# List of top-scoring protein chains for t2k-100-30-bys 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 1jjyA 636 4.57e-01 1jjyA 1su8A 636 4.68e-01 e.26.1.2 -12015 1fuxA 166 1.12e+00 1fjjA b.17.1.2 60034 1q33A 292 1.68e+00 d.113.1.1 -10901 1bw4 125 1.74e+00 1bw4 b.52.1.2 26900 1qvjA 292 1.89e+00 d.113.1.1 -10902 1oaoA 674 2.40e+00 e.26.1.2 86744 1mxa 383 2.43e+00 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1bw3 125 3.41e+00 1bw4 b.52.1.2 26899 1riqA 465 3.55e+00 unknown_sccs -1295 d.104.1.1 -10769 1a6bB 40 3.59e+00 1a6bB g.40.1.1 45172 1m4iA 181 3.59e+00 d.108.1.1 74457 1fjjA 159 3.66e+00 1fjjA b.17.1.2 59852 1mxb 383 3.84e+00 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1npoA 95 4.68e+00 1npoA b.9.1.1 23270 1npoC 95 5.36e+00 1npoA b.9.1.1 23271 1fi8A 228 6.50e+00 5ptp b.47.1.2 26374 2rveA 244 6.87e+00 1rvaA c.52.1.2 33283 1fd9A 213 6.90e+00 1fd9A d.26.1.1 59771 1ejaB 59 7.39e+00 1ejaB g.3.15.1 59416 2cbh 36 8.51e+00 2cbh g.3.8.1 44181 1nlr 234 8.91e+00 2nlrA b.29.1.11 24345 1gu7A 364 9.06e+00 b.35.1.2 83321 c.2.1.1 83322 1kmxA 55 9.50e+00 g.25.1.1 72758 1aun 208 9.73e+00 1thv b.25.1.1 23900 1m6bA 621 1.09e+01 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1klo 162 1.15e+01 1klo g.3.11.2 44326 g.3.11.2 44327 g.3.11.2 44328 1ncg 110 1.21e+01 1edhA b.1.6.1 22193 1eybA 471 1.26e+01 1ey2A b.82.1.4 28115 2vgh 55 1.27e+01 2vgh g.25.1.1 44946 1cbh 36 1.35e+01 2cbh g.3.8.1 44182 1eysL 280 1.37e+01 6prcL f.26.1.1 43515 1rwtA 232 1.41e+01 unknown_sccs -12345 1i6uA 130 1.44e+01 d.140.1.1 61850 1krhA 338 1.50e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1rvaA 244 1.50e+01 1rvaA c.52.1.2 33240 1jk4A 89 1.54e+01 b.9.1.1 77130 2bn2A 95 1.67e+01 1npoA b.9.1.1 23266 1c7nA 399 1.71e+01 1d2fA c.67.1.3 34413 1ffkB 338 1.75e+01 1ffkB b.43.3.2 25719 1nciA 110 1.78e+01 1edhA b.1.6.1 22191 1mbmA 198 1.84e+01 b.47.1.3 78916 1gdeA 389 1.94e+01 c.67.1.1 60456 1vgh 55 1.98e+01 2vgh g.25.1.1 44945 1ueoA 63 2.07e+01 unknown_sccs -13343 1d2fA 390 2.08e+01 1d2fA c.67.1.3 34411 1jakA 512 2.24e+01 c.1.8.6 66472 d.92.2.1 66473 1hp5A 512 2.27e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 1eonA 245 2.31e+01 1rvaA c.52.1.2 33238 1hp4A 512 2.32e+01 1hp4A c.1.8.6 61111 d.92.2.1 61112 1gd9A 389 2.42e+01 c.67.1.1 60454 1ey2A 471 2.54e+01 1ey2A b.82.1.4 28116 1l7lA 121 2.62e+01 b.18.1.16 77790 1jtkA 136 2.70e+01 c.97.1.1 71862 1kt9A 138 2.72e+01 d.113.1.1 72959 1f1gA 154 2.75e+01 b.1.8.1 76153 1qh0A 295 2.89e+01 b.43.4.2 68891 c.25.1.1 68892 1qsuA 30 2.95e+01 k.3.1.1 46399 1rg9A 383 3.08e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1qg0A 308 3.18e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 2nlrA 234 3.21e+01 2nlrA b.29.1.11 24344 1oygA 447 3.21e+01 unknown_sccs -4549 1nykA 165 3.23e+01 b.33.1.1 86408 1yveI 524 3.31e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1c76A 136 3.33e+01 2sak d.15.5.1 37718 1l5cA 92 3.35e+01 b.9.1.1 73577 1go2A 304 3.38e+01 b.43.4.2 76243 c.25.1.1 76244 1fa0B 537 3.41e+01 1fa0B a.160.1.1 75839 d.218.1.3 75840 d.58.16.1 39336 1b2rA 304 3.42e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1b7bA 310 3.44e+01 1b7bA c.73.1.1 34963 1m2dA 110 3.48e+01 c.47.1.11 78476 1kid 203 3.55e+01 1derA c.8.5.1 30771 1ei8A 29 3.57e+01 k.3.1.1 -13440 1qmgA 524 3.57e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1mcvI 28 3.70e+01 g.3.2.1 78951 1r8hA 87 3.80e+01 d.58.8.1 -10041 1uwzA 136 3.82e+01 1cne 270 3.87e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1khqA 212 3.94e+01 d.3.1.1 -8868 1m93B 245 3.97e+01 1yacA 208 3.97e+01 1yacA unknown_sccs 31757 1jcv 153 3.98e+01 1mfmA b.1.8.1 22279 1fqgA 263 3.99e+01 1btl e.3.1.1 42699 1xer 103 4.00e+01 1xer d.58.1.3 38990