# List of top-scoring protein chains for t2k-100-30-alpha 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 8pchA 220 6.44e-01 1cs8A 1uc8A 280 1.03e+00 8acn 754 1.88e+00 1amj c.8.2.1 30724 c.83.1.1 35400 1amj 754 1.89e+00 1amj c.8.2.1 30725 c.83.1.1 35401 1n99A 166 2.20e+00 1fljA 260 2.66e+00 2cba b.74.1.1 27954 1c96A 753 2.90e+00 1amj c.8.2.1 30727 c.83.1.1 35403 1mr7A 209 3.03e+00 7acn 754 3.06e+00 1amj c.8.2.1 30717 c.83.1.1 35393 1e2kA 331 3.32e+00 1qhiA c.37.1.1 31854 1bmlC 362 3.65e+00 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1bgp 309 4.08e+00 1bgp a.93.1.1 18690 1kk6A 209 4.28e+00 b.81.1.3 68657 1qniA 581 4.31e+00 1qniA b.6.1.4 23042 b.69.3.1 27642 1b0jA 754 4.56e+00 1amj c.8.2.1 30719 c.83.1.1 35395 6acn 754 4.65e+00 1amj c.8.2.1 30721 c.83.1.1 35397 1f8rA 498 4.93e+00 1f8rA c.3.1.2 30410 d.16.1.5 37974 1dmuA 299 5.38e+00 1dmuA c.52.1.4 33294 1ubkL 534 5.56e+00 1h2aL 567 5.91e+00 1h2rL e.18.1.1 43299 1hyt 316 6.48e+00 1hyt d.92.1.2 59005 1jk0B 345 6.52e+00 a.25.1.2 63143 1keiA 316 6.86e+00 d.92.1.2 77349 1jkgA 140 7.16e+00 d.17.4.2 66795 1icxA 155 7.72e+00 d.129.3.1 71191 1gosA 520 8.07e+00 c.3.1.2 65425 d.16.1.5 65426 1l5aA 436 8.11e+00 c.43.1.2 75923 c.43.1.2 75924 1h2rL 534 8.17e+00 1h2rL e.18.1.1 43298 1ojaA 520 8.86e+00 1fgyA 127 8.94e+00 1faoA b.55.1.1 26976 1jn5A 140 9.00e+00 d.17.4.2 66921 6tmnE 316 9.00e+00 1hyt d.92.1.2 59071 8tlnE 316 9.21e+00 1hyt d.92.1.2 59075 1kxlA 199 9.45e+00 b.40.4.3 73155 3vtk 343 9.66e+00 1qhiA c.37.1.1 31884 1a3c 181 1.01e+01 1a3c c.61.1.1 34095 2tmnE 316 1.05e+01 1hyt d.92.1.2 59055 1jeiA 53 1.07e+01 1jeiA a.140.1.1 62918 2dri 271 1.11e+01 2dri c.93.1.1 35637 1qhiA 366 1.11e+01 1qhiA c.37.1.1 31860 1jhnA 424 1.16e+01 b.29.1.12 70060 b.104.1.1 66722 1jndA 420 1.22e+01 c.1.8.5 71757 d.26.3.1 71758 1jb2A 127 1.25e+01 d.17.4.2 71624 1gk8A 475 1.31e+01 c.1.14.1 65234 d.58.9.1 65235 1iz7A 295 1.38e+01 c.69.1.8 76982 1a31A 538 1.40e+01 1a36A d.163.1.2 42170 e.15.1.1 43263 1pb1A 416 1.40e+01 1a15A 67 1.44e+01 1a15A d.9.1.1 37451 1en7A 157 1.45e+01 1en7A a.140.4.1 64733 d.4.1.5 64734 1dcfA 136 1.47e+01 1dcfA c.23.1.2 31124 1asu 162 1.51e+01 1cxqA c.55.3.2 33626 1cv2A 296 1.52e+01 1bn6A c.69.1.8 34680 1bmv1 198 1.53e+01 1bmv1 1vsd 152 1.59e+01 1cxqA c.55.3.2 33625 1ldjB 90 1.59e+01 g.44.1.1 73850 1m1hA 248 1.62e+01 b.114.1.1 78415 d.58.42.1 78416 1a36A 592 1.69e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1iso 416 1.71e+01 1iso c.77.1.1 35065 1acc 735 1.73e+01 1acc f.11.1.1 43828 1cxqA 162 1.74e+01 1cxqA c.55.3.2 33621 1g6oA 330 1.74e+01 1g6oA c.37.1.11 32430 1g4wR 383 1.75e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1azo 232 1.76e+01 1azo c.52.1.14 33329 1k0mA 241 1.76e+01 a.45.1.1 67949 c.47.1.5 67950 2ki5A 366 1.78e+01 1qhiA c.37.1.1 31862 1kimA 366 1.78e+01 1qhiA c.37.1.1 31864 1bowA 159 1.79e+01 1bowA d.60.1.1 39528 1k6xA 352 1.86e+01 c.2.1.2 68238 1ipaA 274 1.88e+01 c.116.1.1 71254 d.79.3.3 71255 1a8s 273 1.88e+01 1brt c.69.1.12 34710 1jvpP 298 1.89e+01 d.144.1.1 67371 1omzA 293 1.91e+01 7icd 416 1.91e+01 1iso c.77.1.1 35072 1mkiA 330 1.93e+01 1bxvA 91 1.94e+01 1aac b.6.1.1 22875 1qjoA 80 1.99e+01 1iyu b.84.1.1 28229 2sil 381 2.02e+01 3sil b.68.1.1 27543 1k6iA 352 2.08e+01 c.2.1.2 68223 1qg7A 67 2.12e+01 1a15A d.9.1.1 37449 1smd 496 2.13e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1mj5A 302 2.13e+01 1dz3A 130 2.14e+01 1dz3A c.23.1.1 31105 1parA 53 2.15e+01 1bazA a.43.1.1 17437 1fzvA 132 2.17e+01 1vpfA g.17.1.1 60159 1dim 381 2.21e+01 3sil b.68.1.1 27544 1bdtA 53 2.24e+01 1bazA a.43.1.1 17433 1cozA 129 2.24e+01 1cozA c.26.1.2 31598 1mykA 53 2.37e+01 1bazA a.43.1.1 17425 1o7fA 469 2.38e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1f7dA 136 2.61e+01 1dun b.85.4.1 28353 1broA 277 2.64e+01 1brt c.69.1.12 34700 1h3gA 601 2.65e+01 1lvl 458 2.68e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1iuz 98 2.75e+01 1plc b.6.1.1 22861 1gfsA 321 2.79e+01 c.2.1.2 29811 1kewA 361 2.85e+01 c.2.1.2 68544 1qmpA 130 2.86e+01 1dz3A c.23.1.1 31106 1oe4A 247 2.86e+01 3sil 379 2.89e+01 3sil b.68.1.1 27542 1gz8A 299 2.92e+01 1fh0A 221 2.96e+01 1cs8A d.3.1.1 59832 1bsvA 321 3.01e+01 1bsvA c.2.1.2 29809 1o5hA 214 3.13e+01 1mxmA 254 3.16e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1e7lA 157 3.19e+01 1en7A a.140.4.1 64728 d.4.1.5 64729 2fnbA 95 3.27e+01 2fnbA b.1.2.1 21979 1m1nB 522 3.30e+01 c.92.2.3 78418 1g3p 217 3.34e+01 1g3p b.37.1.1 24788 b.37.1.1 24789 1g4uS 383 3.35e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 1eh8A 207 3.38e+01 1sfe a.4.2.1 16077 c.55.7.1 33752 1bwsA 321 3.41e+01 1bsvA c.2.1.2 29812 2minB 522 3.52e+01 1qguB c.92.2.3 35610 1jbeA 128 3.54e+01 3chy c.23.1.1 62845 1kdj 102 3.59e+01 1plc b.6.1.1 22864 3ldh 330 3.62e+01 3ldh i.12.1.1 46015 1lbvA 252 3.63e+01 e.7.1.1 73813 3minB 522 3.65e+01 1qguB c.92.2.3 35606 1odkA 235 3.68e+01 1pymA 295 3.68e+01 1pymA c.1.12.4 29308 1gy6A 127 3.75e+01 d.17.4.2 70736 1o54A 277 3.77e+01 1k0nA 241 3.82e+01 a.45.1.1 67953 c.47.1.5 67954 1k94A 165 3.85e+01 a.39.1.8 68333 1e6uA 321 3.86e+01 1bsvA c.2.1.2 29805 1hcl 298 3.90e+01 1hcl d.144.1.1 41593 1ir3A 306 3.95e+01 1fmk d.144.1.2 41702 1mxiA 160 3.96e+01 c.116.1.1 79646 1mp8A 281 3.97e+01