# List of top-scoring protein chains for T0349.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 2g0dA 409 1.36e+00 1umnA 165 4.14e+00 a.25.1.1 99607 1jt8A 102 4.98e+00 b.40.4.5 63279 1x9fB 145 6.56e+00 1mmfB 194 1.09e+01 c.51.3.1 85019 1iwpB 194 1.09e+01 c.51.3.1 76885 1rz4A 226 1.11e+01 a.4.5.53,a.118.1.18 105131,105132 1kvnA 104 1.12e+01 d.201.1.1 73066 1idm 343 1.13e+01 1cnzA c.77.1.1 35035 1g2uA 345 1.15e+01 1cnzA c.77.1.1 35036 1gc8A 345 1.16e+01 1cnzA c.77.1.1 35042 1osjA 345 1.16e+01 1cnzA c.77.1.1 35039 1xad 345 1.16e+01 1cnzA c.77.1.1 35055 1xaa 345 1.17e+01 1cnzA c.77.1.1 35033 1dr8A 344 1.17e+01 1cnzA c.77.1.1 35051 1ipd 345 1.17e+01 1cnzA c.77.1.1 35038 1walA 345 1.17e+01 1cnzA c.77.1.1 35041 1dr0A 346 1.17e+01 1cnzA c.77.1.1 35045 1gc9A 345 1.17e+01 1cnzA c.77.1.1 35037 1dpzA 349 1.18e+01 1cnzA c.77.1.1 35053 1k4nA 192 1.20e+01 d.32.1.5 72059 1v53A 366 1.41e+01 2ayqA 366 1.41e+01 1cnzA c.77.1.1 35057 1o1xA 155 1.53e+01 c.121.1.1 86553 2fh9A 274 1.59e+01 2eueA 275 1.60e+01 2gq1A 332 1.84e+01 1pdqA 72 1.87e+01 b.34.13.2 94590 1i9cA 137 1.90e+01 c.23.6.1 71136 1ccwA 137 1.94e+01 1be1 c.23.6.1 31238 1lilA 212 1.95e+01 8fabA b.1.1.1,b.1.1.2 20557,21466 2chy 128 2.00e+01 3chy c.23.1.1 31081 1yioA 208 2.03e+01 1w2wB 191 2.10e+01 1v5bA 366 2.22e+01 1wkrA 340 2.22e+01 b.50.1.2 109395 1g61A 228 2.26e+01 1g61A d.126.1.1 41126 1ewsA 32 2.35e+01 1ewsA g.9.1.1 59534 1pfbA 55 2.36e+01 b.34.13.2 94655 1b1a 137 2.39e+01 1be1 c.23.6.1 31242 1ug1A 92 2.64e+01 b.34.2.1 99360 1avqA 228 2.82e+01 1avqA c.52.1.13 33326 1dp4A 435 2.86e+01 1dp4A c.93.1.1 35710 2cucA 70 3.00e+01 1rtxA 123 3.02e+01 a.1.1.1 97827 1s69A 124 3.05e+01 a.1.1.1 105305 1lrv 244 3.13e+01 1lrv a.118.1.5 19146 1cm7A 363 3.13e+01 1cnzA c.77.1.1 35063 2ajaA 376 3.17e+01 1jd1A 129 3.23e+01 1qu9A d.79.1.1 62890 1xhfA 123 3.42e+01 1xfiA 367 3.47e+01 e.50.1.1 109584 1ev12 254 3.50e+01 1aym2 1y37A 304 3.66e+01 1c1gA 284 3.75e+01 1c1gA h.1.5.1 45573 1l3iA 192 3.78e+01 c.66.1.22 77676 1uspB 139 3.97e+01 d.227.1.1 99880 1l5jA 865 3.98e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1elvA 333 4.08e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1p1eA 101 4.12e+01 b.36.1.1 93898 1hey 128 4.16e+01 3chy c.23.1.1 31061 1uspA 139 4.16e+01 d.227.1.1 99879 2d1uA 104 4.26e+01 1xhlA 297 4.56e+01 c.2.1.2 109591 2chf 128 4.61e+01 3chy c.23.1.1 31079 2fc8A 102 4.62e+01 1udrA 129 4.63e+01 3chy c.23.1.1 31041 2fmkA 129 4.64e+01 1iqzA 81 4.72e+01 d.58.1.4 66281 1v5qA 122 4.75e+01 b.36.1.1 108383 1kugA 203 4.83e+01 d.92.1.9 73008 1ymv 129 4.86e+01 3chy c.23.1.1 31045 1ymuA 130 4.90e+01 3chy c.23.1.1 31066 1u8tA 128 4.91e+01 1e6lA 127 4.91e+01 3chy c.23.1.1 59307 1ehc 128 4.92e+01 3chy c.23.1.1 31053 1ab5A 125 4.94e+01 3chy c.23.1.1 31056 1e6kA 130 4.97e+01 3chy c.23.1.1 59306 2fug7 129 5.00e+01 1idrA 136 5.10e+01 1dlyA a.1.1.1 62301 1rxqA 178 5.21e+01 a.213.1.1 105118 6chyA 128 5.25e+01 3chy c.23.1.1 31062 1d4zA 128 5.26e+01 3chy c.23.1.1 31047 5chy 128 5.29e+01 3chy c.23.1.1 31050 1vlzA 128 5.29e+01 3chy c.23.1.1 31048 1jbeA 128 5.30e+01 3chy c.23.1.1 62845 1kufA 203 5.32e+01 d.92.1.9 73007 1ab6A 125 5.33e+01 3chy c.23.1.1 31054 1cye 129 5.34e+01 3chy c.23.1.1 31077 1kmiY 129 5.35e+01 c.23.1.1 72751 1ys7A 233 5.44e+01 1hdoA 206 5.47e+01 1he2A c.2.1.2 60965 1ve1A 304 5.53e+01 1kdhA 363 5.61e+01 a.60.6.1,a.60.12.1,d.218.1.2 72349,75882,75883 1v03A 565 5.62e+01 c.1.8.4 108200 1jmsA 381 5.72e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1uhpA 107 5.83e+01 b.36.1.1 99400 2au5A 139 5.95e+01 1v54E 109 6.02e+01 a.118.11.1 100326 1wdyA 285 6.16e+01 1h9pA 237 6.21e+01 1nls b.29.1.1 60838 1h9wA 237 6.26e+01 1nls b.29.1.1 60853 1dglA 237 6.27e+01 1nls b.29.1.1 24133 1dc7A 124 6.43e+01 1dbwA c.23.1.1 31093 1e4uA 78 6.47e+01 1e4uA g.44.1.1 59231 1oxkB 134 6.71e+01 c.23.1.1 93691 2b4sB 306 6.74e+01 1ir3A 306 6.76e+01 1fmk d.144.1.7 41702 1a05A 358 7.32e+01 1cnzA c.77.1.1 35059 2b1yA 104 7.40e+01 1id3D 130 7.47e+01 a.22.1.1 66115 1uenA 125 7.67e+01 b.1.2.1 99268 1bsg 266 7.86e+01 1btl e.3.1.1 42729 2f91A 237 7.96e+01 1c41A 200 8.01e+01 1di0A c.16.1.1 30962 1ptzA 153 8.03e+01 b.1.8.1 95110 1l3nA 153 8.12e+01 b.1.8.1 73549 1funA 153 8.13e+01 1mfmA b.1.8.1 22259 1sosA 154 8.14e+01 1mfmA b.1.8.1 22249 1n18A 154 8.15e+01 b.1.8.1 79785 1n19A 154 8.17e+01 b.1.8.1 79795 1dswA 153 8.28e+01 1mfmA b.1.8.1 22271 1cnzA 363 8.29e+01 1cnzA c.77.1.1 35061 1us8B 144 8.33e+01 1p14A 306 8.34e+01 d.144.1.7 87660 1h3gA 601 8.35e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 2bkrA 212 8.44e+01 1irk 306 8.47e+01 1fmk d.144.1.7 41703 1g7oA 215 8.49e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1xt9A 212 8.56e+01 1e32A 458 8.68e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 1mfmA 153 8.71e+01 1mfmA b.1.8.1 22246 1mwqA 101 8.80e+01 d.58.4.7 91481 1tvgA 153 8.85e+01 2tmaA 284 9.00e+01 h.1.5.1 45571