# List of top-scoring protein chains for t2k-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 1gm6A 175 2.93e-02 b.60.1.1 70272 1dzkA 157 2.56e-01 1obpA b.60.1.1 27096 1a3yA 149 3.17e-01 1obpA b.60.1.1 27110 1i05A 180 3.86e-01 1mup b.60.1.1 27130 1i06A 180 3.91e-01 1mup b.60.1.1 27131 1qy1A 174 5.50e-01 1ew3A 159 6.31e-01 1mup b.60.1.1 27114 1bh5A 183 6.86e-01 1qipA d.32.1.1 38476 1jv4A 162 6.96e-01 b.60.1.1 67343 1qwdA 177 9.53e-01 1h91A 180 1.18e+00 b.60.1.1 60805 1i4uA 181 1.44e+00 b.60.1.1 61732 1e5pA 151 1.52e+00 1bj7 b.60.1.1 59272 1mup 166 1.62e+00 1mup b.60.1.1 27133 1epaA 164 1.67e+00 1epaA b.60.1.1 27128 1qipA 183 1.94e+00 1qipA d.32.1.1 38470 1df3A 162 2.11e+00 1mup b.60.1.1 27134 1epbA 164 2.63e+00 1epaA b.60.1.1 27126 9apiA 347 2.64e+00 1ovaA e.1.1.1 42630 1jzuA 157 2.71e+00 b.60.1.1 84271 2rslA 140 3.00e+00 2rslA c.53.1.1 33345 1f93A 104 3.03e+00 1dcpA d.74.1.1 39688 1k4nA 192 3.19e+00 d.32.1.5 72059 1d8iA 311 3.33e+00 1d8iA d.63.1.1 39541 1ex2A 189 3.38e+00 1ex2A c.51.4.2 33225 1dcoA 104 3.61e+00 1dcpA d.74.1.1 39680 1o22A 170 3.65e+00 d.238.1.1 86557 1dcpA 104 3.93e+00 1dcpA d.74.1.1 39672 1pkhA 204 4.20e+00 1oghA 204 4.42e+00 b.85.4.1 86994 1agi 125 4.45e+00 7rsa d.5.1.1 37303 1ik9A 213 4.46e+00 b.59.1.1 66176 h.1.11.1 66177 1d8hA 311 4.78e+00 1d8iA d.63.1.1 39544 1bj7 156 4.90e+00 1bj7 b.60.1.1 27113 1dchA 104 4.94e+00 1dcpA d.74.1.1 39692 1qqsA 174 5.07e+00 1nglA b.60.1.1 27143 1tdj 514 5.14e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1mwqA 101 5.49e+00 1gt1A 159 5.53e+00 1hn2A 159 5.56e+00 b.60.1.1 65890 1gio 125 6.54e+00 7rsa d.5.1.1 37304 1un3A 123 6.67e+00 1h0fA 123 6.98e+00 d.5.1.1 83431 1fhoA 119 6.99e+00 1fhoA b.55.1.1 26982 1nh8A 304 7.48e+00 c.94.1.1 80507 d.58.5.3 80508 1qysA 106 7.52e+00 1lfpA 249 7.86e+00 e.39.1.1 73885 1h5wA 309 7.86e+00 e.27.1.1 65635 1aw0 72 7.88e+00 1aw0 d.58.17.1 39342 1qovH 260 8.52e+00 6prcH b.41.1.1 25464 f.23.10.1 43457 1j8dA 180 8.97e+00 c.108.1.5 66433 1irxA 523 9.03e+00 a.97.1.2 71378 c.26.1.1 71379 1k3eA 156 9.49e+00 d.198.1.1 68103 1eikA 77 9.68e+00 1eikA d.78.1.1 39751 1ijgA 309 1.04e+01 1fouA e.27.1.1 62493 1uwvA 433 1.05e+01 1efcA 393 1.07e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1cjxA 357 1.07e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1mgtA 174 1.16e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 1k1eA 180 1.17e+01 c.108.1.5 67995 1fu1B 203 1.19e+01 1fu1B b.59.1.1 27077 h.1.11.1 45631 1mg7A 417 1.20e+01 d.14.1.6 84954 d.58.26.6 84955 1obpA 159 1.27e+01 1obpA b.60.1.1 27092 1v8cA 168 1.31e+01 1fu1A 203 1.31e+01 1fu1B b.59.1.1 27076 h.1.11.1 45630 1ax4A 467 1.33e+01 1ax4A c.67.1.2 34391 1rzhH 260 1.38e+01 1ksyA 154 1.40e+01 d.89.1.2 72948 1s98A 107 1.43e+01 1h9mA 145 1.44e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1kz7A 353 1.45e+01 a.87.1.1 73333 b.55.1.1 73334 1iq4A 179 1.51e+01 1iq4A d.77.1.1 62641 1jyhA 157 1.64e+01 d.60.1.3 71956 1gefA 123 1.64e+01 1gefA c.52.1.18 60465 1lmzA 187 1.65e+01 a.96.1.4 74037 1volA 204 1.67e+01 1tfb a.74.1.2 18370 a.74.1.2 18371 1h3qA 140 1.68e+01 d.110.4.3 76652 1aisB 200 1.69e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1t7pA 698 1.69e+01 1t7pA c.55.3.5 33712 e.8.1.1 43005 1k59A 123 1.71e+01 d.5.1.1 72073 1qlpA 394 1.71e+01 1ovaA e.1.1.1 42628 1v5sA 126 1.75e+01 1h9jA 145 1.78e+01 1h9jA b.40.6.2 60829 b.40.6.2 60830 1d3uB 201 1.80e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1skoB 130 1.82e+01 1qtoA 122 1.93e+01 1bylA d.32.1.2 38494 1f0cA 305 1.95e+01 1c8oA e.1.1.1 42676 1j1uA 306 2.02e+01 c.26.1.1 83980 1gdtA 183 2.03e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1hbyA 123 2.03e+01 7rsa d.5.1.1 60936 1ukkA 142 2.07e+01 1s71A 316 2.10e+01 1sgvA 316 2.10e+01 1n91A 108 2.15e+01 d.206.1.1 80326 1ecsA 126 2.19e+01 1ecsA d.32.1.2 59407 1l6rA 227 2.21e+01 c.108.1.10 77768 1hkxA 147 2.23e+01 d.17.4.7 83567 1auvA 311 2.25e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1hfoA 113 2.34e+01 d.80.1.3 61006 1pp7U 131 2.42e+01 3sdhA 146 2.45e+01 3sdhA a.1.1.2 14984 1bd2D 204 2.46e+01 1tcrA b.1.1.1 20622 b.1.1.2 21557 1g6hA 257 2.50e+01 1gajA c.37.1.12 60318 1uc8A 280 2.52e+01 1atiA 505 2.53e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1omiA 248 2.56e+01 a.4.5.4 87079 b.82.3.3 87080 1gajA 257 2.56e+01 1gajA c.37.1.12 60416 1eiwA 111 2.57e+01 1eiwA c.23.3.1 31130 1fa8A 135 2.59e+01 1qipA d.32.1.1 38486 1eal 127 2.63e+01 1hmt b.60.1.2 27227 1poh 85 2.67e+01 1ptf d.94.1.1 40553 1nglA 179 2.74e+01 1nglA b.60.1.1 27146 1hbkA 94 2.74e+01 1aca a.11.1.1 60887 1m4jA 142 2.75e+01 d.109.1.2 78602 1dhy 292 2.77e+01 1han d.32.1.3 38504 d.32.1.3 38505 1a6f 119 2.78e+01 1a6f d.14.1.2 37564 1idpA 172 2.81e+01 d.17.4.1 83685 1ne8A 117 2.85e+01 b.34.6.2 80424 1feuA 206 2.88e+01 1feuA b.53.1.1 59801 1rwsA 77 2.88e+01 1whsB 153 2.96e+01 1whtB 1je5A 206 2.96e+01 1je5A b.40.4.7 62909 1l0bA 229 2.97e+01 c.15.1.3 73391 c.15.1.3 73392 1okgA 373 2.98e+01 1ml8A 134 2.98e+01 d.227.1.2 85013 1p9vA 310 3.07e+01 d.21.1.2 88007 d.21.1.2 88008 1sdjA 310 3.07e+01 1e8xA 961 3.08e+01 1e8xA a.118.1.6 19148 b.7.1.1 23183 d.15.1.5 37631 d.144.1.4 41711 1lvk 762 3.11e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1b4aA 149 3.12e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1i58A 189 3.13e+01 1b3qA d.122.1.3 61773 1oo0A 147 3.13e+01 d.232.1.1 87182 1vi7A 217 3.16e+01 1r9gA 216 3.17e+01 1nukA 183 3.18e+01 1nukA b.18.1.4 23721 1dzfA 215 3.18e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 2prd 174 3.19e+01 2prd b.40.5.1 25435 1opd 85 3.23e+01 1ptf d.94.1.1 40560 1kw3B 292 3.24e+01 d.32.1.3 77549 d.32.1.3 77550 1dmgA 225 3.25e+01 1dmgA c.22.1.1 31036 1m3iA 471 3.27e+01 1anv 356 3.28e+01 1anv a.54.1.1 17890 g.51.1.1 45365 g.51.1.1 45371 1bebA 162 3.29e+01 1bebA b.60.1.1 27115 1ejhA 190 3.32e+01 1ejhA d.86.1.1 40147 1f5qB 252 3.35e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1ng6A 148 3.37e+01 a.182.1.1 85670 1pfo 500 3.41e+01 1pfo f.9.1.1 43826 1ifqA 138 3.44e+01 1ifqA d.110.4.1 62350 1vioA 243 3.45e+01 1dk8A 147 3.49e+01 1agrE a.91.1.1 18548 3ssi 113 3.54e+01 3ssi d.84.1.1 40032 1bdo 80 3.62e+01 1bdo b.84.1.1 28214 1ln4A 104 3.62e+01 d.68.4.1 74043 1bcsB 160 3.69e+01 1whtB 1gw5S 142 3.69e+01 d.110.4.2 70633 1ewjA 126 3.73e+01 1ecsA d.32.1.2 59526 1r6lA 239 3.74e+01 1f1xA 322 3.76e+01 d.32.1.3 83208 d.32.1.3 83209 1mek 120 3.83e+01 1erv c.47.1.2 32775 1p4wA 99 3.86e+01 a.4.6.2 87783 1rfmA 344 3.86e+01 1bcpB 199 3.88e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1q0sA 259 3.89e+01 2if1 126 3.89e+01 2if1 d.64.1.1 39547 1f9zA 135 3.93e+01 1qipA d.32.1.1 38484 1b3qA 379 3.94e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1mfiA 114 3.95e+01 1dptA d.80.1.3 39856 1lngA 87 3.96e+01 d.201.1.1 74045