# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1rwzA 245 3.16e-01 d.131.1.2 -11106 d.131.1.2 -11107 1nhp 447 6.81e-01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1iz5A 249 9.76e-01 d.131.1.2 83834 d.131.1.2 83835 1nhs 447 1.40e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1s29A 92 1.41e+00 unknown_sccs -315 1nt4A 391 1.42e+00 c.60.1.2 -7942 1ecsA 126 1.59e+00 1ecsA d.32.1.2 59407 1ggzA 148 2.70e+00 a.39.1.5 70176 1iybA 208 2.71e+00 d.124.1.1 -10977 1top 162 2.89e+00 1ncx a.39.1.5 17223 1rl6A 177 3.83e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 1mup 166 4.52e+00 1mup b.60.1.1 27133 1i05A 180 5.08e+00 1mup b.60.1.1 27130 1mmsA 140 5.13e+00 1mmsA a.4.7.1 16247 d.47.1.1 38766 1i06A 180 5.30e+00 1mup b.60.1.1 27131 1hqz1 141 5.42e+00 1r9cA 139 5.60e+00 d.32.1.2 -9557 1jv4A 162 6.10e+00 b.60.1.1 67343 1kjwA 295 6.45e+00 b.34.2.1 68643 c.37.1.1 68644 1pa4A 116 6.65e+00 d.52.7.1 -9780 1dun 134 6.87e+00 1dun b.85.4.1 28371 1ugmA 125 7.15e+00 1lqpA 135 7.17e+00 d.32.1.2 78151 1nkiA 135 7.36e+00 d.32.1.2 -9544 1pj5A 830 9.37e+00 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 3htsB 102 9.58e+00 2hts a.4.5.22 16175 1qy1A 174 9.98e+00 b.60.1.1 -4445 1m1hA 248 1.03e+01 b.114.1.1 78415 d.58.42.1 78416 1b8aA 438 1.06e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1yna 194 1.08e+01 1axkA b.29.1.11 24335 1ugjA 141 1.10e+01 1gvjA 146 1.10e+01 a.4.5.21 -293 1m45A 148 1.12e+01 a.39.1.5 78598 1wdcC 156 1.15e+01 1wdcC a.39.1.5 17317 1j5yA 187 1.15e+01 a.4.5.1 71592 d.94.2.1 71593 1pvxA 194 1.17e+01 1axkA b.29.1.11 24341 1pqhA 143 1.18e+01 b.52.2.1 -4318 1q1rA 431 1.36e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1wdnA 226 1.39e+01 1lst c.94.1.1 35816 1b5fA 239 1.41e+01 1smrA b.50.1.2 26836 1d7yA 408 1.49e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 2sas 185 1.50e+01 2sas a.39.1.5 17258 1g5bA 221 1.50e+01 1g5bA d.159.1.3 60261 1rowA 109 1.54e+01 b.1.11.2 -2851 1avsA 90 1.66e+01 1cll a.39.1.5 17226 1r13A 148 1.66e+01 d.169.1.1 -11646 h.1.1.1 -12895 1rxxA 421 1.67e+01 unknown_sccs -10982 1aerA 205 1.68e+01 1aerA d.166.1.1 42249 1t0yA 122 1.74e+01 d.15.1.1 -9151 1dq3A 454 1.80e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1din 236 1.80e+01 1din c.69.1.9 34682 1feuA 206 1.85e+01 1feuA b.53.1.1 59801 1xypA 190 1.95e+01 1axkA b.29.1.11 24327 1c3gA 170 1.96e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 1op4A 159 2.04e+01 b.1.6.1 -2794 1gggA 226 2.04e+01 1lst c.94.1.1 35817 1gt1A 159 2.04e+01 b.60.1.1 -4436 1ayoA 130 2.05e+01 1ayoA b.2.4.1 22431 1o70A 324 2.16e+01 b.118.1.1 81115 b.118.1.1 81116 1ri5A 298 2.17e+01 unknown_sccs -8063 1bt0A 76 2.17e+01 1ubi d.15.1.1 37607 1vheA 373 2.18e+01 unknown_sccs -4280 c.56.5.4 -7890 1n4kA 381 2.22e+01 unknown_sccs 79992 b.42.6.1 79993 1ss4A 153 2.25e+01 1k0sA 151 2.26e+01 b.40.7.1 67969 1hn2A 159 2.26e+01 b.60.1.1 65890 1g2rA 100 2.30e+01 1g2rA d.192.1.1 60231 1l4iA 206 2.30e+01 b.1.11.1 73564 b.7.2.1 73565 1obpA 159 2.41e+01 1obpA b.60.1.1 27092 1f4qA 165 2.51e+01 1alvA a.39.1.8 17360 1nbfD 76 2.57e+01 d.15.1.1 80390 1dqeA 137 2.63e+01 1dqeA a.39.2.1 17388 1g8iA 190 2.68e+01 1rec a.39.1.5 60363 1ep3B 262 2.69e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1b77A 228 2.72e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1auiB 169 2.92e+01 1auiB a.39.1.5 17325 1l3aA 228 2.94e+01 d.18.1.2 73531 1d8hA 311 2.97e+01 1d8iA d.63.1.1 39544 1jsdB 176 2.98e+01 h.3.1.1 63259 1adn 92 3.01e+01 1adn g.48.1.1 45348 1j24A 143 3.13e+01 c.52.1.20 84008 1djnA 729 3.21e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1iu8A 206 3.27e+01 c.56.4.1 71436 1q0uA 219 3.39e+01 c.37.1.19 -7205 1seiA 130 3.44e+01 1seiA d.140.1.1 41463 1c0eA 157 3.46e+01 1dg9A c.44.1.1 32638 1hdr 244 3.48e+01 1dhr c.2.1.2 29837 1plq 258 3.48e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1f86A 115 3.50e+01 1etb1 b.3.4.1 59689 2pii 112 3.52e+01 2pii d.58.5.1 39071 1mzbA 136 3.56e+01 unknown_sccs -266 1d1qA 161 3.57e+01 1dg9A c.44.1.1 32642 1bu6O 501 3.60e+01 1glcG c.55.1.4 33499 c.55.1.4 33500 1gwmA 153 3.61e+01 b.18.1.19 83348 1dhr 241 3.69e+01 1dhr c.2.1.2 29832 3cla 213 3.73e+01 3cla c.43.1.1 32610 1nmeA 146 3.73e+01 c.17.1.1 85874 1jy5A 212 3.74e+01 d.124.1.1 71940 1o94A 729 3.77e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1lgpA 116 3.80e+01 b.26.1.2 73890 1v8cA 168 3.81e+01 d.15.3.1 -9175 unknown_sccs -11012 1ozjA 144 3.90e+01 d.164.1.1 -11537 1enfA 212 3.96e+01 3seb b.40.2.2 25198 d.15.6.1 37787 1lngA 87 3.97e+01 d.201.1.1 74045