# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1jrmA 104 1.03e-11 d.206.1.1 67136 1qj2B 809 3.37e-01 1qj2B d.41.1.1 38589 d.133.1.1 41419 1p35A 299 4.67e-01 1p35A b.28.1.1 23925 2bc2A 227 1.89e+00 1a7tA d.157.1.1 42031 2bc2B 227 2.18e+00 1a7tA d.157.1.1 42032 1tn3 137 2.62e+00 1htn d.169.1.1 42423 1qh3A 260 3.36e+00 1qh5A d.157.1.2 42059 1qh5A 260 3.76e+00 1qh5A d.157.1.2 42057 1jj2R 84 4.39e+00 1ffkP d.12.1.1 63103 1f5sA 211 4.73e+00 1f5sA c.108.1.4 59656 1j97A 211 4.73e+00 1f5sA c.108.1.4 62753 1l7mA 211 4.74e+00 1e25A 282 4.94e+00 1e25A e.3.1.1 42731 1htn 182 5.28e+00 1htn d.169.1.1 42424 h.1.1.1 45426 3cbh 365 5.29e+00 1bvwA c.6.1.1 30665 8atcB 154 5.63e+00 8atcB d.58.2.1 39027 g.41.7.1 45279 1j6zA 376 5.75e+00 1yagA c.55.1.1 62667 c.55.1.1 62668 7at1B 154 6.23e+00 8atcB d.58.2.1 39053 g.41.7.1 45305 1dptA 117 7.70e+00 1dptA d.80.1.3 39862 1shsA 147 8.33e+00 1shsA b.15.1.1 23675 1gg4A 452 9.14e+00 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1nfa 178 1.01e+01 1a02N b.2.5.1 22442 1e2tA 284 1.04e+01 1e2tA d.3.1.5 37121 1ff9A 450 1.05e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1jy8A 159 1.28e+01 d.79.5.1 67452 1jj2W 91 1.29e+01 1ffkU d.29.1.1 63108 1k5hA 398 1.32e+01 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 1gx1A 160 1.34e+01 1a59 378 1.42e+01 1aj8A a.103.1.1 18902 1d09B 153 1.46e+01 8atcB d.58.2.1 39015 g.41.7.1 45267 1yagA 375 1.48e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1b5tA 275 1.55e+01 1b5tA c.1.23.1 29676 2pth 193 1.66e+01 2pth c.56.3.1 33793 1wba 175 1.71e+01 1wba b.42.4.1 25591 1c3pA 375 1.71e+01 1c3pA c.42.1.2 32606 16pk 415 1.72e+01 16pk c.86.1.1 35454 2btfA 375 1.74e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1dgaA 375 1.74e+01 1yagA c.55.1.1 33441 c.55.1.1 33442 1jhdA 396 1.77e+01 b.58.1.2 66712 c.26.1.5 66713 1hfoA 113 1.86e+01 d.80.1.3 61006 1jt8A 102 1.87e+01 b.40.4.5 63279 1bi5A 389 1.91e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 6cts 433 1.91e+01 1csh a.103.1.1 18891 1ipcA 217 1.93e+01 1reqB 637 1.96e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1i88A 389 2.07e+01 c.95.1.2 66070 c.95.1.2 66071 1mmsA 140 2.08e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1a8y 367 2.12e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1gnuA 117 2.13e+01 d.15.1.3 65403 1d3vA 323 2.17e+01 1d3vA c.42.1.1 32559 1rlaA 323 2.20e+01 1d3vA c.42.1.1 32561 1j7nB 776 2.21e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1ffkU 91 2.22e+01 1ffkU d.29.1.1 38458 1hruA 188 2.45e+01 1hruA d.115.1.1 40926 1reqD 637 2.45e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1d4xA 375 2.48e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1ffkP 84 2.49e+01 1ffkP d.12.1.1 37493 9atcB 146 2.51e+01 8atcB d.58.2.1 39057 g.41.7.1 45309 1ddgA 374 2.52e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1dusA 194 2.54e+01 1dusA c.66.1.4 34182 1i86A 389 2.79e+01 c.95.1.2 66068 c.95.1.2 66069 1k4vA 289 3.00e+01 1epaA 164 3.01e+01 1epaA b.60.1.1 27128 1jj2P 95 3.03e+01 1ffkN b.34.5.1 63101 1seiA 130 3.10e+01 1seiA d.140.1.1 41463 1g8oA 310 3.14e+01 1g8oA c.68.1.9 60375 1fjgL 135 3.16e+01 1fjfL b.40.4.5 25346 1f15B 218 3.18e+01 1f15B b.10.1.2 23321 1tl2A 236 3.26e+01 1tl2A b.67.1.1 27541 1gs5A 258 3.43e+01 1ej1A 190 3.45e+01 1ejhA d.86.1.1 40144 1epbA 164 3.47e+01 1epaA b.60.1.1 27126 1mfiA 114 3.61e+01 1dptA d.80.1.3 39856 1f82A 424 3.67e+01 1f82A d.92.1.7 40307 1f83A 425 3.72e+01 1f82A d.92.1.7 40306 1hlgA 371 3.76e+01 1hlgA c.69.1.6 34656 1dmaA 214 3.85e+01 1aerA d.166.1.1 42251 1qd1A 325 3.86e+01 1qd1A d.58.34.1 39493 d.58.34.1 39494 1jqlB 140 3.90e+01 c.37.1.13 63234 1j7nA 776 3.93e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1regX 122 3.99e+01 1regX d.58.27.1 39406