733 1o6dA 163 6.09e+01 c.116.1.3 92567 1lqtA 456 6.11e+01 c.3.1.1,c.4.1.1 74198,74199 3tdt 274 6.22e+01 3tdt b.81.1.2 28053 1v60A 123 6.23e+01 1cjcA 460 6.24e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 2bb3A 221 6.31e+01 1t5bA 201 6.34e+01 c.23.5.3 106433 1a70 97 6.37e+01 1awd d.15.4.1 37678 1r9wA 145 6.59e+01 d.89.1.2 97264 1mb3A 124 6.63e+01 c.23.1.1 78907 1wd5A 208 6.63e+01 2hvm 273 6.65e+01 1cnv c.1.8.5 28985 1ucdA 190 6.68e+01 d.124.1.1 107767 1tmy 120 6.72e+01 1dbwA c.23.1.1 31083 1u0sY 118 6.87e+01 c.23.1.1 107566 1xrkA 124 6.94e+01 1wb9A 800 7.02e+01 1h5qA 265 7.13e+01 1cydA c.2.1.2 60643 1kaeA 434 7.13e+01 c.82.1.2 72247 1go3F 107 7.16e+01 a.60.8.2 65407 2azwA 148 7.25e+01 2agkA 260 7.26e+01 1ej8A 140 7.27e+01 1qupA b.1.8.1 22300 1x82A 190 7.29e+01 2cwzA 141 7.31e+01 1jvbA 347 7.33e+01 b.35.1.2,c.2.1.1 77181,77182 1offA 97 7.33e+01 d.15.4.1 86947 2b81A 323 7.40e+01 1vlbA 907 7.42e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1reqB 637 7.44e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1qwoA 442 7.44e+01 c.60.1.2 104620 1wrmA 165 7.56e+01 1s3zA 165 7.58e+01 d.108.1.1 105250 1wkoA 180 7.58e+01 1a8q 274 7.60e+01 1brt c.69.1.12 34702 1ei9A 279 7.72e+01 1ei9A c.69.1.13 34713 1k7jA 206 7.79e+01 d.115.1.1 72103 1vzyA 291 7.80e+01 1wd6A 123 7.93e+01 1k7iA 479 7.96e+01 b.80.7.1,d.92.1.6 77281,77282 1wm1A 317 8.22e+01 c.69.1.7 109405 1vhqA 232 8.39e+01 c.23.16.2 100696 1cv8 174 8.42e+01 1cv8 d.3.1.1 37089 1fp3A 402 8.52e+01 1fp3A a.102.1.3 18842 1v4vA 376 8.55e+01 c.87.1.3 100313 1t6nA 220 8.57e+01 c.37.1.19 106576 1rfkA 98 8.57e+01 1w41A 101 8.58e+01 1j0dA 341 8.59e+01 c.79.1.1 83902 1tf1A 198 8.59e+01 d.110.2.2 106826 1llfA 534 8.60e+01 c.69.1.17 78094 2b9wA 424 8.63e+01 1so9A 164 8.63e+01 b.146.1.1 105842 1x99A 145 8.74e+01 1sqrA 95 8.80e+01 2fp8A 322 8.81e+01 1ob8A 135 8.89e+01 1g8pA 350 8.94e+01 1g8pA c.37.1.20 60376 1v9fA 325 8.97e+01 d.265.1.3 108448 1tjyA 316 8.98e+01 c.93.1.1 107062 1q67A 231 8.98e+01 b.55.1.7 95960 2fxaA 207 9.00e+01