# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1o7kA 131 1.13e+00 d.189.1.1 81144 1kq6A 141 1.18e+00 d.189.1.1 -9926 1k42A 168 1.31e+00 b.18.1.14 72032 1gd5A 130 1.63e+00 1gd5A d.189.1.1 60439 1vddA 228 2.65e+00 2hft 218 3.26e+00 1boy b.1.2.1 21951 b.1.2.1 21952 1skoA 143 3.44e+00 1danU 121 3.80e+00 1boy b.1.2.1 21954 1a8h 500 4.00e+00 1a8h a.27.1.1 16922 c.26.1.1 31589 1boy 219 4.21e+00 1boy b.1.2.1 21955 b.1.2.1 21956 1pmy 123 4.22e+00 1bqk b.6.1.1 22888 1kxpD 458 4.86e+00 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1j78A 458 5.67e+00 a.126.1.1 66397 a.126.1.1 66398 a.126.1.1 66399 1bpv 112 6.24e+00 1bpv b.1.2.1 22071 1i5nA 146 9.15e+00 1i5nA a.24.10.3 61805 1avaC 181 9.16e+00 1avaC b.42.4.1 25604 1dr8B 344 1.09e+01 1cnzA c.77.1.1 35052 1c0aA 585 1.13e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1dyqA 234 1.23e+01 3seb b.40.2.2 59140 d.15.6.1 59141 1vetA 124 1.31e+01 1nkqA 259 1.33e+01 1dg6A 191 1.36e+01 1d4vB b.22.1.1 23883 1d2qA 173 1.46e+01 1d4vB b.22.1.1 23894 1hd5A 213 1.59e+01 2eng b.52.1.1 26896 1h3fA 432 1.59e+01 c.26.1.1 76631 d.66.1.4 76632 1bp3B 211 1.66e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1eerB 227 1.72e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1hdkA 141 1.72e+01 b.29.1.3 65807 1roaA 122 1.74e+01 2eng 210 1.74e+01 2eng b.52.1.1 26895 1ft5A 211 1.76e+01 1bvb a.138.1.3 19681 1gm5A 780 1.77e+01 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1jevA 517 1.96e+01 1jevA c.94.1.1 35720 1bvb 211 1.99e+01 1bvb a.138.1.3 19683 1mjfA 281 2.05e+01 c.66.1.17 79198 1m4jA 142 2.05e+01 d.109.1.2 78602 1rot 149 2.12e+01 1fkj d.26.1.1 38429 1neu 124 2.20e+01 1neu b.1.1.1 19704 1ipd 345 2.21e+01 1cnzA c.77.1.1 35038 1mjc 69 2.22e+01 1mjc b.40.4.5 25319 1lcl 142 2.30e+01 1lcl b.29.1.3 24216 3mefA 69 2.34e+01 1mjc b.40.4.5 25320 1shaA 104 2.34e+01 1fmk d.93.1.1 40424 1csp 67 2.37e+01 1mjc b.40.4.5 25321 1ntyA 311 2.40e+01 1g86A 142 2.41e+01 b.29.1.3 70161 1hrkA 359 2.47e+01 1hrkA c.92.1.1 61228 1ikoP 178 2.55e+01 b.6.1.5 71243 1lkkA 105 2.55e+01 1lckA d.93.1.1 40412 1iz6A 138 2.56e+01 b.34.5.2 76976 b.40.4.5 76977 2olbA 517 2.62e+01 1jevA c.94.1.1 35721 8fabA 212 2.62e+01 8fabA b.1.1.1 19772 b.1.1.2 20882 1d4vB 163 2.75e+01 1d4vB b.22.1.1 23884 1on0A 158 2.79e+01 d.108.1.1 87095 1shbA 104 2.79e+01 1fmk d.93.1.1 40425 1jsdA 319 2.85e+01 b.19.1.2 63258 1pba 81 2.87e+01 1pytA d.58.3.1 39067 1r9hA 135 2.93e+01 d.26.1.1 -9482 1euvB 86 3.07e+01 1a5r d.15.1.1 37598 1ag6 99 3.09e+01 1plc b.6.1.1 22857 1ebpA 211 3.15e+01 1eerB b.1.2.1 22023 b.1.2.1 22024 1l1eA 287 3.19e+01 c.66.1.18 73454 1fc4A 401 3.20e+01 1bs0A c.67.1.4 59760 1fjjA 159 3.21e+01 1fjjA b.17.1.2 59852 1nciA 110 3.34e+01 1edhA b.1.6.1 22191 1b47A 304 3.53e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1c9oA 66 3.58e+01 1mjc b.40.4.5 25325 1nb5I 98 3.68e+01 d.17.1.2 80381 1h4rA 314 3.80e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1f2fA 104 3.81e+01 1fmk d.93.1.1 40455 1o5iA 249 3.92e+01 c.2.1.2 -5833