# List of top-scoring protein chains for T0351.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 1rypA 243 1.96e+00 1pmaA d.153.1.4 41932 1g0uG 252 1.99e+00 d.153.1.4 41952 2f51A 118 3.33e+00 2b20A 403 5.20e+00 1lv5A 580 6.28e+00 c.55.3.5,e.8.1.1 84719,84720 1nk4A 580 6.31e+00 c.55.3.5,e.8.1.1 91923,91924 1u4bA 580 6.31e+00 c.55.3.5,e.8.1.1 107664,107665 2bdpA 580 6.71e+00 1xwl c.55.3.5,e.8.1.1 33709,43002 1vorO 114 8.38e+00 1nkwL 116 8.43e+00 i.1.1.2 80597 2ap1A 327 8.45e+00 1ao5A 237 8.86e+00 5ptp b.47.1.2 26334 1c7iA 489 9.94e+00 1thg c.69.1.1 34632 1o7fA 469 1.12e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1wp5A 323 1.12e+01 1gd8A 118 1.13e+01 d.188.1.1 60445 2bgoA 140 1.27e+01 1khhA 198 1.31e+01 c.66.1.16 68615 1p1cA 199 1.31e+01 c.66.1.16 87669 1xclA 235 1.36e+01 1rp0A 284 1.36e+01 3kar 346 1.44e+01 1bg2 c.37.1.9 32198 1f9vA 347 1.45e+01 1bg2 c.37.1.9 59745 1f9uA 347 1.47e+01 1bg2 c.37.1.9 59744 1nrkA 328 1.48e+01 b.44.2.1,d.250.1.1 92089,92090 1f9wA 347 1.50e+01 1bg2 c.37.1.9 59746 1c7jA 489 1.58e+01 2bce c.69.1.1 34631 1f9tA 358 1.60e+01 1bg2 c.37.1.9 59743 1byfA 125 1.71e+01 1byfA d.169.1.1 42419 1irxA 523 1.72e+01 a.97.1.2,c.26.1.1 71378,71379 1pk1B 89 1.72e+01 1bed 181 1.75e+01 1fvkA c.47.1.13 90330 1qe3A 489 1.76e+01 2bce c.69.1.1 34630 1vlyA 338 1.80e+01 b.44.2.1,d.250.1.1 108871,108872 1pn4A 280 1.85e+01 d.38.1.4,d.38.1.4 94940,94941 1r9hA 135 1.86e+01 d.26.1.1 97260 1fueA 163 1.88e+01 c.23.5.1 65054 1rot 149 1.88e+01 1fkj d.26.1.1 38429 1pn2A 280 1.89e+01 d.38.1.4,d.38.1.4 94930,94931 1xawA 140 1.94e+01 1xqaA 113 2.10e+01 2avyP 82 2.16e+01 1i84S 1184 2.27e+01 1lvk i.15.1.1 61940 2byvE 999 2.34e+01 1pk3A 89 2.46e+01 1yirA 408 2.59e+01 1wxcB 134 2.71e+01 1hfoA 113 2.72e+01 d.80.1.3 61006 2dlbA 80 2.86e+01 1xt8A 292 2.87e+01 2bg9C 369 2.91e+01 1nlaA 64 3.02e+01 a.43.1.1 85848 1c97A 753 3.13e+01 1amj c.8.2.1,c.83.1.1 30731,35407 1b0mA 753 3.14e+01 1amj c.8.2.1,c.83.1.1 30722,35398 1b0jA 754 3.16e+01 1amj c.8.2.1,c.83.1.1 30719,35395 7acn 754 3.22e+01 1amj c.8.2.1,c.83.1.1 30717,35393 1v7oA 165 3.25e+01 d.67.1.2 100480 1nis 754 3.25e+01 1amj c.8.2.1,c.83.1.1 30730,35406 8acn 754 3.27e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1nrjB 218 3.33e+01 c.37.1.8 86125 1jg1A 235 3.44e+01 c.66.1.7 66661 1vhfA 113 3.52e+01 d.58.5.2 100671 1kw4A 89 3.55e+01 a.60.1.2 73077 1aoiC 116 3.74e+01 1aoiC a.22.1.1 16440 1ml5S 91 3.78e+01 i.1.1.1 79274 2aw4N 127 3.81e+01 2gswA 182 3.87e+01 1s32C 119 3.88e+01 a.22.1.1 98414 1hciA 476 3.97e+01 1quuA a.7.1.1,a.7.1.1,a.7.1.1,a.7.1.1 60950,60951,60952,60953 2fi9A 128 4.02e+01 1fjgP 88 4.10e+01 1emwA d.27.1.1 38444 1qe5A 266 4.22e+01 1b8oA c.56.2.1 33784 1m19C 129 4.27e+01 a.22.1.1 78381 1kx5C 128 4.40e+01 a.22.1.1 77595 1c96A 753 4.48e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1zbbC 129 4.50e+01 1t00A 112 4.71e+01 1s9jA 341 4.80e+01 2d7mA 115 4.81e+01 1hioA 95 4.87e+01 a.22.1.1 16439 1q2hA 69 5.16e+01 a.34.4.1 104498 2gqdA 437 5.40e+01 2gsvA 80 5.47e+01 1n1aA 140 5.57e+01 d.26.1.1 79797 1ysbA 161 5.61e+01 1zvaA 77 5.65e+01 1znpA 154 5.76e+01 1zlaC 129 5.85e+01 3proC 166 5.90e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1q3iA 214 5.96e+01 d.220.1.1 104524 1mknA 59 6.04e+01 1mknA g.5.1.1 44383 1d5yA 292 6.15e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 2hioA 128 6.16e+01 1aoiC a.22.1.1 16438 1tzyA 129 6.20e+01 a.22.1.1 107530 2cn3A 737 6.56e+01 2cn2A 737 6.57e+01 1bftA 101 6.61e+01 1a3qA b.1.18.1 21934 1wzeA 327 6.66e+01 1pnsP 83 6.90e+01 i.1.1.1 88183 2cv5C 130 6.99e+01 1fzqA 181 6.99e+01 1hurA c.37.1.8 32060 1vrkA 148 7.01e+01 1cll k.21.1.1 46451 1y7tA 327 7.10e+01 1yrvA 169 7.23e+01 1s1iO 120 7.28e+01 i.1.1.1 105189 1my7A 114 7.36e+01 b.1.18.1 79675 1my5A 114 7.38e+01 b.1.18.1 79673 1kt0A 457 7.42e+01 a.118.8.1,d.26.1.1,d.26.1.1 77525,77526,77527 1uq4A 263 7.60e+01 d.165.1.1 99777 1exrA 148 7.60e+01 1cll a.39.1.5 17299 1clm 148 7.61e+01 1cll a.39.1.5 17301 2g3tA 179 7.67e+01 2fm9A 215 7.67e+01 1bmdA 327 7.76e+01 1bmdA c.2.1.5,d.162.1.1 30139,42106 1bdmA 327 7.88e+01 1bmdA c.2.1.5,d.162.1.1 30137,42104 2fm8C 240 7.95e+01 1zt4A 281 8.05e+01 1q1cA 280 8.10e+01 d.26.1.1,d.26.1.1 104474,104475 1qs7A 145 8.12e+01 k.21.1.1 88373 2bf2A 102 8.14e+01 1exg 110 8.16e+01 1exg b.2.2.1 22387 1yaeA 312 8.21e+01 1wr2A 238 8.25e+01 1qtxA 148 8.25e+01 k.21.1.1 88375 1kugA 203 8.31e+01 d.92.1.9 73008 1kufA 203 8.43e+01 d.92.1.9 73007 2ahqA 76 8.44e+01 1u9pA 120 8.49e+01 1jatB 138 8.50e+01 1jatB d.20.1.1 62819 1xl3A 218 8.74e+01 1w3fA 315 8.75e+01 2gqrA 237 8.77e+01 1oy3B 136 8.82e+01 b.1.18.1 87552 1thtA 305 8.88e+01 1thtA c.69.1.13 34711