# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1dptA 117 7.32e-02 1dptA d.80.1.3 39862 1hfoA 113 1.13e-01 d.80.1.3 61006 1gyxA 76 2.93e-01 d.80.1.1 76387 1p4kA 295 5.02e-01 d.153.1.5 87772 9gafA 295 5.06e-01 1apyA d.153.1.5 42008 1s0aA 429 5.68e-01 c.67.1.4 -8201 1qj5A 429 8.95e-01 1dtyA c.67.1.4 34493 1s0yA 76 2.67e+00 d.80.1.1 -10434 1dtyA 429 3.08e+00 1dtyA c.67.1.4 34495 1iv3A 152 4.04e+00 d.79.5.1 76828 1otgA 125 4.19e+00 1otgA d.80.1.2 39831 1k6iA 352 6.98e+00 c.2.1.2 68223 1mfiA 114 7.28e+00 1dptA d.80.1.3 39856 1k20A 310 7.78e+00 c.107.1.1 68027 1otfA 62 7.93e+00 1otfA d.80.1.1 39820 1ex2A 189 8.21e+00 1ex2A c.51.4.2 33225 1ihfA 99 8.50e+00 1huuA a.55.1.1 17893 1owfA 99 8.50e+00 a.55.1.1 87487 2vik 126 8.50e+00 2vil d.109.1.1 40829 1k6xA 352 1.05e+01 c.2.1.2 68238 1npdA 288 1.05e+01 c.2.1.7 80681 c.58.1.5 80682 1ukkA 142 1.06e+01 d.227.1.1 -11206 2vil 126 1.10e+01 2vil d.109.1.1 40830 1unnC 115 1.11e+01 unknown_sccs -10216 1q53A 112 1.20e+01 d.58.4.4 -9944 1m4jA 142 1.29e+01 d.109.1.2 78602 1sviA 195 1.34e+01 1qysA 106 1.36e+01 unknown_sccs -13432 1qhtA 775 1.36e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 2chsA 127 1.38e+01 2chsA d.79.1.2 39764 1ow1A 195 1.40e+01 unknown_sccs -4422 1dbfA 127 1.42e+01 2chsA d.79.1.2 39761 1m0dA 138 1.51e+01 c.52.1.17 74354 1b6rA 355 1.52e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1b6sA 355 1.54e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 2cb5A 453 1.63e+01 3gcb d.3.1.1 37035 1jrrA 382 1.72e+01 e.1.1.1 63256 1mwwA 128 1.85e+01 unknown_sccs -10451 1mml 265 1.92e+01 1mml e.8.1.2 43015 1i1qA 520 2.05e+01 1qdlA d.161.1.1 61543 1j27A 102 2.12e+01 unknown_sccs -10116 1fjgJ 105 2.25e+01 1fjfJ d.58.15.1 39330 1rypD 241 2.26e+01 1rypD d.153.1.4 41935 1nrhX 472 2.27e+01 c.2.1.5 -5944 d.162.1.2 -11511 1jznA 135 2.47e+01 d.169.1.1 84262 1qhhA 167 2.52e+01 1pjr c.37.1.19 32393 1d2gA 292 2.55e+01 1xvaA c.66.1.5 34187 1ev0A 58 2.59e+01 1ev0A d.71.1.1 39594 1owfB 94 2.60e+01 a.55.1.1 87488 1q4rA 112 2.75e+01 d.58.4.4 -9943 1i58A 189 2.78e+01 1b3qA d.122.1.3 61773 1hqz1 141 2.79e+01 1k77A 260 2.81e+01 c.1.15.5 72096 1xvaA 292 2.82e+01 1xvaA c.66.1.5 34183 1b3qA 379 2.93e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1qqrA 138 2.94e+01 1bmlC d.15.5.1 37721 1nrjA 158 2.99e+01 d.110.4.4 86124 1d4xG 126 3.01e+01 1d0nA d.109.1.1 59109 1nm1G 125 3.01e+01 d.109.1.1 80653 1nvmB 312 3.02e+01 c.2.1.3 86251 d.81.1.1 86252 1hqz9 141 3.03e+01 1cqqA 180 3.04e+01 1cqqA b.47.1.4 26422 1yagG 125 3.06e+01 1d0nA d.109.1.1 40846 1ihfB 94 3.07e+01 1huuA a.55.1.1 17894 1brlB 324 3.16e+01 1lucA c.1.16.1 29554 1i7kA 179 3.19e+01 1u9aA d.20.1.1 61889 1lucB 324 3.26e+01 1lucA c.1.16.1 29548 1f5aA 513 3.31e+01 1fa0B a.160.1.1 75835 d.218.1.3 75836 d.58.16.1 39337 1iyhA 198 3.32e+01 a.45.1.1 83790 c.47.1.5 83791 1jh6A 189 3.33e+01 d.61.1.1 66707 1mo0A 275 3.47e+01 c.1.1.1 79329 1howA 373 3.66e+01 1hcl d.144.1.7 41679 1g8oA 310 3.73e+01 1g8oA c.68.1.9 60375 1lshB 319 3.77e+01 f.7.1.1 74245 1lq9A 112 3.83e+01 d.58.4.3 78129 1fzrA 138 3.85e+01 1fzrA c.52.1.17 33336 1i60A 278 3.90e+01 c.1.15.4 71118