# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1eu8A 409 9.42e-03 1eu8A c.94.1.1 59502 1twyA 290 7.50e-02 2bjhA 260 4.46e-01 1uwcA 261 5.97e-01 c.69.1.17 100101 1oh0A 131 1.19e+00 d.17.4.3 87004 1rvkA 382 1.65e+00 c.1.11.2,d.54.1.1 97928,97929 1upiA 225 2.83e+00 b.82.1.1 99757 1kcfA 258 3.38e+00 a.140.2.1,c.55.3.7 68434,68435 1ofcX 304 4.62e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1md6A 154 4.65e+00 b.42.1.2 91242 1i6pA 220 4.77e+00 1ddzA c.53.2.1 61848 2cqeA 98 4.87e+00 1d3gA 367 5.44e+00 1d3gA c.1.4.1 28600 1ukcA 522 6.01e+00 c.69.1.17 107911 1opy 131 6.19e+00 1opy d.17.4.3 38113 2b0mA 393 6.33e+00 1ve1A 304 7.50e+00 1txyA 104 7.64e+00 1uumA 372 8.08e+00 c.1.4.1 100010 1w2iA 91 8.65e+00 d.58.10.1 109127 1m8uA 173 8.86e+00 b.11.1.1,b.11.1.1 91233,91234 1ywwA 85 9.47e+00 1zclA 180 9.53e+00 1x24A 180 1.04e+01 1wlpB 138 1.12e+01 1sqjA 789 1.19e+01 b.69.13.1,b.69.13.1 105918,105919 1vhqA 232 1.30e+01 c.23.16.2 100696 1mugA 168 1.32e+01 1mugA c.18.1.2 31030 1ov3A 138 1.36e+01 b.34.2.1,b.34.2.1 87451,87452 2bg5A 324 1.36e+01 1e3aA 260 1.42e+01 1ajqA d.153.1.2 41838 1wtaA 275 1.51e+01 1eajA 126 1.52e+01 1f5wA b.1.1.1 59401 1c1lA 136 1.67e+01 1c1lA b.29.1.3 24219 1wocA 103 1.84e+01 1dmmA 131 1.86e+01 1opy d.17.4.3 38114 2gzqA 200 1.92e+01 1qynA 153 1.97e+01 d.33.1.1 96597 1s1hM 132 1.97e+01 i.1.1.1 105165 2crbA 97 2.01e+01 1rxdA 159 2.03e+01 1zckA 154 2.08e+01 1cg2A 393 2.12e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1gvhA 396 2.12e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 2ahmE 203 2.13e+01 1or7C 90 2.24e+01 a.180.1.1 87336 1ng2A 193 2.27e+01 b.34.2.1,b.34.2.1 85660,85661 1reoA 486 2.29e+01 c.3.1.2,d.16.1.5 97325,97326 1sd4A 126 2.32e+01 a.4.5.39 105428 6paxA 133 2.32e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1v1qA 134 2.32e+01 1k78A 149 2.38e+01 a.4.1.5,a.4.1.5 68255,68256 1p8xA 344 2.43e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1j55A 95 2.52e+01 a.39.1.2 77078 1d02A 202 2.63e+01 1d02A c.52.1.8 33313 1f80D 81 2.67e+01 1acp a.28.1.1 59686 1vjvA 415 2.70e+01 d.3.1.9 108632 1pfzA 380 2.71e+01 1smrA b.50.1.2 26881 1cskA 71 2.77e+01 1ckaA b.34.2.1 24513 1kkhA 317 2.87e+01 d.14.1.5,d.58.26.3 72645,72646 1q45A 391 2.88e+01 c.1.4.1 95780 1rm6B 324 2.95e+01 1oa4A 222 3.06e+01 b.29.1.11 86731 1bf5A 545 3.09e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1a2zA 220 3.09e+01 1a2zA c.56.4.1 33794 1vq3A 94 3.14e+01 1x92A 199 3.22e+01 1fo4A 1332 3.27e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1rzsA 61 3.27e+01 a.35.1.2 105139 1p6xA 334 3.29e+01 c.37.1.1 94195 2biiA 424 3.38e+01 1xwrA 97 3.42e+01 2covD 104 3.51e+01 1qwtA 255 3.57e+01 b.26.1.3 96501 1gpc 218 3.62e+01 1gpc b.40.4.7 25393 1v97A 1332 3.74e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 2azwA 148 3.79e+01 1tk9A 188 3.89e+01 c.80.1.3 107082 1l1qA 186 4.09e+01 c.61.1.1 77653 1wkuA 254 4.14e+01 1tueA 212 4.17e+01 c.37.1.20 107323 1rjdA 334 4.19e+01 c.66.1.37 97558 1snlA 103 4.20e+01 a.39.1.7 105820 2avyM 117 4.23e+01 1yf3A 259 4.43e+01 1tzvA 142 4.44e+01 a.79.1.1 107526 1oxdA 227 4.45e+01 d.22.1.1 93687 1gk9A 260 4.45e+01 d.153.1.2 65246 1lf2A 331 4.52e+01 b.50.1.2 77914 1fthA 122 4.57e+01 d.150.1.2 60028 1usuB 170 4.66e+01 d.83.2.1 99886 1yvvA 336 4.70e+01 3sdhA 146 4.84e+01 3sdhA a.1.1.2 14984 1q0sA 259 4.88e+01 c.66.1.28 95509 1ngnA 155 5.12e+01 a.96.1.2 85697 1ew0A 130 5.13e+01 1drmA d.110.3.2 40905 2bkaA 242 5.23e+01 1ga6A 372 5.27e+01 1ga1A c.41.1.2 32556 1el5A 389 5.30e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1umgA 362 5.41e+01 d.280.1.1 107956 2fbyA 205 5.43e+01 1gxrA 337 5.53e+01 b.69.4.1 70722 1zuwA 272 5.58e+01 1oqvA 192 5.63e+01 d.24.1.2 87320 1zirA 173 5.74e+01 1zs4A 83 5.77e+01 1u3oA 82 5.87e+01 1uw0A 117 6.07e+01 g.39.1.12 108063 1sx5A 244 6.16e+01 c.52.1.2 99023 1f8rA 498 6.63e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 2aw2A 120 6.84e+01 1y71A 130 6.90e+01 2a1kA 233 6.93e+01 1j5sA 463 6.95e+01 c.1.9.8 71580 1fx3A 169 7.03e+01 1fx3B d.33.1.1 38524 1xzzA 246 7.13e+01 1fi8A 228 7.18e+01 5ptp b.47.1.2 26374 1yn3A 98 7.32e+01 1repC 251 7.46e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2cioA 212 7.49e+01 1xjuA 163 7.54e+01 2rn2 155 7.58e+01 2rn2 c.55.3.1 33551 1odfA 290 7.63e+01 c.37.1.6 92782 1vk4A 298 7.66e+01 c.72.1.1 100850 1ls9A 91 7.77e+01 a.3.1.1 78177 1aoa 275 7.83e+01 1aoa a.40.1.1,a.40.1.1 17396,17397 1pvxA 194 7.92e+01 1axkA b.29.1.11 24341 1yh6A 179 7.93e+01 1w6vA 141 8.13e+01 1mk0A 97 8.18e+01 d.226.1.1 79216 1vkdA 338 8.18e+01 b.67.2.4 108644 1pa7A 130 8.19e+01 a.40.1.1 94410 1qfoA 119 8.23e+01 1qfoA b.1.1.1 19708 1u2fA 90 8.41e+01 1u2fA d.58.7.1 39168 1xeeA 91 8.75e+01 2g6yA 217 8.82e+01