# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1eta1 127 5.77e-22 1etb1 1etb1 127 6.23e-22 1etb1 1ttbA 127 7.39e-22 1etb1 b.3.4.1 22543 1f86A 115 7.62e-22 1etb1 b.3.4.1 59689 1f41A 127 8.35e-22 1etb1 b.3.4.1 22539 2pabA 127 1.11e-21 1etb1 b.3.4.1 22597 1tfpA 130 3.31e-21 1etb1 b.3.4.1 22623 1qmuA 380 1.11e-02 1qmuA b.3.2.1 22534 c.56.5.1 33827 1dmhA 311 7.34e-02 1dmhA b.3.6.1 22633 1ah1 129 2.22e-01 1ah1 b.1.1.1 20652 1pdkB 157 4.58e-01 1pdkB b.2.3.2 22427 1js8A 394 5.10e-01 a.86.1.1 67219 b.1.1.5 67220 2rspB 124 5.27e-01 2rspB b.50.1.1 26772 1mvpA 124 6.18e-01 2rspB b.50.1.1 26775 2pcdM 238 9.06e-01 3pchM b.3.6.1 22760 2rspA 124 1.13e+00 2rspB b.50.1.1 26771 3pcgM 238 2.01e+00 3pchM b.3.6.1 22742 1g84A 105 2.23e+00 1g84A b.1.1.2 60345 3pcgA 200 2.33e+00 3pchA b.3.6.1 22647 3pchM 238 2.53e+00 3pchM b.3.6.1 22748 1nfkA 325 2.54e+00 1a3qA b.1.1.5 21929 b.2.5.1 22444 1qfhA 212 2.60e+00 1qfhA b.1.1.5 21893 b.1.1.5 21894 1eo9B 241 2.60e+00 3pchM b.3.6.1 22826 1lktA 104 2.67e+00 1lktA b.90.1.1 28398 1cwvA 492 2.82e+00 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1pcfA 66 2.98e+00 1pcfA d.18.1.1 38142 1emwA 88 3.18e+00 1emwA d.27.1.1 38448 3pchA 200 3.42e+00 3pchA b.3.6.1 22653 3pcnA 200 3.44e+00 3pchA b.3.6.1 22725 1yaiA 151 3.84e+00 1yaiA b.1.8.1 22289 1fjgP 88 3.86e+00 1emwA d.27.1.1 38444 1b3nA 412 4.65e+00 1dd8A c.95.1.1 35966 c.95.1.1 35967 1ew3A 159 4.96e+00 1mup b.60.1.1 27114 1kas 412 5.36e+00 1dd8A c.95.1.1 35964 c.95.1.1 35965 1tnfA 158 5.41e+00 2tnfA b.22.1.1 23871 1jb0E 75 6.48e+00 1pse b.34.4.2 62824 1jnuA 104 6.58e+00 1afwA 393 7.45e+00 1afwA c.95.1.1 35900 c.95.1.1 35901 1apmE 350 7.69e+00 1cdkA d.144.1.1 41628 1cmkE 350 8.24e+00 1cdkA d.144.1.1 41623 2pcdA 200 8.28e+00 3pchA b.3.6.1 22665 4tsvA 150 8.40e+00 2tnfA b.22.1.1 23860 1jj2A 239 8.62e+00 1rl2A b.34.5.3 63084 b.40.4.5 63085 1hnf 182 8.92e+00 1qa9A b.1.1.1 19741 b.1.1.3 21680 2olbA 517 9.27e+00 1jevA c.94.1.1 35721 1jevA 517 9.30e+00 1jevA c.94.1.1 35720 1qhdA 398 9.89e+00 1qhdA a.115.1.2 63324 b.19.1.1 63325 1jetA 517 1.02e+01 1jevA c.94.1.1 35718 1igtD 444 1.03e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1wad 112 1.08e+01 3cyr a.138.1.1 19658 1cjcA 460 1.13e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1g13A 162 1.13e+01 1g13A b.95.1.1 60194 1h91A 180 1.16e+01 b.60.1.1 60805 1kqrA 179 1.18e+01 1g7jB 116 1.21e+01 1f3rB b.1.1.1 19933 1qouA 181 1.21e+01 1qouA b.17.1.1 23707 1i4uA 181 1.28e+01 b.60.1.1 61732 1m0dA 138 1.30e+01 1iazA 179 1.46e+01 1iazA b.97.1.1 62131 1e5mA 416 1.47e+01 1dd8A c.95.1.1 58973 c.95.1.1 58974 1dixA 208 1.48e+01 1bk7A d.124.1.1 41122 1dkzA 219 1.51e+01 1dkzA e.20.1.1 43314 1igtB 444 1.53e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1dkxA 219 1.62e+01 1dkzA e.20.1.1 43315 1h6tA 291 1.62e+01 b.1.1.6 65686 c.10.2.1 65687 1fzrA 138 1.64e+01 1fzrA c.52.1.17 33336 1mfiA 114 1.66e+01 1dptA d.80.1.3 39856 1k8wA 327 1.71e+01 d.58.35.2 68317 d.58.35.2 68318 1cof 143 1.72e+01 1cof d.109.1.2 40860 1jdpA 441 1.78e+01 c.93.1.1 62906 1cpn 208 1.78e+01 1axkA b.29.1.2 24175 35c8H 217 1.82e+01 8fabA b.1.1.1 20297 b.1.1.2 21289 2ayh 214 1.83e+01 1axkA b.29.1.2 24172 1dfcA 493 1.86e+01 1dfcA b.42.5.1 25616 b.42.5.1 25617 b.42.5.1 25618 b.42.5.1 25619 1azsA 220 1.95e+01 1azsA d.58.29.1 39416 1jeyA 609 1.96e+01 1jeqA e.31.1.1 62924 1avpA 204 2.03e+01 1avpA d.3.1.7 37132 1qexA 288 2.03e+01 1qexA b.32.1.1 24425 1cknA 330 2.07e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1k8kC 372 2.13e+01 b.69.4.1 68308 1d2kA 392 2.24e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1cdkA 350 2.25e+01 1cdkA d.144.1.1 41620 1thv 207 2.25e+01 1thv b.25.1.1 23904 1dmmA 131 2.35e+01 1opy d.17.4.3 38114 1vppX 20 2.36e+01 1ahjB 212 2.41e+01 2ahjB b.34.4.4 24601 1ea2A 131 2.47e+01 d.17.4.3 64860 1a2yB 116 2.50e+01 1gc1H b.1.1.1 19927 1opy 131 2.51e+01 1opy d.17.4.3 38113 2glsA 470 2.52e+01 1lgr d.15.9.1 37851 d.128.1.1 41181 2ahjB 212 2.52e+01 2ahjB b.34.4.4 24599 1pxtB 390 2.56e+01 1afwA c.95.1.1 35906 c.95.1.1 35907 1pgs 314 2.58e+01 1pgs b.13.1.1 23653 b.13.1.1 23654 1ckmA 330 2.58e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1mldA 314 2.58e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1tnrA 144 2.59e+01 2tnfA b.22.1.1 23867 1ehiA 377 2.60e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1lvoA 302 2.66e+01 1thw 207 2.66e+01 1thv b.25.1.1 23903 1rfs 139 2.68e+01 1rfs b.33.1.1 24434 1edhA 226 2.72e+01 1edhA b.1.6.1 22198 b.1.6.1 22199 2prd 174 2.73e+01 2prd b.40.5.1 25435 1thtA 305 2.75e+01 1thtA c.69.1.13 34711 1cfyA 143 2.76e+01 1cof d.109.1.2 40858 1rss 151 2.76e+01 1rss a.75.1.1 18392 1cb0A 283 2.77e+01 1cb0A c.56.2.1 33790 1avwB 171 2.90e+01 1wba b.42.4.1 25599 1l4iA 206 2.92e+01 1dgsA 667 2.94e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1hvbA 349 2.94e+01 3pte e.3.1.1 42686 1mfmA 153 2.95e+01 1mfmA b.1.8.1 22246 2cae 484 2.96e+01 1cf9A e.5.1.1 42810 1amuA 563 2.97e+01 1amuA e.23.1.1 43351 1ag9A 175 3.03e+01 1rcf c.23.5.1 31178 1jenA 267 3.06e+01 1jenA 1f7sA 139 3.07e+01 1cof d.109.1.2 40857 1fit 147 3.12e+01 1fit d.13.1.1 37499 1lgr 468 3.17e+01 1lgr d.15.9.1 37837 d.128.1.1 41167 1dy9A 187 3.22e+01 1jxpA b.47.1.3 26400 1gbg 214 3.29e+01 1axkA b.29.1.2 24171 2lgsA 468 3.35e+01 1lgr d.15.9.1 37838 d.128.1.1 41168 1grj 158 3.39e+01 1grj a.2.1.1 15691 d.26.1.2 38433 1g57A 217 3.44e+01 1g57A d.115.1.2 60253 1inp 400 3.57e+01 1inp e.7.1.1 42972 1xgsA 295 3.60e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1a12A 413 3.60e+01 1a12A b.69.5.1 27663 1ble 163 3.66e+01 1ble c.38.1.1 32475 1ktzB 122 3.69e+01 g.7.1.3 68868 1ebaA 215 3.69e+01 1eerB b.1.2.1 22015 b.1.2.1 22016 1hcxA 127 3.72e+01 b.109.1.1 65800 1ea7A 310 3.81e+01 1ehxA 94 3.83e+01 1ehxA b.1.1.6 21950 1gpr 162 3.86e+01 1gpr b.84.3.1 28267 1a3k 137 3.93e+01 1a3k b.29.1.3 24218