# List of top-scoring protein chains for T0237.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 1vmoA 163 6.77e-01 1vmoA b.77.1.1 27974 1ehiA 377 1.33e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1jp4A 308 2.46e+00 1jp4A e.7.1.1 63223 1lkxA 697 3.21e+00 c.37.1.9 73981 4blcA 506 4.57e+00 1cf9A e.5.1.1 42775 1qw9A 502 6.81e+00 b.71.1.2 -4677 c.1.8.3 -5348 1pz3A 502 6.83e+00 b.71.1.2 -4673 c.1.8.3 -5344 1szxA 198 7.77e+00 a.2.11.1 -138 d.44.1.1 -9739 1qnmA 198 1.16e+01 1avmA a.2.11.1 15754 d.44.1.1 38713 1v1pB 213 1.17e+01 1n7hA 381 1.21e+01 c.2.1.2 80250 1tocR 120 1.23e+01 1tocR g.8.1.2 44558 g.8.1.2 44559 1uckA 96 1.30e+01 d.1.1.2 -8805 1sczA 233 1.34e+01 c.43.1.1 -7326 1ja8A 198 1.39e+01 1avmA a.2.11.1 62813 d.44.1.1 62814 1luwA 198 1.40e+01 a.2.11.1 74267 d.44.1.1 74268 1luvA 198 1.40e+01 a.2.11.1 74263 d.44.1.1 74264 1n0jA 199 1.41e+01 a.2.11.1 79740 d.44.1.1 79741 1ap6A 198 1.41e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1varA 198 1.41e+01 1avmA a.2.11.1 15756 d.44.1.1 38715 1mq0A 140 1.41e+01 c.97.1.1 -8770 1n0nA 199 1.43e+01 a.2.11.1 79750 d.44.1.1 79751 1pm9A 198 1.43e+01 a.2.11.1 -136 d.44.1.1 -9737 1pl4A 198 1.44e+01 a.2.11.1 -132 d.44.1.1 -9733 1em1A 198 1.44e+01 1avmA a.2.11.1 15752 d.44.1.1 38711 1g8lA 411 1.47e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1d8bA 81 1.51e+01 1d8bA a.60.8.1 18094 1dgfA 497 1.52e+01 1cf9A e.5.1.1 42782 1dghA 498 1.52e+01 1cf9A e.5.1.1 42790 1dghB 498 1.53e+01 1cf9A e.5.1.1 42791 1f4jA 527 1.58e+01 1cf9A e.5.1.1 42798 1pixA 587 1.70e+01 c.14.1.4 -6282 1uzeA 589 1.72e+01 1uclA 96 1.83e+01 d.1.1.2 -8807 1ijaA 148 1.92e+01 1ijaA b.100.1.1 62484 1ou8A 111 1.97e+01 unknown_sccs -3799 1o8uA 257 1.99e+01 c.14.1.3 81194 1gsa 316 2.12e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1glv 303 2.27e+01 1gsa c.30.1.3 31721 d.142.1.1 41480 1i8vA 96 2.30e+01 d.1.1.2 61985 1axcA 261 2.43e+01 1plq d.131.1.2 41392 d.131.1.2 41393 1v95A 130 2.44e+01 1i8nA 126 2.44e+01 1i8nA g.10.1.2 61976 1sxjE 354 2.46e+01 1rvtH 328 2.51e+01 b.19.1.2 -3207 1rv0H 328 2.52e+01 b.19.1.2 -3204 1szoA 257 2.56e+01 1o63A 219 2.68e+01 c.94.1.1 -8691 1ou9A 129 2.69e+01 unknown_sccs -3801 1i70A 96 2.72e+01 d.1.1.2 61862 1uciA 96 2.73e+01 d.1.1.2 -8801 1lniA 96 2.73e+01 d.1.1.2 74046 1gmpA 96 3.09e+01 1rgeA d.1.1.2 36036 1k0vA 73 3.19e+01 d.58.17.1 67986 1pylA 97 3.25e+01 2ccyA 128 3.26e+01 2ccyA a.24.3.2 16544 1mk0A 97 3.31e+01 d.226.1.1 79216 1se9A 126 3.32e+01 d.15.1.1 -9145 1lyqA 104 3.51e+01 b.1.18.17 78302 1ev9A 221 3.70e+01 1pgtA a.45.1.1 17696 c.47.1.5 32990 1a3p 45 3.79e+01 1egf g.3.11.1 44284 1ly2A 130 3.90e+01 g.18.1.1 74335 g.18.1.1 74336 1ghqB 134 3.97e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1ev4A 221 3.98e+01 1pgtA a.45.1.1 17693 c.47.1.5 32987