# List of top-scoring protein chains for T0316.t2k-w0.5 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 1ok0A 74 8.03e-01 b.5.1.1 93191 1v6fA 151 1.21e+00 d.109.1.2 108395 1zv1A 65 3.35e+00 1yhfA 115 4.45e+00 2ff4A 388 5.87e+00 1ue9A 80 6.01e+00 b.34.2.1 99255 1zn8A 180 8.48e+00 1dl7L 109 9.48e+00 1mfa b.1.1.1 20498 1n8pA 393 9.52e+00 c.67.1.3 80304 2g8yA 385 9.63e+00 1wu2A 396 1.07e+01 1wh0A 134 1.47e+01 2ajfE 180 1.63e+01 1undA 37 1.66e+01 a.14.1.1 107966 1ao5A 237 1.66e+01 5ptp b.47.1.2 26334 1ohoA 131 1.66e+01 2b32A 131 1.71e+01 1cqsA 131 1.72e+01 d.17.4.3 83165 1d2eA 397 1.79e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 1xb2A 409 1.79e+01 1w6yA 131 1.81e+01 1ea2A 131 1.90e+01 d.17.4.3 64860 1dmqA 131 1.91e+01 1opy d.17.4.3 38116 2dd8S 202 1.94e+01 1g6hA 257 1.94e+01 1gajA c.37.1.12 60318 1oh0A 131 1.96e+01 d.17.4.3 87004 1w02A 131 1.97e+01 d.17.4.3 108981 1vzzA 131 1.98e+01 d.17.4.3 108977 1vpqA 273 1.99e+01 1g9xA 257 2.00e+01 c.37.1.12 76219 1w00A 131 2.03e+01 1e6vC 258 2.05e+01 1mroC d.58.31.1 39439 4xiaA 393 2.22e+01 4xis c.1.15.3 29439 1xlaA 394 2.25e+01 4xis c.1.15.3 29445 1f4xL 210 2.41e+01 8fabA b.1.1.1,b.1.1.2 20450,21414 1f4yL 210 2.43e+01 8fabA b.1.1.1,b.1.1.2 20454,21418 1qs0A 407 2.47e+01 1qs0A c.36.1.11 31829 1a6wL 109 2.48e+01 1mfa b.1.1.1 20252 1c7hA 131 2.49e+01 1opy d.17.4.3 38117 2bp7A 410 2.49e+01 1a6vL 110 2.51e+01 1mfa b.1.1.1 20256 1a6uL 108 2.52e+01 1mfa b.1.1.1 20254 1t8pA 267 2.55e+01 c.60.1.1 106667 2fuqA 747 2.68e+01 2futA 748 2.69e+01 1lu4A 136 2.73e+01 c.47.1.10 91124 1ocwL 120 2.76e+01 b.1.1.1 92780 1yuhA 211 2.80e+01 1mfa b.1.1.1,b.1.1.2 20098,21130 1zmaA 118 2.83e+01 1oaqL 120 2.91e+01 b.1.1.1 92708 1j3mA 129 3.03e+01 d.129.7.1 103836 1wuoA 228 3.04e+01 1sm3L 215 3.06e+01 8fabA b.1.1.1,b.1.1.2 20368,21360 1p4bL 135 3.07e+01 b.1.1.1 94099 1oayL 110 3.09e+01 b.1.1.1 92737 1ddkA 220 3.16e+01 1a7tA d.157.1.1 42056 1jjeA 222 3.17e+01 1a7tA d.157.1.1 63117 2bjmL 110 3.18e+01 1jjtA 228 3.19e+01 1a7tA d.157.1.1 63139 1wupA 228 3.19e+01 1oauL 110 3.20e+01 b.1.1.1 92721 1gigL 210 3.22e+01 1mfa b.1.1.1,b.1.1.2 19910,21004 1pg7W 210 3.24e+01 b.1.1.1,b.1.1.2 94682,94683 1ngqL 215 3.33e+01 1mfa b.1.1.1,b.1.1.2 20092,21124 1va4A 279 3.34e+01 c.69.1.12 108458 1vqf 87 3.44e+01 1gvp b.40.4.7 25372 1nj9A 212 3.63e+01 b.1.1.1,b.1.1.2 91897,91898 1fvqA 72 3.82e+01 1aw0 d.58.17.1 60046 2crvA 120 3.84e+01 1qdnA 204 3.94e+01 1qcsA b.52.2.3,d.31.1.1 26928,38462 1qcsA 211 4.08e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1yhaA 87 4.24e+01 1gvp b.40.4.7 25384 1gajA 257 4.40e+01 1gajA c.37.1.12 60416 1nc2A 215 4.50e+01 b.1.1.1,b.1.1.2 91781,91782 1vqj 87 4.61e+01 1gvp b.40.4.7 25374 1ux6A 350 4.68e+01 b.29.1.16,g.75.1.1 100145,100146 1vjqA 79 4.72e+01 k.43.1.1 100830 1hehC 88 4.81e+01 1xbd b.2.2.1 60972 1c01A 76 4.84e+01 1c01A b.11.1.5 23633 1m2xA 223 4.88e+01 d.157.1.1 84764 2bf1A 316 4.90e+01 1kcaA 109 4.98e+01 b.87.1.1 68426 1cqa 133 4.98e+01 3nul d.110.1.1 40890 1o4sA 389 5.09e+01 c.67.1.1 86620 1tu7A 208 5.10e+01 2ahoA 414 5.15e+01 1etzA 215 5.23e+01 8fabA b.1.1.1,b.1.1.2 20480,21444 1vqi 87 5.26e+01 1gvp b.40.4.7 25373 1d3uA 181 5.30e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1aisA 182 5.32e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1f39A 101 5.41e+01 1umuA b.87.1.1 28386 1x8iA 227 5.45e+01 1x8hA 228 5.45e+01 1lilA 212 5.47e+01 8fabA b.1.1.1,b.1.1.2 20557,21466 1pczA 191 5.64e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1vqa 87 5.66e+01 1gvp b.40.4.7 25377 1e57A 188 5.72e+01 1auyA b.121.4.6 59259 1cn4A 228 5.90e+01 1eerB b.1.2.1,b.1.2.1 22027,22028 1v91A 38 5.93e+01 1vqd 87 6.05e+01 1gvp b.40.4.7 25375 1eerB 227 6.21e+01 1eerB b.1.2.1,b.1.2.1 22011,22012 1ts3A 194 6.43e+01 1aw7A b.40.2.2,d.15.6.1 25168,37757 1aw7A 194 6.55e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1mxgA 435 6.67e+01 b.71.1.1,c.1.8.1 85193,85194 1plc 99 6.71e+01 1plc b.6.1.1 22846 1xhbA 472 6.72e+01 1s0uA 408 6.85e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1gkh 87 6.88e+01 1gvp b.40.4.7 25371 1ts5A 194 6.94e+01 1aw7A b.40.2.2,d.15.6.1 25179,37768 1e8oA 85 6.95e+01 1914 d.49.1.1 38773 1ts2A 194 6.98e+01 1aw7A b.40.2.2,d.15.6.1 25174,37763 2tssA 194 7.03e+01 1aw7A b.40.2.2,d.15.6.1 25161,37750 1gvp 87 7.07e+01 1gvp b.40.4.7 25369 1ae3 86 7.08e+01 1gvp b.40.4.7 25381 1wfsA 151 7.09e+01 3tss 194 7.11e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1vkkA 154 7.18e+01 d.109.1.2 108669 1e8pA 46 7.21e+01 g.55.1.1 59385 1df7A 159 7.24e+01 3dfr c.71.1.1 34885 1yhb 87 7.26e+01 1gvp b.40.4.7 25383 1vdzA 588 7.40e+01 2aw2B 108 7.53e+01 1auyA 189 7.53e+01 1auyA b.121.4.6 23311 2atvA 196 7.53e+01 1y7rA 133 7.53e+01 1ts4A 194 7.57e+01 1aw7A b.40.2.2,d.15.6.1 25182,37771 1jmaB 167 7.61e+01 g.24.1.1,g.24.1.1 63178,63179 1dutA 133 7.80e+01 1dun b.85.4.1 28355 1ve6A 582 7.83e+01 1ffkF 157 7.86e+01 1ffkF d.41.4.1 38628 1f7dA 136 7.91e+01 1dun b.85.4.1 28353 1s1iH 191 8.07e+01 i.1.1.1 105182 1j2rA 199 8.26e+01 c.33.1.3 90788 1wxmA 86 8.31e+01 2cq2A 114 8.39e+01 1id0A 152 8.68e+01 d.122.1.3 66111 1ttnA 106 8.69e+01 1v7pA 134 8.80e+01 d.169.1.1 108406 1ae2 87 8.85e+01 1gvp b.40.4.7 25382