# List of top-scoring protein chains for T0360.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 1dvoA 152 1.64e-13 1dvoA a.136.1.1 19623 1wikA 109 3.23e-01 1p6bA 336 1.58e+00 c.1.9.3 94163 1o9gA 250 2.30e+00 c.66.1.29 86692 1o9hA 250 2.36e+00 c.66.1.29 86693 1yr2A 741 4.83e+00 2gwxA 267 6.42e+00 2prgA a.123.1.1 19323 2awhA 268 6.44e+00 2b50A 272 6.52e+00 3gwxA 271 6.56e+00 2prgA a.123.1.1 19325 1y0sA 272 6.58e+00 1la6B 146 7.06e+00 a.1.1.2 73783 1ao0A 459 7.85e+00 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 8.08e+00 1ecfB 1qydA 313 9.18e+00 c.2.1.2 96583 1zvdA 380 1.01e+01 1t9kA 347 1.52e+01 c.124.1.5 106721 1kkqA 269 1.60e+01 a.123.1.1 68679 1k7lA 288 1.68e+01 a.123.1.1 68268 1i7gA 287 1.72e+01 a.123.1.1 71121 1v4xB 146 1.72e+01 a.1.1.2 108364 2g9iA 249 1.77e+01 2b9mY 365 1.84e+01 1rc2A 231 2.03e+01 f.19.1.1 97281 1mkaA 171 2.12e+01 1mkaA d.38.1.2 38543 2cf2C 342 2.12e+01 1ewxA 146 2.40e+01 1ewxA c.47.1.10 33062 1qk8A 146 2.41e+01 1ewxA c.47.1.10 33061 1okdA 154 2.50e+01 c.47.1.10 93249 1ezkA 153 2.52e+01 1ewxA c.47.1.10 33063 2ahxA 617 2.78e+01 1egjA 101 2.91e+01 1c8pA b.1.2.1 22039 1o8xA 146 2.93e+01 c.47.1.10 86681 1c8pA 102 2.94e+01 1c8pA b.1.2.1 22040 1wkjA 137 3.03e+01 1z5hA 780 3.06e+01 1jx2B 315 3.09e+01 c.37.1.8 67404 1agjA 242 3.16e+01 1agjA b.47.1.1 25827 1bihA 395 3.26e+01 1bihA b.1.1.4,b.1.1.4,b.1.1.4,b.1.1.4 21752,21753,21754,21755 1hfp 186 3.46e+01 1aoeA c.71.1.1 34904 1dueA 242 3.49e+01 b.47.1.1 76140 1miwA 404 3.49e+01 a.173.1.1,d.218.1.4 79162,79163 1uujA 88 3.51e+01 a.221.1.1 108046 1an7A 136 3.76e+01 1seiA d.140.1.1 41465 1fjgH 138 3.79e+01 1seiA d.140.1.1 41468 1ydmA 187 3.89e+01 1x8bA 289 4.10e+01 1u71A 186 4.27e+01 1hfq 186 4.27e+01 1aoeA c.71.1.1 34903 1dls 186 4.50e+01 1aoeA c.71.1.1 34906 2dubA 261 4.56e+01 1nzyA c.14.1.3 30912 1mj3A 260 4.61e+01 c.14.1.3 79183 1rwhA 757 4.61e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1rw9A 757 4.63e+01 a.102.3.2,b.24.1.1,b.30.5.2 97964,97965,97966 1ey3A 258 4.67e+01 c.14.1.3 64911 1a78A 134 4.74e+01 1c1lA b.29.1.3 24212 1kmvA 186 4.97e+01 c.71.1.1 72757 1mvtA 187 5.01e+01 c.71.1.1 85157 1pnsI 127 5.04e+01 i.1.1.1 88176 2ch9A 131 5.06e+01 1f53A 84 5.07e+01 1f53A b.11.1.4 23632 1iab 200 5.09e+01 1iae d.92.1.8 40312 1dlr 186 5.13e+01 1aoeA c.71.1.1 34909 1u70A 186 5.19e+01 1glv 303 5.24e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 1fjgI 128 5.27e+01 1fjfI d.14.1.1 37559 1ganA 134 5.37e+01 1c1lA b.29.1.3 24214 1xhjA 88 5.48e+01 1xx4A 261 5.61e+01 2bycA 137 5.66e+01 1x9uA 116 5.77e+01 1x5sA 102 6.07e+01 1twfF 155 6.23e+01 1mj5A 302 6.43e+01 c.69.1.8 91285 1v5iB 76 6.48e+01 1z6cA 87 6.48e+01 1w9xA 481 6.53e+01 1iz7A 295 6.58e+01 c.69.1.8 76982 1cv2A 296 6.60e+01 1bn6A c.69.1.8 34680 1svfB 38 6.73e+01 1svfB h.3.2.1 45764 1r0nA 81 6.81e+01 g.39.1.2 96730 1by4A 82 6.97e+01 2nllB g.39.1.2 45110 1gsa 316 7.04e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1dszB 85 7.34e+01 2nllB g.39.1.2 45108 1qleA 538 7.86e+01 2occA f.24.1.1 43620 1ar1A 558 7.86e+01 2occA f.24.1.1 43618 1yl3F 246 7.93e+01 1ynwB 99 7.94e+01 1vqoC 246 7.98e+01