# List of top-scoring protein chains for T0474.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.soe.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 1p94A 76 1.18e-01 a.43.1.3 94380 2cpgA 45 3.00e-01 2cpgA a.43.1.3 17455 1b01A 45 3.11e-01 2cpgA a.43.1.3 17458 2bj7A 138 3.22e-01 a.43.1.3,d.58.18.4 128608,128609 2jxgA 45 7.04e-01 2rexA 121 9.41e-01 2r2oA 138 1.01e+00 2gpeA 52 1.20e+00 2q2kA 70 2.02e+00 2hzaA 133 2.55e+00 a.43.1.3,d.58.18.4 136907,136908 2ay0A 58 2.84e+00 2a87A 335 3.97e+00 1m6xC 423 5.10e+00 a.60.9.1,d.163.1.1 78712,78713 1floA 422 5.50e+00 1floA a.60.9.1,d.163.1.1 18106,42166 1m6xA 423 5.58e+00 a.60.9.1,d.163.1.1 78708,78709 1gobA 155 7.24e+00 c.55.3.1 33565 1rbtA 155 1.31e+01 c.55.3.1 33555 1kz9A 159 1.38e+01 c.16.1.1 73339 1kyyA 159 1.39e+01 c.16.1.1 73307 1ts2A 194 1.43e+01 1aw7A b.40.2.2,d.15.6.1 25174,37763 2zkqs 145 1.50e+01 1aw7A 194 1.64e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1yvkA 163 1.83e+01 d.108.1.1 124101 2an7A 83 1.85e+01 1z1zA 131 1.90e+01 d.323.1.1 124366 2cse1 1267 2.01e+01 1lawA 155 2.03e+01 c.55.3.1 33557 2cf2D 295 2.06e+01 2yv0X 155 2.06e+01 2yutA 207 2.28e+01 2tssA 194 2.41e+01 1aw7A b.40.2.2,d.15.6.1 25161,37750 1ts3A 194 2.48e+01 1aw7A b.40.2.2,d.15.6.1 25168,37757 1ts5A 194 2.60e+01 1aw7A b.40.2.2,d.15.6.1 25179,37768 1ts4A 194 2.60e+01 1aw7A b.40.2.2,d.15.6.1 25182,37771 2ca9A 148 2.61e+01 3tssA 194 2.67e+01 b.40.2.2,d.15.6.1 25160,37749 1x93A 55 2.67e+01 2jphA 123 2.83e+01 2a59A 159 2.86e+01 1zgzA 122 2.91e+01 c.23.1.1 125065 2fu2A 102 3.11e+01 1rdcA 155 3.19e+01 c.55.3.1 33568 1rbuA 155 3.23e+01 c.55.3.1 33552 1n35A 1267 3.26e+01 e.8.1.4 79935 2bbeA 108 3.26e+01 1iz0A 302 3.46e+01 b.35.1.2,c.2.1.1 83821,83822 1kvaA 155 3.47e+01 c.55.3.1 33559 1kvbA 155 3.49e+01 c.55.3.1 33562 1kvcA 155 3.52e+01 c.55.3.1 33560 1w8kA 447 3.56e+01 1lavA 155 3.57e+01 c.55.3.1 33554 2rn2A 155 3.59e+01 c.55.3.1 33551 1rdaA 155 3.59e+01 c.55.3.1 33567 2auwA 170 3.64e+01 a.35.1.10,d.331.1.1 127339,127340 1yshD 73 3.64e+01 1yxeA 140 3.69e+01 1rdbA 155 3.69e+01 c.55.3.1 33561 1wsiA 155 3.77e+01 c.55.3.1 114853 1qpwB 146 3.81e+01 1abwA a.1.1.2 15569 1wshA 155 3.83e+01 c.55.3.1 114849 1wsfA 155 3.87e+01 c.55.3.1 121230 1rbvA 155 3.99e+01 c.55.3.1 33553 1wsjA 155 3.99e+01 c.55.3.1 114857 5cpaA 307 4.01e+01 c.56.5.1 33811 1k5dB 201 4.09e+01 b.55.1.3 68169 3bujA 397 4.16e+01 3cz6A 168 4.17e+01 2j4wD 445 4.34e+01 2guwA 484 4.35e+01 1nwaA 203 4.39e+01 d.58.28.1 86295 1bavA 309 4.42e+01 1aye c.56.5.1 33806 1k87A 669 4.43e+01 a.176.1.1,c.1.23.2 77286,77287 2fbaA 492 4.51e+01 a.102.1.1 133239 1cbxA 307 4.56e+01 c.56.5.1 33813 1hbkA 89 4.61e+01 1aca a.11.1.1 60887 1s1hS 80 4.64e+01 i.1.1.1 105169 1m4lA 307 4.65e+01 c.56.5.1 78604 2ctcA 307 4.67e+01 c.56.5.1 33802 1sqpK 56 4.67e+01 2qjuA 511 4.69e+01 2a65A 519 4.73e+01 1w6kA 732 4.75e+01 a.102.4.2,a.102.4.2 114271,114272 1w6jA 732 4.77e+01 a.102.4.2,a.102.4.2 114269,114270 2gtrA 261 5.07e+01 1ymeA 309 5.13e+01 c.56.5.1 33804 2j9wA 102 5.19e+01 1pytB 309 5.20e+01 1aye c.56.5.1 33820 2f9hA 129 5.24e+01 b.161.1.1 133162 1n32D 208 5.30e+01 d.66.1.2 79872 3c6qA 311 5.40e+01 1jl1A 155 5.47e+01 c.55.3.1 66821 1f21A 155 5.57e+01 2rn2 c.55.3.1 33550 2omlA 189 5.75e+01 2dsmA 72 5.78e+01 1kz1A 159 5.86e+01 c.16.1.1 73318 1bv8A 138 5.87e+01 1ayoA b.2.4.1 22430 1jxbA 155 5.99e+01 c.55.3.1 71931 1rbrA 155 6.02e+01 c.55.3.1 33556 1fjgD 209 6.03e+01 1c05A d.66.1.2 39553 1rbsA 155 6.03e+01 c.55.3.1 33558 1g15A 155 6.21e+01 2rn2 c.55.3.1 60197 1mhyD 521 6.24e+01 1mhyD a.25.1.2 16780 2vqeD 209 6.28e+01 2olwA 217 6.29e+01 2mysA 843 6.29e+01 1lvk b.34.3.1,c.37.1.9 24557,32154 1mvwA 840 6.29e+01 i.15.1.1 79523 2z1hA 155 6.30e+01 2qimA 158 6.31e+01 2z8vA 335 6.62e+01 1z40A 336 6.66e+01 3bomB 147 6.91e+01 1pxqA 35 7.07e+01 j.5.1.2 104382 1g5hA 454 7.37e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2z1gA 155 7.45e+01 2o4vA 411 7.56e+01 1xdfA 157 7.64e+01 d.129.3.1 121868 1fx5A 242 7.67e+01 1led b.29.1.1 24135 2g9tA 152 7.68e+01 g.86.1.1 134818