# List of top-scoring protein chains for T0231.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 1f7sA 139 2.31e-18 1cof d.109.1.2 40857 1v6fA 151 3.93e-16 1cfyA 143 1.98e-15 1cof d.109.1.2 40858 1cnuA 137 6.27e-15 1cof d.109.1.2 40862 1ak6 174 6.52e-15 1cof d.109.1.2 40865 1m4jA 142 3.42e-14 d.109.1.2 78602 1hqz1 141 4.45e-05 1udmA 149 7.73e-03 1ae1A 273 8.97e-01 1bdb c.2.1.2 29943 1mai 131 1.48e+00 1mai b.55.1.1 26951 1ipeA 259 2.05e+00 c.2.1.2 83700 2ae2A 260 2.05e+00 1bdb c.2.1.2 29945 1s4kA 120 2.22e+00 1h8bA 75 2.98e+00 a.39.1.7 60736 1apa 266 4.96e+00 1qi7A d.165.1.1 42205 1reoA 486 6.63e+00 c.3.1.2 -5997 d.16.1.5 -9217 1qwrA 319 6.86e+00 b.82.1.3 -4880 1qcxA 359 7.74e+00 1qcxA b.80.1.2 28028 1jkgA 140 8.85e+00 d.17.4.2 66795 1vh0A 161 8.89e+00 c.116.1.3 -6692 1ctm 250 9.17e+00 1hcz b.2.6.1 22465 b.84.2.2 28251 1hcz 252 9.19e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1qqp2 218 1.05e+01 1qqp2 1auk 488 1.10e+01 1auk c.76.1.2 35030 1e1zP 489 1.11e+01 1auk c.76.1.2 59158 1e2sP 489 1.11e+01 1auk c.76.1.2 35031 1o6fA 710 1.20e+01 b.69.7.1 81085 c.69.1.4 81086 1g7kA 233 1.20e+01 1ggxA d.22.1.1 38371 1o6gA 710 1.22e+01 b.69.7.1 81087 c.69.1.4 81088 1e8nA 710 1.23e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1h2wA 710 1.24e+01 b.69.7.1 76596 c.69.1.4 76597 1h2xA 710 1.29e+01 b.69.7.1 76598 c.69.1.4 76599 1qciA 262 1.31e+01 1qi7A d.165.1.1 42201 1e33P 488 1.36e+01 1auk c.76.1.2 59186 1e3cP 489 1.39e+01 1auk c.76.1.2 59187 1e5tA 710 1.50e+01 1qfmA b.69.7.1 27676 c.69.1.4 34644 1ja9A 274 1.54e+01 c.2.1.2 62817 1h8pA 109 1.73e+01 g.14.1.2 70916 g.14.1.2 70917 1f8rA 498 1.90e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1j9aA 184 1.91e+01 c.55.3.5 84135 1j1qA 261 1.91e+01 d.165.1.1 -11546 1v27A 141 1.92e+01 b.7.1.2 -2969 1oc2A 348 2.02e+01 c.2.1.2 -5753 1a3h 300 2.09e+01 7a3hA c.1.8.3 28819 7a3hA 303 2.09e+01 7a3hA c.1.8.3 28817 1qi2A 305 2.09e+01 7a3hA c.1.8.3 28824 1h5vA 304 2.09e+01 c.1.8.3 70898 1lf1A 308 2.10e+01 c.1.8.3 73877 1b4aA 149 2.21e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1ggxA 222 2.37e+01 1ggxA d.22.1.1 38367 1ivnA 190 2.46e+01 c.23.10.5 83719 1sjjA 863 2.56e+01 i.15.1.1 -13228 1mhnA 59 2.56e+01 b.34.9.1 84964 1j00A 189 2.58e+01 c.23.10.5 83854 1qca 213 2.64e+01 3cla c.43.1.1 32616 1jgnA 98 2.85e+01 a.144.1.1 84170 1g5vA 88 2.87e+01 1g5vA b.34.9.1 60292 1jrlA 190 2.88e+01 c.23.10.5 84205 1qmgA 524 2.97e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1s9uA 207 3.02e+01 1g9lA 144 3.08e+01 1g9lA a.144.1.1 60399 1btn 106 3.10e+01 1btn b.55.1.1 26952 1khoA 370 3.16e+01 a.124.1.1 72489 b.12.1.3 72490 1pw5A 253 3.22e+01 unknown_sccs -6852 1ddmA 135 3.30e+01 2nmbA b.55.1.2 26993 1vjrA 271 3.39e+01 unknown_sccs -6853 1obfO 335 3.41e+01 c.2.1.3 86768 d.81.1.1 86769 1qd1A 325 3.45e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1elt 236 3.45e+01 5ptp b.47.1.2 26281 1jmkC 230 3.54e+01 c.69.1.22 71747 2nmbA 160 3.54e+01 2nmbA b.55.1.2 26994 1k1xA 659 3.56e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1gw0A 559 3.57e+01 b.6.1.3 70623 b.6.1.3 70624 b.6.1.3 70625 1j6xA 160 3.59e+01 1j98A d.185.1.2 62665 1khhA 198 3.68e+01 c.66.1.16 68615 1p1cA 199 3.69e+01 c.66.1.16 87669 1n55A 251 3.70e+01 c.1.1.1 80007 1amk 251 3.71e+01 1amk c.1.1.1 28503 1k66A 149 3.71e+01 c.23.1.1 -6406 2lao 238 3.73e+01 1lst c.94.1.1 35758 1lst 239 3.74e+01 1lst c.94.1.1 35755 1pt2A 447 3.82e+01 unknown_sccs -4550 1oy5A 257 3.83e+01 c.116.1.4 -6699 1jtcA 146 3.86e+01 b.42.1.1 67260 1oygA 447 3.88e+01 unknown_sccs -4549 1pwhA 327 3.89e+01 c.79.1.1 -8524