# List of top-scoring protein chains for 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.soe.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 2jz5A 91 5.89e-14 1fi8A 228 4.39e-02 5ptp b.47.1.2 26374 1suiA 247 3.11e+00 c.66.1.1 119049 2cz8A 69 3.64e+00 2fipA 115 3.82e+00 2v18A 68 3.84e+00 2fioA 123 3.90e+00 2ux9A 69 3.98e+00 2v19A 68 4.09e+00 1nwvA 129 4.66e+00 g.18.1.1 86304 g.18.1.1 86305 1t94A 459 6.93e+00 d.240.1.1 106701 e.8.1.7 106702 2oh2A 508 7.41e+00 2i39A 137 8.37e+00 1c3mA 147 8.90e+00 1jotA b.77.3.1 27983 1nwaA 203 1.07e+01 d.58.28.1 86295 1e7yA 485 1.10e+01 1dpgA c.2.1.3 30077 d.81.1.5 39992 1h9aA 485 1.12e+01 1dpgA c.2.1.3 60816 d.81.1.5 60817 1h93A 485 1.12e+01 1dpgA c.2.1.3 60807 d.81.1.5 60808 2dpgA 485 1.12e+01 c.2.1.3 30076 d.81.1.5 39991 3ch3X 265 1.17e+01 2h6bA 250 1.24e+01 1dpgA 485 1.35e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 2g3oA 220 1.37e+01 1nxcA 478 1.37e+01 a.102.2.1 92293 2g6yA 217 1.39e+01 2yxyA 115 1.44e+01 2nttA 217 1.44e+01 2cqeA 98 1.62e+01 g.66.1.1 130720 g.66.1.1 130721 1kcgC 178 1.69e+01 d.19.1.1 68440 2innA 511 1.86e+01 2i5uA 83 1.89e+01 2inpA 494 1.92e+01 1im3D 95 1.94e+01 1im3D b.1.18.5 62568 2cse1 1267 1.98e+01 1m11R 243 1.99e+01 i.6.1.1 74366 2uxeA 117 2.04e+01 1ok3A 254 2.10e+01 g.18.1.1 93208 g.18.1.1 93209 g.18.1.1 93210 g.18.1.1 93211 2c8iE 316 2.31e+01 g.18.1.1 130105 g.18.1.1 130106 g.18.1.1 130107 g.18.1.1 130108 1js3A 486 2.55e+01 c.67.1.6 67215 2hh2A 107 2.63e+01 1upnE 129 2.66e+01 g.18.1.1 99764 g.18.1.1 99765 1ex7A 186 2.78e+01 1gky c.37.1.1 59537 1wteA 272 2.89e+01 c.52.1.29 114876 1vq2A 193 2.99e+01 c.97.1.2 114004 1bc3A 319 2.99e+01 a.65.1.1 18175 1vgyA 393 3.04e+01 c.56.5.4 100620 d.58.19.1 100621 3b4tA 262 3.05e+01 2ar9A 278 3.11e+01 1nw9B 277 3.11e+01 c.17.1.1 86294 2qp2A 511 3.14e+01 1jxqA 284 3.16e+01 c.17.1.1 67426 1bc1A 319 3.19e+01 a.65.1.1 18173 1c16A 260 3.24e+01 1agdA b.1.1.2 20856 d.19.1.1 38320 2e5vA 472 3.24e+01 2corA 79 3.26e+01 g.39.1.3 130681 g.39.1.3 130682 2j6lA 500 3.33e+01 1h03P 125 3.37e+01 g.18.1.1 83411 g.18.1.1 83412 1h2pP 125 3.57e+01 g.18.1.1 83466 g.18.1.1 83467 2b5lA 1140 3.60e+01 2gy9H 127 3.65e+01 d.140.1.1 135832 1s03G 129 3.69e+01 d.140.1.1 105144 1vs5H 130 3.72e+01 d.140.1.1 120489 2r2zA 93 3.73e+01 1jweA 114 3.75e+01 1b79A a.81.1.1 18455 3ctvA 110 3.76e+01 1yspA 181 3.78e+01 2jzlA 114 3.85e+01 2idcA 179 3.86e+01 1og7A 43 3.86e+01 j.106.1.1 92865 2obdA 476 3.90e+01 1zb9A 143 3.90e+01