# List of top-scoring protein chains for t2k-100-30-str 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 1jhfA 202 1.05e-01 a.4.5.2 63057 b.87.1.1 63058 1dkgA 197 1.29e-01 1dkgA b.73.1.1 27812 h.1.9.1 45626 1dkgB 197 2.09e-01 1dkgA b.73.1.1 27813 h.1.9.1 45627 1pmt 203 1.44e+00 1a0fA a.45.1.1 17740 c.47.1.5 33034 1irk 306 1.54e+00 1fmk d.144.1.2 41703 1gh7A 419 2.03e+00 b.1.2.1 65194 b.1.2.1 65195 b.1.2.1 65196 b.1.2.1 65197 1ir3A 306 2.11e+00 1fmk d.144.1.2 41702 1db3A 372 2.16e+00 1db3A c.2.1.2 29813 1m8aA 70 3.33e+00 1qh4A 380 3.54e+00 1qh4A a.83.1.1 18462 d.128.1.2 41197 1kpf 126 3.58e+00 1kpf d.13.1.1 37507 1kpeA 126 3.68e+00 1kpf d.13.1.1 37508 1bmv2 374 4.18e+00 1bmv2 1auyA 189 6.55e+00 1auyA b.10.1.2 23311 1eg3A 261 6.63e+00 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1g0dA 695 7.91e+00 1f13A b.1.1.5 60166 b.1.5.1 60167 b.1.5.1 60168 d.3.1.4 60169 1erjA 393 8.26e+00 1erjA b.69.4.1 27660 1quqA 129 9.64e+00 1quqA b.40.4.3 25303 1lqtA 456 9.66e+00 1rrpB 134 9.77e+00 1rrpB b.55.1.3 26995 1jrhI 108 1.09e+01 1jrhI b.1.2.1 22059 1jqhA 308 1.10e+01 1jwhA 337 1.12e+01 1mbmA 198 1.16e+01 1c8uA 285 1.20e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1d2sA 170 1.22e+01 1d2sA b.29.1.4 24221 1kdkA 177 1.26e+01 1cnuA 137 1.29e+01 1cof d.109.1.2 40862 1c0dA 358 1.36e+01 1eceA c.1.8.3 28815 1btl 263 1.40e+01 1btl e.3.1.1 42691 1f5fA 205 1.42e+01 1d2sA b.29.1.4 24222 1ermA 263 1.44e+01 1btl e.3.1.1 42690 1cnr 46 1.47e+01 1cbn g.13.1.1 44621 1jg1A 235 1.48e+01 c.66.1.7 66661 1fqgA 263 1.49e+01 1btl e.3.1.1 42699 1ewfA 456 1.59e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 2napA 723 1.65e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1m40A 263 1.67e+01 1edhA 226 1.69e+01 1edhA b.1.6.1 22198 b.1.6.1 22199 1jyoA 130 1.71e+01 d.198.1.1 67483 1bg4 302 1.73e+01 1taxA c.1.8.3 28806 1fg9C 245 1.78e+01 1jrhI b.1.2.1 22060 b.1.2.1 22061 1ccm 46 1.78e+01 1cbn g.13.1.1 44623 1b31A 302 1.85e+01 1taxA c.1.8.3 28892 1lpuA 332 1.86e+01 1cbn 46 1.91e+01 1cbn g.13.1.1 44619 1ejgA 46 1.91e+01 1cbn g.13.1.1 44618 1hmr 132 2.00e+01 1hmt b.60.1.2 27170 1k5dB 201 2.06e+01 b.55.1.3 68169 1pex 207 2.18e+01 1gen b.66.1.1 27540 1tsp 559 2.34e+01 1tyv b.80.1.6 28044 1lkxA 697 2.35e+01 1hms 132 2.42e+01 1hmt b.60.1.2 27168 1fzvA 132 2.43e+01 1vpfA g.17.1.1 60159 1thm 279 2.48e+01 1gci c.41.1.1 32544 1fpqA 372 2.51e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1bp1 456 2.53e+01 1bp1 d.83.1.1 40026 d.83.1.1 40027 1fp1D 372 2.55e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1gzqA 300 2.58e+01 1hmt 132 2.65e+01 1hmt b.60.1.2 27169 1tyv 542 2.68e+01 1tyv b.80.1.6 28038 1rypE 242 2.75e+01 1rypE d.153.1.4 41936 1tyu 543 2.78e+01 1tyv b.80.1.6 28037 1qq1A 559 2.87e+01 1tyv b.80.1.6 28041 1qa1A 554 2.91e+01 1tyv b.80.1.6 28047 1js8A 394 3.20e+01 a.86.1.1 67219 b.1.1.5 67220 1jn8B 273 3.20e+01 c.68.1.2 66928 1jmoA 480 3.28e+01 1gcqC 70 3.49e+01 1gcpA b.34.2.1 60436 1eceA 358 3.49e+01 1eceA c.1.8.3 28813 1fgxA 288 3.59e+01 1fgxA c.68.1.2 34508 1kn0A 212 3.71e+01 1fyhB 229 3.88e+01 1jrhI b.1.2.1 22055 b.1.2.1 22056 1h7sA 365 3.94e+01 d.14.1.3 65705 d.122.1.2 65706 1k4wA 252 3.98e+01