# List of top-scoring protein chains for T0440.t04-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 2yxoA 267 3.75e-33 1m65A 245 1.48e-25 c.6.3.1 84847 2anuA 255 9.68e-11 c.6.3.1 127058 2hpiA 1220 2.45e-09 2hnhA 910 4.63e-09 2hqaA 917 4.80e-09 2p1jA 186 8.88e-08 1z69A 327 1.24e-02 2yv1A 294 6.97e-02 1ekeA 230 3.42e-01 1ekeA c.55.3.1 33572 3bojA 213 6.34e-01 1f07A 321 8.50e-01 1ezwA c.1.16.3 59560 2a3nA 355 9.17e-01 2gzxA 265 1.25e+00 1zzmA 259 1.27e+00 c.1.9.12 125911 2a4aA 281 2.01e+00 c.1.10.1 126150 3boeA 210 2.14e+00 1wppA 311 2.50e+00 c.107.1.1 114828 1b5oA 385 2.57e+00 c.67.1.1 90401 1bjwA 382 2.75e+00 1bjwA c.67.1.1 34349 1k20A 310 2.86e+00 c.107.1.1 68027 1bkgA 385 2.86e+00 1bjwA c.67.1.1 34351 5bj3A 385 2.93e+00 c.67.1.1 100871 2dr1A 386 3.03e+00 5bj4A 385 3.03e+00 c.67.1.1 100875 2f96A 224 3.07e+00 c.55.3.5 133153 1b5pA 385 3.17e+00 c.67.1.1 90403 1st0A 337 3.23e+00 d.13.1.3,d.246.1.1 98979,98980 1xmmA 342 4.15e+00 d.13.1.3,d.246.1.1 122170,122171 1xmlA 342 4.69e+00 d.13.1.3,d.246.1.1 122166,122167 1dtpA 190 5.71e+00 d.166.1.1 42248 1rhcA 330 5.83e+00 c.1.16.3 97468 2oteA 214 6.00e+00 2enxA 310 6.00e+00 1iruD 248 6.07e+00 d.153.1.4 71355 1vlrA 350 6.29e+00 d.13.1.3,d.246.1.1 108860,108861 2q8uA 336 6.40e+00 1rypG 244 6.65e+00 d.153.1.4 41938 1ezwA 349 6.98e+00 1ezwA c.1.16.3 29558 1g0uF 248 7.48e+00 d.153.1.4 41951 1tqjA 230 8.19e+00 c.1.2.2 107228 1a1vA 476 8.43e+00 1heiA c.37.1.14,c.37.1.14 32467,32468 2igiA 180 8.62e+00 3bdmF 287 8.87e+00 2h9aB 310 8.90e+00 1z7qG 288 9.05e+00 d.153.1.4 124654 1n7kA 234 9.42e+00 c.1.10.1 85374 2c1vA 338 1.01e+01 2hqkA 219 1.03e+01 1mzhA 225 1.04e+01 c.1.10.1 79698 1zcjA 463 1.13e+01 2de2A 365 1.19e+01 2e8yA 718 1.21e+01 1a8lA 226 1.23e+01 c.47.1.2,c.47.1.2 32777,32778 1zkgA 212 1.25e+01 a.4.1.9,a.121.1.1 125194,125195 3brjA 175 1.26e+01 1qqeA 292 1.29e+01 1qqeA a.118.8.1 19210 2dx6A 159 1.31e+01 2de3A 365 1.33e+01 1oijC 301 1.33e+01 b.82.2.5 93061 1lehA 364 1.41e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1oihA 301 1.46e+01 b.82.2.5 93051 1z6tA 591 1.49e+01 2f4wA 187 1.52e+01 d.20.1.1 132958 2hi1A 330 1.57e+01 1g59A 468 1.68e+01 a.97.1.1,c.26.1.1 60257,60258 2g47A 990 1.73e+01 2z06A 252 1.75e+01 1n9wA 422 1.82e+01 b.40.4.1,d.104.1.1 85473,85474 2oplA 187 1.89e+01 2z5fA 298 2.01e+01 2fjkA 305 2.06e+01 1wzaA 488 2.06e+01 b.71.1.1,c.1.8.1 121489,121490 2jg4A 990 2.11e+01 2jhzA 138 2.28e+01 1doaB 219 2.35e+01 1rhoA b.1.18.8 21904 1ojxA 263 2.39e+01 c.1.10.1 93164 3cklA 298 2.41e+01 3cc8A 230 2.42e+01 1kpgA 287 2.43e+01 c.66.1.18 68735 2eguA 308 2.43e+01 2ot4A 525 2.53e+01 1vl4A 447 2.54e+01 d.283.1.1 108718 2f06A 144 2.62e+01 d.58.18.11,d.58.18.11 132652,132653 2etjA 250 2.70e+01 c.55.3.1 132360 1w8rA 263 2.74e+01 c.1.10.1 120734 2hgcA 102 2.92e+01 1sj5A 164 2.94e+01 1kmtA 141 2.95e+01 b.1.18.8 77442 1qvyA 139 2.97e+01 b.1.18.8 96449 2jhuA 138 3.03e+01 b.1.18.8 138323 2d59A 144 3.05e+01 c.2.1.8 131266 1vjlA 164 3.16e+01 d.257.1.1 100822 1ajwA 145 3.18e+01 b.1.18.8 21905 1w8sA 263 3.22e+01 c.1.10.1 120744 1r6xA 395 3.23e+01 b.122.1.3,c.26.1.5 97167,97168 2b61A 377 3.28e+01 1qi9A 556 3.34e+01 1qhbA a.111.1.2 19053 1rhoA 145 3.35e+01 1rhoA b.1.18.8 21899 1hh4D 204 3.38e+01 b.1.18.8 61039 2dqwA 294 3.50e+01 2cf5A 357 3.57e+01 1j09A 468 3.63e+01 a.97.1.1,c.26.1.1 77025,77026 2dyyA 126 3.72e+01 1x1oA 286 3.80e+01 2hk0A 309 3.97e+01 2r5vA 357 3.98e+01 3b5wA 582 4.09e+01 1ft0A 139 4.10e+01 1rhoA b.1.18.8 60018 1xngA 268 4.14e+01 c.26.2.1 122186 1m5wA 243 4.38e+01 c.1.24.1 84836 2a9vA 212 4.40e+01 c.23.16.1 126452 1ho1A 242 4.42e+01 1ho1A c.1.24.1 61097 2fzvA 279 4.53e+01 c.23.5.4 134478 2og9A 393 4.62e+01 2jhwA 138 4.66e+01 2oo6A 409 4.76e+01 2ioqA 624 4.83e+01 1kwgA 645 4.87e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1aeiA 315 4.94e+01 1avc a.65.1.1 18180 1wueA 386 4.95e+01 c.1.11.2,d.54.1.1 114892,114893 1zjjA 263 5.08e+01 2ji0A 138 5.10e+01 1dm5A 315 5.13e+01 1avc a.65.1.1 18186 3b60A 582 5.14e+01 2r5uA 200 5.20e+01 2fieA 338 5.22e+01 1p5tA 127 5.27e+01 b.55.1.2 94148 1vpyA 289 5.30e+01 c.1.32.1 113997 1yq1A 208 5.35e+01 2hoeA 380 5.39e+01 a.4.5.63,c.55.1.10,c.55.1.10 136639,136640,136641 2jhxA 138 5.41e+01 1l8nA 679 5.43e+01 c.1.8.10,d.92.2.2 84564,84565 1xi3A 215 5.55e+01 c.1.3.1 109601 2o55A 258 5.65e+01 2d1fA 360 5.85e+01 1sacA 204 5.88e+01 1sacA b.29.1.5 24237 2hjpA 290 5.94e+01 1bk4A 337 6.00e+01 1frpA e.7.1.1 42938 1ft3A 139 6.03e+01 1rhoA b.1.18.8 60020 2r10A 361 6.09e+01 2gszA 363 6.12e+01 1uisA 231 6.13e+01 d.22.1.1 99431 1ve4A 206 6.20e+01 c.94.1.1 120012 1wy0A 342 6.26e+01 2uy8A 385 6.28e+01 1visA 324 6.33e+01 d.14.1.5,d.58.26.3 100769,100770 2i7gA 376 6.35e+01 1uekA 275 6.40e+01 d.14.1.5,d.58.26.5 88483,88484 2q4kA 251 6.44e+01 d.86.1.2 139864 2pgfA 371 6.45e+01 1j32A 388 6.48e+01 c.67.1.1 77067 1zo1I 501 6.50e+01 1kkhA 317 6.54e+01 d.14.1.5,d.58.26.3 72645,72646 2hpvA 208 6.58e+01 1j08A 226 6.63e+01 c.47.1.2,c.47.1.2 83855,83856 1yyzA 337 6.72e+01 1uf5A 303 6.72e+01 d.160.1.2 107808 1ftaA 337 6.73e+01 1frpA e.7.1.1 42934 1mhyD 521 6.86e+01 1mhyD a.25.1.2 16780 3b5xA 582 6.92e+01 2gqwA 408 6.92e+01 2bu3A 254 6.99e+01 d.3.1.14 129167 2oi2A 292 7.05e+01 1iz3A 349 7.30e+01 b.82.2.6 83831 1yd7A 395 7.35e+01 2gr3A 408 7.37e+01 1vpxA 230 7.41e+01 c.1.10.1 113977 2gk3A 256 7.48e+01 2pz0A 252 7.54e+01 1fsoA 139 7.56e+01 1rhoA b.1.18.8 60007 2j41A 207 7.59e+01 2v09A 385 7.59e+01 3bn1A 373 7.61e+01 1mqpA 679 7.62e+01 c.1.8.10,d.92.2.2 91418,91419 1mqrA 679 7.62e+01 c.1.8.10,d.92.2.2 91422,91423 1k9fA 679 7.62e+01 c.1.8.10,d.92.2.2 77296,77297 1j58A 385 7.64e+01 b.82.1.2 71531 2q9qA 191 7.66e+01 1xrhA 351 7.72e+01 c.122.1.1 115871 1wdnA 226 7.73e+01 1lst c.94.1.1 35816 2uy9A 385 7.77e+01 2ehoC 186 7.87e+01 2uybA 385 7.91e+01 1senA 164 7.91e+01 c.47.1.1 105465 2is3A 215 7.95e+01 2cdhS 248 7.96e+01 i.26.1.1 130288 2nrqA 159 7.98e+01 1wlfA 179 8.00e+01 d.31.1.1,b.52.2.3 109396,109397