# List of top-scoring protein chains for t04-100-40-40-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 1kafA 108 4.74e-01 d.199.1.1 68372 1ik9A 213 5.36e-01 b.59.1.1 66176 h.1.11.1 66177 1h6qA 168 6.66e-01 1h6qA b.88.1.2 60692 1msc 129 9.31e-01 1msc d.85.1.1 40039 1dkzA 219 1.97e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1txjA 171 2.39e+00 1rypI 222 2.56e+00 d.153.1.4 41877 1dm9A 133 3.34e+00 1dm9A d.66.1.3 39560 1n27A 96 4.26e+00 b.34.9.2 -3585 1fu1A 203 4.49e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1flcB 175 5.05e+00 1flcB h.3.1.1 45716 1v7zA 260 5.21e+00 unknown_sccs -6353 1f4lA 551 6.10e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1914 232 6.56e+00 1914 d.49.1.1 83028 d.49.1.1 83029 1szwA 379 6.92e+00 unknown_sccs -10164 1b24A 188 6.96e+00 1b24A d.95.2.1 40573 d.95.2.1 40574 1v58A 241 7.97e+00 1pfvA 551 7.99e+00 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1jyoE 105 8.14e+00 d.184.1.2 67487 1bhdA 118 8.73e+00 1bkrA a.40.1.1 17398 1bbhA 131 9.58e+00 1bbhA a.24.3.2 16546 1eejA 216 9.63e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1dgwY 93 9.85e+00 1caxB 1m5q1 130 9.86e+00 1llnA 262 1.01e+01 d.165.1.1 84625 1g55A 343 1.08e+01 1g55A c.66.1.26 34247 1fjgJ 105 1.11e+01 1fjfJ d.58.15.1 39330 1r4xA 275 1.20e+01 unknown_sccs -2846 unknown_sccs -10776 1hqsA 423 1.22e+01 1iso c.77.1.1 61154 1m93B 245 1.34e+01 1tmy 120 1.39e+01 1dbwA c.23.1.1 31083 1h6hA 143 1.48e+01 d.189.1.1 65681 1sczA 233 1.51e+01 c.43.1.1 -7326 1louA 101 1.53e+01 1ris d.58.14.1 39323 1dfmA 223 1.66e+01 1d2iA c.52.1.5 33295 1jyaA 130 1.71e+01 d.198.1.1 67453 1qavA 90 1.72e+01 1qauA b.36.1.1 24777 1t7sA 137 1.78e+01 1ub1A 133 1.86e+01 d.10.1.3 -8969 1nx8A 273 1.87e+01 b.82.2.8 86374 1c3jA 351 1.97e+01 1c3jA c.87.1.1 35459 1lci 550 1.97e+01 1lci e.23.1.1 43349 1kl9A 182 2.00e+01 b.40.4.5 72681 1j34A 129 2.02e+01 d.169.1.1 84048 1f3mA 80 2.05e+01 1f3mA j.66.1.1 46358 1i8fA 81 2.06e+01 1i8fA b.38.1.1 61959 1br1B 150 2.07e+01 1wdcC a.39.1.5 17309 1ihrA 76 2.22e+01 1ihrA d.212.1.2 62392 1vjhA 122 2.24e+01 d.129.3.1 -11037 1jeyA 609 2.25e+01 1jeqA unknown_sccs -4426 unknown_sccs -7990 1r89A 437 2.41e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1fs0E 138 2.45e+01 1aqt a.2.10.1 59997 b.93.1.1 59998 1wdcC 156 2.46e+01 1wdcC a.39.1.5 17317 1kyqA 274 2.49e+01 c.2.1.11 73281 e.37.1.1 73282 1k87A 669 2.54e+01 a.176.1.1 77286 c.1.23.2 77287 1j1yA 136 2.61e+01 d.38.1.5 -9671 1kq1A 77 2.62e+01 b.38.1.2 72848 1o4sA 389 2.67e+01 c.67.1.1 86620 1dceA 567 2.71e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1c8uA 285 2.71e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1sluA 142 2.85e+01 1sluA b.16.1.1 23685 1jzuA 157 2.92e+01 b.60.1.1 84271 1lgpA 116 2.94e+01 b.26.1.2 73890 1o94A 729 2.98e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1quqB 121 2.99e+01 1quqB b.40.4.3 25305 1q87A 221 3.00e+01 unknown_sccs -12028 1h8pA 109 3.02e+01 g.14.1.2 70916 g.14.1.2 70917 1noyA 388 3.06e+01 1clqA c.55.3.5 33713 1mmsA 140 3.12e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1zmeC 70 3.15e+01 1zmeC g.38.1.1 45081 h.1.3.1 45514 1rmd 116 3.21e+01 1rmd g.37.1.1 45025 g.44.1.1 45322 1bmv2 374 3.22e+01 1bmv2 1jsdB 176 3.24e+01 h.3.1.1 63259 1qamA 244 3.25e+01 2ercA c.66.1.24 34220 1iznB 277 3.26e+01 e.43.1.2 83848 1epfA 191 3.31e+01 2ncm b.1.1.4 21694 b.1.1.4 21695 1oe8A 211 3.34e+01 a.45.1.1 86905 c.47.1.5 86906 1a41 234 3.41e+01 1a41 d.163.1.2 42174 1lkkA 105 3.42e+01 1lckA d.93.1.1 40412 1djnA 729 3.50e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1ghqB 134 3.54e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1qgwA 76 3.65e+01 1qgwA d.184.1.1 42616 1is1A 185 3.81e+01 d.67.3.1 83704 1nj4A 363 3.85e+01 b.105.1.1 80545 e.3.1.1 80546 1us7B 265 3.89e+01 unknown_sccs -1518