# 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.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 1e9lA 377 1.09e+00 1e9lA c.1.8.5 59395 d.26.3.1 59396 1f57A 307 1.11e+00 1aye c.56.5.1 33805 2ctc 307 1.11e+00 1aye c.56.5.1 33802 2ctb 307 1.11e+00 1aye c.56.5.1 33803 1yme 309 1.11e+00 1aye c.56.5.1 33804 1pytB 309 1.12e+00 1aye c.56.5.1 33820 1sig 339 1.50e+00 1sig a.112.1.1 19068 1lg1A 365 1.72e+00 1iq0A 592 2.64e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1kmdA 117 3.16e+00 2dhbB 146 3.21e+00 1abwA a.1.1.2 15556 1hcnA 92 3.67e+00 1hcnA g.17.1.4 44809 1dz7A 92 3.67e+00 1hcnA g.17.1.4 44815 6cpa 307 3.71e+00 1aye c.56.5.1 33816 1cbx 307 3.72e+00 1aye c.56.5.1 33813 1bavA 309 3.72e+00 1aye c.56.5.1 33806 1qfwA 92 3.73e+00 1hcnA g.17.1.4 44813 1ass 159 3.85e+00 1a6dA c.8.5.2 30818 1asx 159 3.85e+00 1a6dA c.8.5.2 30821 1fcqA 350 4.05e+00 c.1.8.9 65006 1g4mA 393 4.08e+00 b.1.1.5 65143 b.1.1.5 65144 1g13A 162 4.29e+00 1g13A b.95.1.1 60194 1fliA 98 4.43e+00 1awcA a.4.5.21 16160 1jsyA 418 5.32e+00 1wdb 104 5.59e+00 1cyo d.120.1.1 41070 1dxqA 273 6.03e+00 1d4aA c.23.5.3 31213 1blu 82 6.60e+00 2fdn d.58.1.1 38948 1jetA 517 6.64e+00 1jevA c.94.1.1 35718 1jevA 517 6.64e+00 1jevA c.94.1.1 35720 2olbA 517 6.64e+00 1jevA c.94.1.1 35721 1do9A 94 7.08e+00 1cyo d.120.1.1 41084 1ax8 146 8.38e+00 1ax8 a.26.1.1 16844 1d2kA 392 9.19e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 2axx 94 9.29e+00 1cyo d.120.1.1 41076 1aw3 94 9.32e+00 1cyo d.120.1.1 41077 1aerB 195 9.49e+00 1aerA d.166.1.1 42250 1i87A 98 9.66e+00 1cyo d.120.1.1 61950 1bfx 99 9.74e+00 1cyo d.120.1.1 41078 1ib7A 94 9.94e+00 1cyo d.120.1.1 62154 1cyo 93 1.03e+01 1cyo d.120.1.1 41065 1jxjA 496 1.06e+01 b.71.1.1 63314 c.1.8.1 63315 1smd 496 1.07e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1jxkA 491 1.10e+01 b.71.1.1 63316 c.1.8.1 63317 1qdeA 224 1.12e+01 1qvaA c.37.1.13 32410 1iwhB 146 1.15e+01 1k3vA 579 1.18e+01 b.10.1.4 68122 1kb3A 496 1.25e+01 1lrzA 426 1.39e+01 1mhxA 65 1.42e+01 1bds 43 1.47e+01 2bds g.9.1.1 44596 2bds 43 1.47e+01 2bds g.9.1.1 44595 1nksA 194 1.48e+01 1nksA c.37.1.1 31886 1kbkA 496 1.51e+01 1bx4A 345 1.58e+01 1bx4A c.72.1.1 34935 1fjgR 88 1.73e+01 1fjfR a.4.8.1 16252 1g1xC 88 1.73e+01 1fjfR a.4.8.1 16249 1seiA 130 1.74e+01 1seiA d.140.1.1 41463 1i94R 87 1.76e+01 1fjfR a.4.8.1 62009 1dnlA 199 1.83e+01 1ci0A b.45.1.1 25753 1dhkA 496 1.90e+01 1smd b.71.1.1 27761 c.1.8.1 28748 1ose 496 1.91e+01 1smd b.71.1.1 27766 c.1.8.1 28753 1ciu 683 1.91e+01 1cxlA b.1.1.5 21852 b.3.1.1 22521 b.71.1.1 27759 c.1.8.1 28746 1jbsA 149 1.92e+01 d.1.1.1 66486 1aqzB 149 1.95e+01 1aqzA d.1.1.1 36239 1aqzA 149 1.95e+01 1aqzA d.1.1.1 36238 1kgxA 496 2.01e+01 b.71.1.1 68602 c.1.8.1 68603 1lqxA 82 2.07e+01 3cpuA 496 2.10e+01 1smd b.71.1.1 63336 c.1.8.1 63337 1b2yA 496 2.11e+01 1smd b.71.1.1 27772 c.1.8.1 28759 1hny 496 2.11e+01 1smd b.71.1.1 27769 c.1.8.1 28756 1kgwA 496 2.12e+01 b.71.1.1 68600 c.1.8.1 68601 1g08B 145 2.13e+01 1abwA a.1.1.2 15559 1jnwA 218 2.15e+01 1ci0A b.45.1.1 63200 1bvnP 496 2.19e+01 1smd b.71.1.1 27767 c.1.8.1 28754 1pig 496 2.21e+01 1smd b.71.1.1 27764 c.1.8.1 28751 1kguA 496 2.23e+01 b.71.1.1 68598 c.1.8.1 68599 1ck4B 198 2.25e+01 1aoxA c.62.1.1 34150 1akz 223 2.29e+01 3eugA c.18.1.1 31007 1sspE 223 2.29e+01 3eugA c.18.1.1 31009 1kl7A 514 2.35e+01 1qk1A 379 2.39e+01 1qh4A a.83.1.1 18466 d.128.1.2 41201 1lr6A 82 2.47e+01 1blj 114 2.49e+01 1lckA d.93.1.1 40524 1hx0A 496 2.66e+01 b.71.1.1 61346 c.1.8.1 61347 1kxqA 496 2.70e+01 1jfh 496 2.70e+01 1smd b.71.1.1 27762 c.1.8.1 28749 1ppi 496 2.72e+01 1smd b.71.1.1 27763 c.1.8.1 28750 1qvaA 223 2.77e+01 1qvaA c.37.1.13 32411 1g6hA 257 2.85e+01 1gajA c.37.1.12 60318 1ehbA 82 2.88e+01 1cyo d.120.1.1 41066 1m20A 82 2.94e+01 1fpwA 190 3.01e+01 1rec a.39.1.5 17329 1im4A 221 3.16e+01 e.8.1.5 62581 1qbgA 272 3.29e+01 1d4aA c.23.5.3 31227 1h69A 273 3.29e+01 c.23.5.3 60665 1d4aA 273 3.30e+01 1d4aA c.23.5.3 31219 1kbqA 273 3.30e+01 c.23.5.3 68391 1gajA 257 3.32e+01 1gajA c.37.1.12 60416 1qmoE 133 3.46e+01 1nls 1jexA 94 3.48e+01 1cyo d.120.1.1 62923 1gojA 355 3.53e+01 c.37.1.9 65419 1i9cA 137 3.61e+01 1fawA 141 3.62e+01 a.1.1.2 65002 1g0wA 380 3.78e+01 1qh4A a.83.1.1 18475 d.128.1.2 41210 1chuA 540 3.87e+01 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1e5eA 404 3.89e+01 1ibjA c.67.1.3 59265 1mgtA 174 3.94e+01 1mgtA a.4.2.1 16078 c.55.7.1 33753 2sspE 223 3.95e+01 3eugA c.18.1.1 31012