# 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 2af7A 125 3.13e-15 a.152.1.2 126658 1vkeA 133 1.81e-10 a.152.1.2 108650 1p8cA 145 1.84e-10 a.152.1.2 94354 3beyA 96 2.58e-10 2cwqA 137 9.42e-08 a.152.1.4 130931 2q0tA 263 1.94e-07 2qeuA 141 3.88e-07 2ouwA 138 4.42e-07 1gu9A 177 7.68e-05 a.152.1.1 65540 1me5A 177 1.42e-04 a.152.1.1 79024 1lw1A 177 2.76e-04 a.152.1.1 74290 3c1lA 188 3.94e-04 2prrA 197 3.95e-04 2pfxA 191 2.20e-03 2gmyA 153 2.64e-02 a.152.1.3 135398 2o4dA 165 4.06e-02 a.152.1.3 138907 2ijcA 145 4.16e-02 a.152.1.3 137465 2oyoA 196 4.96e-02 2b8eA 273 4.08e-01 c.108.1.7 128068 d.220.1.1 128069 1apyA 162 1.01e+00 1apyA d.153.1.5 42004 3c98A 606 1.50e+00 1schA 294 1.65e+00 1bgp a.93.1.1 18685 2o6lA 170 2.18e+00 2q3pA 112 2.47e+00 d.58.4.4 139798 2ekkA 47 3.02e+00 1oc4A 322 3.22e+00 c.2.1.5 92770 d.162.1.1 92771 1rovA 857 3.48e+00 a.119.1.1 97674 b.12.1.1 97675 1rrhA 857 3.52e+00 a.119.1.1 111922 b.12.1.1 111923 2a94A 321 4.08e+00 c.2.1.5 126423 d.162.1.1 126424 1xivA 323 4.08e+00 c.2.1.5 122018 d.162.1.1 122019 1t2dA 322 4.10e+00 c.2.1.5 99084 d.162.1.1 99085 1ceqA 316 4.13e+00 1ceqA c.2.1.5 30163 d.162.1.1 42130 1pytC 253 4.13e+00 5ptp b.47.1.2 26233 1t2eA 322 4.14e+00 c.2.1.5 99086 d.162.1.1 99087 1zkqA 517 5.07e+00 2iujA 853 5.36e+00 2ddhA 661 5.56e+00 a.29.3.2 131394 a.29.3.2 131395 e.6.1.2 131396 1fonA 240 7.35e+00 5ptp b.47.1.2 26231 1uvxA 121 7.77e+00 a.1.1.1 100067 1n1bA 549 7.86e+00 a.102.4.1 79799 a.128.1.3 79800 1ztcA 221 8.09e+00 d.157.1.11 125635 1ho8A 480 8.09e+00 1ho8A a.118.1.9 61107 2hgmA 126 8.69e+00 1dlyA 164 9.25e+00 1dlyA a.1.1.1 14983 1qdbA 473 1.05e+01 1qdbA a.138.1.3 19688 1rxwA 336 1.06e+01 a.60.7.1 98059 c.120.1.2 98060 1wdvA 152 1.07e+01 d.116.1.1 114539 2i2xB 258 1.08e+01 1k8kB 394 1.11e+01 c.55.1.1 68307 2p9kB 394 1.12e+01 1fs7A 485 1.17e+01 1qdbA a.138.1.3 19691 3bnjA 485 1.18e+01 2fhwA 24 1.19e+01 2cmgA 262 1.20e+01 1fs9A 507 1.21e+01 1qdbA a.138.1.3 19693 2g6pA 304 1.23e+01 2ebdA 309 1.27e+01 2b3hA 329 1.32e+01 2drsA 396 1.32e+01 2droA 396 1.32e+01 2drrA 396 1.33e+01 2drqA 396 1.33e+01 1wu4A 396 1.33e+01 a.102.1.2 121272 2b8nA 429 1.35e+01 c.118.1.1 128093 1uazA 254 1.41e+01 f.13.1.1 88392 1jjrA 151 1.46e+01 a.140.2.1 66772 2k29A 53 1.53e+01 1ys4A 354 1.53e+01 2f3oA 776 1.54e+01 2ei4A 253 1.54e+01 1vgoA 253 1.54e+01 1zybA 232 1.69e+01 a.4.5.4 125815 b.82.3.2 125816 1y0uA 96 1.70e+01 a.4.5.5 116310 3bjxA 311 1.80e+01 2pmzC 392 1.83e+01 1wevA 88 1.84e+01 g.50.1.2 114566 2r00A 336 1.89e+01 2vg0A 227 1.90e+01 2ev1A 222 1.90e+01 2vg1A 228 1.90e+01 2r00C 336 1.91e+01 1wg5A 104 1.97e+01 d.58.7.1 114602 1epuA 591 2.06e+01 1dn1A e.25.1.1 43358 2f2sA 406 2.06e+01 2bw8A 227 2.07e+01 b.29.1.11 129324 2omlA 189 2.10e+01 2ib8A 395 2.12e+01 1vr6A 350 2.17e+01 c.1.10.4 120439 1h0bA 256 2.20e+01 b.29.1.11 83422 2olwA 217 2.23e+01 2jaqA 205 2.26e+01 2jasA 206 2.26e+01 2fq4A 192 2.29e+01 a.4.1.9 133937 a.121.1.1 133938 2bvuA 126 2.30e+01 2av9A 147 2.34e+01 d.38.1.1 127365 2o5uA 148 2.35e+01 2o6tA 149 2.35e+01 2otpA 196 2.40e+01 2yv3A 331 2.53e+01 1nr3A 122 2.62e+01 d.236.1.1 86092 1e6uA 321 2.62e+01 1bsvA c.2.1.2 29805 1bsvA 321 2.65e+01 1bsvA c.2.1.2 29809 1vioA 243 2.66e+01 d.265.1.3 100762 d.66.1.5 100763 1jb6A 33 2.66e+01 1f93E a.34.2.1 62834 2jx9A 106 2.67e+01 2fb2A 340 2.68e+01 1xk5A 204 2.69e+01 2r48A 106 2.83e+01 1g2yA 32 2.87e+01 a.34.2.1 17003 1e7qA 321 2.90e+01 1bsvA c.2.1.2 29807 1e7sA 321 2.90e+01 1bsvA c.2.1.2 29806 2nliA 368 2.91e+01 1e7rA 321 2.92e+01 1bsvA c.2.1.2 29808 2zfaA 374 2.92e+01 2du2A 374 2.92e+01 1g2zA 32 2.92e+01 1f93E a.34.2.1 17007 2v8tA 302 2.92e+01 2pk0A 250 2.94e+01 2cwlA 302 2.95e+01 a.25.1.3 130927 1wu6A 396 2.96e+01 a.102.1.2 121274 1k4yA 534 2.99e+01 c.69.1.1 72069 1vz0A 230 3.03e+01 a.4.14.1 108929 d.268.1.1 108930 1t38A 188 3.03e+01 a.4.2.1 106333 c.55.7.1 106334 1qntA 176 3.04e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 3cb0A 173 3.07e+01 1g39A 32 3.07e+01 a.34.2.1 17009 1yfhA 179 3.09e+01 a.4.2.1 123062 c.55.7.1 123063 1t39A 188 3.12e+01 a.4.2.1 106335 c.55.7.1 106336 2uy8A 385 3.29e+01 1j58A 385 3.29e+01 b.82.1.2 71531 3b79A 129 3.33e+01 2v09A 385 3.34e+01 2bayA 61 3.36e+01 g.44.1.2 128251 1c75A 71 3.43e+01 451c a.3.1.1 15796 2a92A 321 3.43e+01 2uyaA 383 3.45e+01 3c8tA 451 3.46e+01 2gkmA 136 3.46e+01 2g1iA 563 3.46e+01 2edmA 161 3.46e+01 2uy9A 385 3.48e+01 2gk4A 232 3.51e+01 5mdhA 333 3.61e+01 1bmdA c.2.1.5 30126 d.162.1.1 42093 1idrA 136 3.64e+01 1dlyA a.1.1.1 62301 2j6xA 374 3.65e+01 1cokA 68 3.67e+01 1cokA a.60.1.2 17945 1zmvA 327 3.68e+01 1y8gA 327 3.70e+01 2uybA 385 3.72e+01 3bhqA 211 3.72e+01 1zmuA 327 3.73e+01 1ahrA 146 3.74e+01 a.39.1.5 17287 1tv8A 340 3.82e+01 c.1.28.3 107352 1mioA 533 3.85e+01 1qguA c.92.2.3 35601 1y10A 407 3.85e+01 2glnA 136 3.89e+01 1ffuC 287 3.91e+01 1qj2C d.87.2.1 40225 d.145.1.3 41756 1g6uA 48 3.97e+01 1g6uA k.9.1.1 46425 1q08A 99 4.00e+01 a.6.1.3 95497