# 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.soe.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 1oltA 457 2.11e-01 c.1.28.2 93334 3lqaG 332 4.01e-01 2gvkA 317 4.43e-01 d.58.4.14 135782 2r5jA 423 6.45e-01 1x7aL 146 2.02e+00 g.3.11.1 121782 g.3.11.1 121783 1uf3A 228 2.12e+00 d.159.1.6 99317 1amuA 563 2.86e+00 1amuA e.23.1.1 43351 2pv0A 386 3.04e+00 3hqfA 181 3.29e+00 1na6A 404 3.38e+00 b.142.1.1 91748 c.52.1.22 91749 1k4nA 192 3.57e+00 d.32.1.5 72059 2ny4A 317 3.63e+00 d.172.1.1 145706 2qmjA 870 4.04e+00 3l4yA 875 4.06e+00 2ny3A 317 4.12e+00 d.172.1.1 145705 2eknA 159 4.24e+00 1yymG 313 4.64e+00 d.172.1.1 124232 1h76A 696 5.03e+00 c.94.1.2 65699 c.94.1.2 65700 2koeA 40 5.89e+00 1xwhA 66 6.17e+00 2b5lC 222 6.54e+00 1tkeA 224 6.58e+00 d.15.10.1 112470 d.67.1.1 112471 2px2A 269 7.24e+00 3ck6A 252 8.80e+00 2e6sA 77 9.45e+00 2frmA 321 9.88e+00 3mbwA 330 9.91e+00 2ewdA 317 1.03e+01 1fpzA 212 1.05e+01 1fpzA c.45.1.1 59976 3ll5A 249 1.08e+01 1dzlA 505 1.12e+01 1dzlA b.121.6.1 23586 3gwaA 365 1.13e+01 2kftA 56 1.16e+01 3mx0A 409 1.20e+01 2r5hA 424 1.21e+01 2gttA 450 1.26e+01 a.260.1.1 135682 3fl7A 536 1.27e+01 1be3K 56 1.31e+01 f.23.15.1 43672 2x10A 545 1.31e+01 2qadA 322 1.33e+01 3hi1G 321 1.36e+01 1ru0A 105 1.39e+01 d.74.1.1 111937 2aewA 205 1.39e+01 b.1.2.1 126648 b.1.2.1 126649 3hhrB 205 1.40e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1yfoA 302 1.42e+01 2shpA c.45.1.2 32681 1mjvA 96 1.43e+01 g.17.1.1 79214 3cn9A 226 1.47e+01 1dcoA 104 1.48e+01 1dcpA d.74.1.1 39680 1hwgB 237 1.48e+01 1axiB b.1.2.1 21999 b.1.2.1 22000 1a22B 238 1.48e+01 1axiB b.1.2.1 22003 b.1.2.1 22004 2vdcG 456 1.60e+01 2ohdA 151 1.66e+01 2w02A 620 1.66e+01 1p0kA 349 1.70e+01 c.1.4.1 87648 1pmsA 136 1.72e+01 b.55.1.1 26966 3ffeA 653 1.77e+01 2b1lA 129 1.84e+01 3dkbA 390 1.90e+01 1aweA 130 1.95e+01 b.55.1.1 26968 1sqbK 56 1.97e+01 f.23.15.1 105905 2zscA 141 1.98e+01 2vfjA 366 1.99e+01 1e3dB 542 2.13e+01 1h2rL e.18.1.1 59189 1g0vA 329 2.16e+01 1smrA b.50.1.2 60189 2g0fA 168 2.24e+01 2pkpA 170 2.26e+01 2wphE 59 2.40e+01 2b1kA 168 2.41e+01 2zqzA 326 2.44e+01 3imhA 338 2.45e+01 2hb5A 164 2.53e+01 3lc3B 57 2.53e+01 3kcgL 59 2.62e+01 1wr8A 231 2.66e+01 c.108.1.10 114836 2p5mA 83 2.69e+01 d.74.2.1 149254 1co4A 42 2.74e+01 1co4A g.47.1.1 45347 1f0kA 364 2.78e+01 1f0kA c.87.1.2 35465 3mcrA 213 2.79e+01 1l0lK 56 2.89e+01 f.23.15.1 84497 1gc1G 321 2.91e+01 1gc1G d.172.1.1 42493 2pyqA 114 2.93e+01 a.279.1.1 149953 1rzjG 321 2.93e+01 d.172.1.1 98200 1g9mG 321 2.93e+01 1gc1G d.172.1.1 42492 1i2kA 269 2.95e+01 e.17.1.1 90661 1et0A 269 2.95e+01 1et0A e.17.1.1 43289 2fyuK 56 3.05e+01 f.23.15.1 145179 2ejaA 338 3.06e+01 2in9A 139 3.10e+01 1sqpK 56 3.12e+01 f.23.15.1 144376 3ifjA 139 3.16e+01 1l3iA 192 3.17e+01 c.66.1.22 77676 2in0A 139 3.20e+01 1ydxA 406 3.31e+01 d.287.1.2 123004 d.287.1.2 123005 1sfpA 114 3.38e+01 b.23.1.1 23895 1dpjA 329 3.42e+01 1smrA b.50.1.2 26828 2avaA 82 3.48e+01 2jxrA 329 3.51e+01 1smrA b.50.1.2 26831 1ceqA 316 3.52e+01 1ceqA c.2.1.5 30163 d.162.1.1 42130 3cuzA 532 3.63e+01 2nxyA 317 3.69e+01 d.172.1.1 145701 1x5cA 121 3.69e+01 1tyeA 452 3.71e+01 b.69.8.1 112829 2qfzA 345 3.73e+01 1t2eA 322 3.74e+01 c.2.1.5 99086 d.162.1.1 99087 2vdrA 452 3.75e+01 2in8A 139 3.77e+01 2a94A 321 3.77e+01 c.2.1.5 126423 d.162.1.1 126424 1t2dA 322 3.78e+01 c.2.1.5 99084 d.162.1.1 99085 3fcuA 457 3.79e+01 2j6lA 500 3.79e+01 1mm3A 61 3.84e+01 g.50.1.2 85016 1j4nA 271 3.84e+01 f.19.1.1 71510 2qyjA 166 3.89e+01 k.37.1.1 151473 1oc4A 322 3.90e+01 c.2.1.5 92770 d.162.1.1 92771 2imzA 168 3.94e+01 3k8nA 185 3.94e+01 2gwdA 449 3.94e+01 1f9nA 149 3.95e+01 a.4.5.3 64990 d.74.2.1 64991