# List of top-scoring protein chains for t04-100-30-str2 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 1v6fA 151 1.25e-24 1f7sA 139 2.04e-24 1cof d.109.1.2 40857 1hqz1 141 2.74e-19 1m4jA 142 3.37e-18 d.109.1.2 78602 1udmA 149 5.01e-13 1p8xA 344 3.68e-03 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1svy 114 1.03e-02 1svy d.109.1.1 40831 1nm1G 125 1.94e-02 d.109.1.1 80653 1d4xG 126 2.09e-02 1d0nA d.109.1.1 59109 1ako 268 6.81e-01 1ako d.151.1.1 41779 1qk8A 146 7.79e-01 1ewxA c.47.1.10 33061 1kcqA 104 8.01e-01 d.109.1.1 68449 1skoB 130 8.31e-01 1vybA 238 9.59e-01 1qqqA 264 9.97e-01 1bkpA d.117.1.1 40931 1evfA 264 1.19e+00 1bkpA d.117.1.1 40932 1o6sB 105 1.28e+00 b.1.6.1 81096 1j0aA 325 1.31e+00 c.79.1.1 83871 1gtmA 419 1.38e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1o8xA 146 1.47e+00 c.47.1.10 86681 1mai 131 1.70e+00 1mai b.55.1.1 26951 1ex2A 189 1.71e+00 1ex2A c.51.4.2 33225 1gyxA 76 1.92e+00 d.80.1.1 76387 1mdbA 539 1.93e+00 e.23.1.1 79008 1jb0D 138 2.65e+00 1jb0D d.187.1.1 62823 1o58A 303 3.13e+00 c.79.1.1 -8503 1hjrA 158 3.34e+00 1hjrA c.55.3.6 33727 1qd1A 325 3.68e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 1i5gA 144 3.78e+00 1ewxA c.47.1.10 61784 1j3wA 163 4.08e+00 unknown_sccs -10870 1mu5A 471 4.12e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1ijgA 309 4.14e+00 1fouA e.27.1.1 62493 1gv3A 248 4.73e+00 a.2.11.1 70585 d.44.1.1 70586 1larA 575 5.07e+00 1larA c.45.1.2 32693 c.45.1.2 32694 1sviA 195 6.01e+00 1nb9A 147 6.48e+00 b.43.5.1 85515 1jlvA 209 6.49e+00 a.45.1.1 71729 c.47.1.5 71730 1f0xA 571 6.75e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1a99A 344 7.10e+00 1pot c.94.1.1 35812 1n7oA 721 7.11e+00 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1unnC 115 7.18e+00 unknown_sccs -10216 1k3rA 268 7.26e+00 b.40.4.10 72018 c.116.1.2 72019 1eejA 216 7.28e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1k32A 1045 7.74e+00 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 2kinA 238 8.45e+00 1bg2 c.37.1.9 32190 1jx4A 352 8.49e+00 unknown_sccs -10188 unknown_sccs -11898 1p2fA 220 9.06e+00 a.4.6.1 87720 c.23.1.1 87721 1s3zA 165 9.25e+00 1e4yA 214 1.00e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1vsd 152 1.05e+01 1cxqA c.55.3.2 33625 1qhlA 227 1.07e+01 1qhlA c.37.1.12 32382 1fw9A 164 1.09e+01 1fw9A d.190.1.1 60059 1eguA 731 1.09e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1ermA 263 1.16e+01 1btl e.3.1.1 42690 1btl 263 1.17e+01 1btl e.3.1.1 42691 1iow 306 1.19e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1cxqA 162 1.19e+01 1cxqA c.55.3.2 33621 1p3dA 475 1.26e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1fcqA 350 1.32e+01 c.1.8.9 65006 1ix9A 205 1.32e+01 a.2.11.1 76899 d.44.1.1 76900 1j7lA 264 1.35e+01 d.144.1.6 62697 1h1aA 191 1.36e+01 b.29.1.11 83450 1h5wA 309 1.37e+01 e.27.1.1 65635 1poiB 260 1.39e+01 1poiB unknown_sccs 34155 1pvgA 418 1.40e+01 d.14.1.3 -9032 d.122.1.2 -10965 1hfoA 113 1.43e+01 d.80.1.3 61006 1m40A 263 1.48e+01 e.3.1.1 74437 1br9 194 1.49e+01 1br9 b.40.3.1 25235 1qqp2 218 1.51e+01 1qqp2 1i8fA 81 1.52e+01 1i8fA b.38.1.1 61959 2tpsA 227 1.53e+01 2tpsA c.1.3.1 28591 1ifqA 138 1.56e+01 1ifqA d.110.4.1 62350 1ly1A 181 1.59e+01 c.37.1.1 74334 2dnjA 260 1.64e+01 3dni d.151.1.1 41790 1fb6A 105 1.64e+01 1thx c.47.1.1 32739 1vicA 262 1.65e+01 c.68.1.13 -8252 1i0hA 205 1.67e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1jmcA 246 1.70e+01 1jmcA b.40.4.3 25300 b.40.4.3 25301 1jenA 267 1.79e+01 1jenA 1n9bA 265 1.79e+01 e.3.1.1 85463 1jlnA 297 1.82e+01 1pty c.45.1.2 63172 2hgsA 474 1.83e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1nciA 110 1.89e+01 1edhA b.1.6.1 22191 1qxhA 167 1.92e+01 c.47.1.10 -7496 1lgpA 116 1.94e+01 b.26.1.2 73890 1o4vA 183 1.94e+01 c.23.8.1 86628 1j96A 323 1.94e+01 c.1.7.1 71616 1iscA 192 1.97e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1jd0A 263 2.03e+01 2cba b.74.1.1 62888 1mml 265 2.06e+01 1mml e.8.1.2 43015 1jbeA 128 2.08e+01 3chy c.23.1.1 62845 1meoA 209 2.13e+01 c.65.1.1 79035 1cojA 212 2.16e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1npyA 271 2.16e+01 c.2.1.7 85995 c.58.1.5 85996 1mngA 203 2.20e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1hlrA 907 2.24e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1qxoA 388 2.29e+01 unknown_sccs -11161 1j08A 226 2.31e+01 c.47.1.2 83855 c.47.1.2 83856 1ecfA 504 2.35e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1jkgA 140 2.36e+01 d.17.4.2 66795 1j8bA 112 2.40e+01 d.222.1.1 77101 1my6A 199 2.45e+01 a.2.11.1 85232 d.44.1.1 85233 1sqsA 242 2.50e+01 unknown_sccs -6433 2mev1 277 2.52e+01 2mev1 1i4wA 353 2.52e+01 c.66.1.24 66028 1jihA 531 2.53e+01 unknown_sccs -10212 unknown_sccs -11922 1iz5A 249 2.64e+01 d.131.1.2 83834 d.131.1.2 83835 1odfA 290 2.69e+01 c.37.1.6 -7045 1qy5A 269 2.71e+01 d.122.1.1 -10958 1iyeA 309 2.72e+01 e.17.1.1 83786 1ddmA 135 2.78e+01 2nmbA b.55.1.2 26993 1pjxA 314 2.78e+01 1a88A 275 2.79e+01 1brt c.69.1.12 34707 1r5pA 108 2.79e+01 unknown_sccs -7487 1alo 907 2.82e+01 1alo 1qauA 112 2.83e+01 1qauA b.36.1.1 24779 1qysA 106 2.88e+01 unknown_sccs -13432 1g291 372 2.93e+01 1g291 1pyoA 167 2.94e+01 c.17.1.1 -7932 1b6rA 355 2.94e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1aq0A 306 2.95e+01 1aq0A c.1.8.3 28842 1uesA 191 2.95e+01 1a8l 226 2.96e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1qmgA 524 3.06e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1c4rA 182 3.07e+01 1c4rA b.29.1.4 24229 3chy 128 3.11e+01 3chy c.23.1.1 31038 5croA 66 3.14e+01 1orc a.35.1.2 17044 1ltlA 279 3.15e+01 b.40.4.11 84701 1e1aA 314 3.19e+01 1e1aA b.68.6.1 59155 1fs0G 230 3.21e+01 1fs0G c.49.2.1 59999 1i1kA 309 3.25e+01 1daaA e.17.1.1 61533 1odzA 386 3.27e+01 c.1.8.3 86889 1bo4A 168 3.34e+01 1bo4A d.108.1.1 40798 1qnnA 191 3.35e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1qo7A 394 3.39e+01 1qo7A c.69.1.11 34697 1tluA 130 3.48e+01 1op4A 159 3.49e+01 b.1.6.1 -2794 1n8fA 350 3.51e+01 c.1.10.4 85397 1ehiA 377 3.51e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1d7yA 408 3.55e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1jdpA 441 3.58e+01 c.93.1.1 62906 1vk0A 206 3.71e+01 c.55.3.5 -7647 1bbt1 213 3.72e+01 1qqp1 1ujxA 119 3.73e+01 b.26.1.2 -3325 1rypH 205 3.76e+01 d.153.1.4 41876 1ntvA 152 3.77e+01 b.55.1.2 86168 1ab4 477 3.82e+01 1ab4 e.11.1.1 43251 1opc 110 3.82e+01 1opc a.4.6.1 16231 1a9xA 1058 3.83e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1uldA 150 3.85e+01 b.29.1.3 -3423 1j9yA 385 3.85e+01 1j9yA c.1.8.3 62791 1pmhX 185 3.97e+01 1pl8A 356 3.99e+01 b.35.1.2 -3716 c.2.1.1 -5740