# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.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 2plsA 86 2.20e-13 2oaiA 94 5.63e-13 2p13A 90 1.43e-12 2o1rA 81 2.55e-12 2nqwA 93 2.86e-12 2p4pA 86 6.90e-12 2pliA 91 1.08e-11 2p3hA 101 9.13e-09 2rk5A 87 1.02e-08 2anrA 178 2.91e-01 2r6fA 972 7.36e-01 2pp6A 102 8.62e-01 2g2kA 170 8.92e-01 2nrlA 147 2.54e+00 2ehsA 77 3.46e+00 2qcoA 210 3.48e+00 2z14A 133 4.19e+00 2o3aA 178 5.19e+00 1r4vA 171 5.41e+00 a.22.1.4 97049 2osaA 202 5.66e+00 1u1zA 168 6.84e+00 d.38.1.6 107602 1yvcA 70 7.06e+00 b.40.4.12 124094 1qxoA 388 7.89e+00 d.258.1.1 96539 1wvtA 172 7.95e+00 2e6mA 208 9.96e+00 1mr3F 181 1.00e+01 c.37.1.8 79422 2b5gA 171 1.00e+01 d.108.1.1 127892 1wh2A 78 1.14e+01 d.76.1.1 114630 1ncx 162 1.14e+01 1ncx 1smlA 269 1.15e+01 1smlA d.157.1.1 42053 1q4uA 151 1.16e+01 d.38.1.5 95828 1topA 162 1.16e+01 a.39.1.5 17223 1l1nA 183 1.19e+01 b.47.1.4 73476 2aioA 269 1.21e+01 d.157.1.1 126829 1ybyA 215 1.27e+01 2guzB 65 1.28e+01 2fztA 79 1.34e+01 a.46.3.1 134476 2bh4X 134 1.34e+01 2pjmA 226 1.36e+01 1lddA 74 1.44e+01 a.4.5.34 73841 1kk1A 410 1.51e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1y5hA 133 1.54e+01 d.37.1.1,d.37.1.1 122635,122636 1rfkA 98 1.58e+01 1offA 97 1.60e+01 d.15.4.1 86947 1wozA 177 1.64e+01 1eo6A 117 1.65e+01 1eo6A d.15.1.3 37609 2i10A 202 1.66e+01 a.4.1.9,a.121.1.1 136960,136961 1z6bA 154 1.67e+01 d.38.1.6 124510 2amwA 83 1.78e+01 2q7xA 326 1.88e+01 1s0uA 408 1.89e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 2p18A 311 1.99e+01 2b6hA 192 2.00e+01 c.37.1.8 127994 2gcuA 245 2.01e+01 3bqaA 148 2.10e+01 2b49A 287 2.10e+01 1a1aA 107 2.13e+01 1fmk d.93.1.1 40449 1uvjA 664 2.19e+01 e.8.1.6 100045 1wdcC 156 2.25e+01 1wdcC a.39.1.5 17317 1f80D 81 2.31e+01 1acp a.28.1.1 59686 2z0dB 125 2.38e+01 d.15.1.3 140096 1hi0P 664 2.58e+01 1hi0P e.8.1.6 61051 1g13A 162 2.72e+01 1g13A b.95.1.1 60194 2g7gA 213 2.75e+01 a.4.1.9,a.121.1.1 134732,134733 1dv5A 80 2.76e+01 1dv5A a.28.1.3 59139 1sfxA 109 2.81e+01 a.4.5.50 105505 1a2xA 159 2.82e+01 1ncx a.39.1.5 17251 1oj5A 132 2.82e+01 d.110.3.8 93087 1fxiA 96 2.84e+01 1awd d.15.4.1 37664 2dxaA 166 2.86e+01 1m9nA 613 2.90e+01 c.24.1.3,c.97.1.4 78870,78871 1w5rA 278 2.95e+01 d.3.1.5 120643 2r2iA 198 2.99e+01 1xv2A 237 3.02e+01 d.290.1.1 116076 2essA 248 3.19e+01 d.38.1.8,d.38.1.8 132346,132347 2vg9A 217 3.20e+01 2fjrA 189 3.20e+01 1b3sD 90 3.31e+01 1ay7B c.9.1.1 30846 1xkfA 133 3.31e+01 d.37.1.1,d.37.1.1 122077,122078 3ce7A 107 3.33e+01 1kjnA 157 3.35e+01 c.115.1.1 72614 2ds0A 130 3.44e+01 1gypA 358 3.44e+01 1dssG c.2.1.3,d.81.1.1 30004,39919 1c2rA 116 3.44e+01 1ycc a.3.1.1 15887 1l0iA 78 3.48e+01 a.28.1.1 77643 2z0hA 197 3.49e+01 1t8kA 77 3.60e+01 a.28.1.1 106666 2fo3A 125 3.61e+01 d.20.1.1 133868 1gx3A 284 3.62e+01 d.3.1.5 70678 1lcjA 109 3.62e+01 1qadA d.93.1.1 40414 1o3yA 166 3.66e+01 c.37.1.8 86618 1r8sA 164 3.72e+01 c.37.1.8 97247 1yprA 125 3.77e+01 3nul d.110.1.1 40888 2rhsB 800 3.78e+01 1trrA 107 3.86e+01 1jhgA a.4.12.1 19017 2hpvA 208 3.89e+01 2ovkC 159 3.89e+01 2hh8A 149 3.91e+01 1b1gA 75 3.93e+01 1psrA a.39.1.1 17151 2dm9A 198 4.03e+01 1xk5A 204 4.07e+01 1t3bA 211 4.15e+01 c.47.1.9,d.17.3.1 106341,106342 2e9xB 185 4.15e+01 2uuuA 584 4.20e+01 2ey4C 82 4.27e+01 b.43.3.5 132582 1c3yA 108 4.31e+01 1c3yA a.39.2.1 17387 1g8mA 593 4.33e+01 1g8mA c.24.1.3,c.97.1.4 60371,60372 1umgA 362 4.45e+01 d.280.1.1 107956 1aotF 106 4.46e+01 1lckA d.93.1.1 40458 1b2sD 90 4.50e+01 1ay7B c.9.1.1 30837 451cA 82 4.51e+01 a.3.1.1 15904 2c4wA 176 4.52e+01 1ri7A 171 4.56e+01 a.4.5.32,d.58.4.2 97504,97505 1czpA 98 4.58e+01 1awd d.15.4.1 37645 1ay7B 89 4.65e+01 1ay7B c.9.1.1 30836 2cyyA 151 4.68e+01 a.4.5.32,d.58.4.2 131028,131029 2qeuA 141 4.69e+01 1hurA 180 4.71e+01 1hurA c.37.1.8 32052 1z6oA 212 4.72e+01 a.25.1.1 124531 1gw5A 621 4.74e+01 a.118.1.10 70629 2e57A 637 4.76e+01 1v5rA 97 4.77e+01 d.82.4.1 119854 1gehA 444 4.79e+01 c.1.14.1,d.58.9.1 65181,65182 2nxwA 565 4.81e+01 2p6vA 114 4.86e+01 1p0fA 373 4.87e+01 b.35.1.2,c.2.1.1 87642,87643 2gmgA 105 4.99e+01 3ccgA 190 5.00e+01 1bkb 136 5.01e+01 1bkb 1i8dA 213 5.01e+01 b.43.4.3,b.43.4.3 61953,61954 2b7eA 59 5.11e+01 2qnwA 82 5.18e+01 2h58A 330 5.21e+01 2i6cA 160 5.27e+01 d.108.1.1 137095 1fmk 452 5.29e+01 1fmk 1acf 125 5.44e+01 3nul 2k0mA 104 5.46e+01 1acfA 125 5.47e+01 d.110.1.1 40882 1t56A 216 5.47e+01 a.4.1.9,a.121.1.1 106428,106429 1uptA 171 5.55e+01 c.37.1.8 99767 1shdA 107 5.56e+01 1fmk d.93.1.1 40440 1ifcA 132 5.57e+01 b.60.1.2 27173 1ifc 132 5.57e+01 1uouA 474 5.62e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 3ci3A 194 5.66e+01 3b9jB 350 5.66e+01 1o4rA 108 5.70e+01 d.93.1.1 92469 1itcA 516 5.71e+01 b.3.1.1,c.1.8.1 83705,83706 1bkbA 136 5.74e+01 b.34.5.2,b.40.4.5 24609,25341 1ob8A 135 5.80e+01 c.52.1.18 111627 1nogA 177 5.83e+01 a.25.2.2 85923 1wfxA 186 5.84e+01 d.166.1.5 114596 1vemA 516 5.85e+01 b.3.1.1,c.1.8.1 120021,120022 2o11A 407 6.03e+01 1r4aA 165 6.06e+01 c.37.1.8 96986 1b9zA 516 6.17e+01 1b9zA b.3.1.1,c.1.8.1 22528,28798 2gjgA 248 6.18e+01 1wa3A 205 6.23e+01 c.1.10.1 120802 2z0tA 109 6.27e+01 1jkw 323 6.36e+01 1jkw 2ch4W 151 6.42e+01 b.40.7.1 130451 2c1fA 234 6.44e+01 1yx1A 264 6.48e+01 c.1.15.7 124169 2pa6A 427 6.49e+01 2cmxA 118 6.68e+01 2vqcA 118 6.68e+01 1a70A 97 6.71e+01 d.15.4.1 37678 1zzoA 136 6.73e+01 c.47.1.10 125913 2ns9A 157 6.74e+01 5tmpA 213 6.74e+01 5tmpA c.37.1.1 31931 1t6cA 315 6.75e+01 c.55.1.8,c.55.1.8 106558,106559 1u9lA 70 6.88e+01 a.60.4.2 107751 1q98A 165 6.88e+01 c.47.1.10 96253 1lk5A 229 6.92e+01 c.124.1.4,d.58.40.1 73960,73961 1hkqA 132 6.93e+01 a.4.5.10 83555 1owfB 94 6.97e+01 a.55.1.1 87488 1hh1A 143 7.05e+01 1gefA c.52.1.18 61036 1pbwA 216 7.09e+01 1pbwA a.116.1.1 19103 1vydA 116 7.17e+01 a.3.1.1 108900 2j0fA 482 7.29e+01 2yyyA 343 7.32e+01 1g8iA 190 7.34e+01 1rec a.39.1.5 60363 1fjgK 129 7.37e+01 1fjfK c.55.4.1 33733 1jhgA 101 7.43e+01 1jhgA a.4.12.1 19009 2yr1A 257 7.47e+01 2bl0B 145 7.49e+01 1z06A 189 7.50e+01 c.37.1.8 124301 1eejA 216 7.52e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1p4kA 295 7.69e+01 d.153.1.5 87772 2ao3A 130 7.92e+01