# 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 2i02A 148 5.79e-19 b.45.1.1 136936 2qeaA 160 3.49e-17 2re7A 134 1.11e-14 2fhqA 141 1.45e-14 b.45.1.1 133497 2htiA 185 5.57e-14 b.45.1.1 136744 2fg9A 178 7.58e-14 b.45.1.1 133426 2hq7A 146 7.73e-13 b.45.1.1 136657 1rfeA 162 1.94e-12 b.45.1.1 111796 2aq6A 147 2.51e-09 b.45.1.1 127156 1w9aA 147 2.51e-09 b.45.1.1 114408 2ig6A 150 6.62e-09 2hq9A 149 7.53e-09 b.45.1.1 136659 1dnlA 199 4.08e-08 1ci0A b.45.1.1 25753 1g79A 218 4.20e-08 1ci0A b.45.1.1 25752 2hhzA 150 7.48e-08 2furA 209 3.61e-07 b.45.1.1 134185 2asfA 137 4.35e-07 b.45.1.1 127253 2e83A 122 3.46e-06 1wlkA 122 6.82e-06 b.45.1.1 121002 1wliA 122 6.83e-06 b.45.1.1 121000 1wllA 122 6.84e-06 b.45.1.1 121006 1flmA 122 6.85e-06 1axj b.45.1.1 25747 1t9mA 214 1.83e-05 b.45.1.1 112364 2iabA 155 2.22e-05 1nrgA 261 3.07e-05 b.45.1.1 80694 2htdA 140 3.93e-05 2i51A 195 4.42e-05 3cp3A 148 1.57e-04 2ou5A 175 1.65e-04 2a2jA 246 3.21e-04 b.45.1.1 126033 1vl7A 157 3.99e-04 b.45.1.1 108732 1ty9A 222 4.41e-04 b.45.1.1 112827 1w3oA 216 1.74e-03 b.45.1.1 114142 1ejeA 192 2.39e-02 1ejeA b.45.1.2 25757 1ci0A 228 2.42e-02 1ci0A b.45.1.1 25750 2q9kA 151 3.34e-02 2arzA 247 9.08e-02 b.45.1.1 127225 2ol5A 202 1.80e-01 2gl5A 410 2.50e-01 c.1.11.2 135336 d.54.1.1 135337 3ba3A 145 4.93e-01 1x4nA 92 5.01e-01 d.51.1.1 121696 1j5kA 89 7.09e-01 d.51.1.1 71565 1khmA 89 9.97e-01 1dt4A d.51.1.1 38809 3b4uA 294 1.30e+00 1zzkA 82 1.57e+00 d.51.1.1 125909 1k8kD 300 1.69e+00 d.198.2.1 68309 d.198.2.1 68310 2opuA 89 1.88e+00 2ox4A 403 1.95e+00 1nntA 328 2.23e+00 c.94.1.2 35884 1tfaA 329 2.30e+00 1nnt c.94.1.2 35880 1iejA 332 2.32e+00 1nnt c.94.1.2 62328 2nujA 163 2.82e+00 d.38.1.1 138608 2pozA 392 3.22e+00 1wmsA 177 3.82e+00 c.37.1.8 109414 1s8fA 177 3.84e+00 c.37.1.8 105370 1wvbA 322 3.95e+00 c.42.1.1 121329 2aebA 322 3.97e+00 c.42.1.1 126617 1q5xA 161 4.53e+00 c.8.7.1 95947 2ocbA 180 4.59e+00 4fivA 113 4.87e+00 b.50.1.1 26762 1ovtA 686 4.98e+00 c.94.1.2 35882 c.94.1.2 35883 2d3iA 686 5.05e+00 c.94.1.2 131208 c.94.1.2 131209 1h2bA 359 5.36e+00 b.35.1.2 90543 c.2.1.1 90544 2qmeA 179 5.51e+00 2ic5A 180 5.53e+00 2c2hA 192 5.66e+00 c.37.1.8 129668 1zrtD 258 5.83e+00 5fivA 113 6.00e+00 1fmb b.50.1.1 26765 2pgxA 258 6.08e+00 2ozjA 114 7.38e+00 2qtdA 105 8.21e+00 1sdjA 310 8.35e+00 d.21.1.2 98807 d.21.1.2 98808 2vfjA 366 8.36e+00 2graA 277 8.54e+00 2oyrA 258 8.73e+00 2izzA 322 8.89e+00 3fivA 116 8.91e+00 1fmb b.50.1.1 26768 2gerA 321 8.95e+00 1yzlA 179 9.92e+00 c.37.1.8 124282 1qy9A 297 9.97e+00 d.21.1.2 104645 d.21.1.2 104646 1qyaA 307 1.00e+01 d.21.1.2 104653 d.21.1.2 104654 2p2rA 76 1.05e+01 2o56A 407 1.06e+01 1hmjA 78 1.07e+01 d.78.1.1 39752 1xhnA 184 1.10e+01 b.45.1.1 122007 2gukA 120 1.12e+01 6fivA 113 1.21e+01 1fmb b.50.1.1 26763 2atpB 115 1.29e+01 1he1C 176 1.34e+01 1ctqA c.37.1.8 32003 2fjuA 178 1.34e+01 c.37.1.8 133622 2nz8A 177 1.34e+01 c.37.1.8 138837 1i4dD 192 1.37e+01 1ctqA c.37.1.8 61684 1umdB 324 1.42e+01 c.36.1.7 99600 c.48.1.2 99601 1sg9A 282 1.42e+01 c.66.1.30 105526 1nv8A 284 1.43e+01 c.66.1.30 86224 2ak4D 211 1.43e+01 1vq1A 294 1.43e+01 c.66.1.30 120067 1i4tD 192 1.45e+01 c.37.1.8 61731 1e96A 192 1.46e+01 1ctqA c.37.1.8 32007 2jywA 195 1.47e+01 1ds6A 192 1.51e+01 1ctqA c.37.1.8 32006 2pibA 216 1.75e+01 2imzA 168 1.77e+01 1x5rA 112 1.93e+01 b.36.1.1 121718 8atcA 310 1.93e+01 3csuA c.78.1.1 35132 c.78.1.1 35133 1acmA 310 1.93e+01 3csuA c.78.1.1 35180 c.78.1.1 35181 2rdpA 150 1.96e+01 2d93A 134 2.10e+01 1g4uR 184 2.15e+01 1ctqA c.37.1.8 32005 2pbeA 294 2.15e+01 1mh1A 186 2.17e+01 c.37.1.8 32002 1hh4A 192 2.17e+01 c.37.1.8 61037 2p2lA 188 2.17e+01 c.37.1.8 139465 2rdzA 452 2.20e+01 1o26A 232 2.24e+01 d.207.1.1 86566 2etvA 346 2.25e+01 c.92.2.4 132372 2rf7A 441 2.26e+01 2atcA 305 2.29e+01 3csuA c.78.1.1 35194 c.78.1.1 35195 1ik6A 369 2.31e+01 c.36.1.7 66174 c.48.1.2 66175 2bgiA 272 2.31e+01 2e50A 225 2.46e+01 1ul5A 88 2.47e+01 g.72.1.1 99539 1rp0A 284 2.49e+01 c.3.1.6 118782 1zx8A 136 2.55e+01 b.62.1.3 125764 1vmeA 410 2.66e+01 c.23.5.1 108893 d.157.1.3 108894 2in0A 139 2.71e+01 2in9A 139 2.79e+01 2hseA 310 2.82e+01 9atcA 310 2.87e+01 3csuA c.78.1.1 35188 c.78.1.1 35189 1f1bA 310 2.87e+01 3csuA c.78.1.1 35104 c.78.1.1 35105 1tugA 310 2.88e+01 c.78.1.1 107339 3csuA 310 2.90e+01 3csuA c.78.1.1 35094 c.78.1.1 35095 1ekxA 311 2.91e+01 3csuA c.78.1.1 35088 c.78.1.1 35089 1xjwA 310 2.91e+01 c.78.1.1 122041 c.78.1.1 122042 1skuA 310 2.93e+01 c.78.1.1 98902 c.78.1.1 98903 2ogfA 122 2.94e+01 1ysdA 161 3.02e+01 c.97.1.2 123968 1j4wA 174 3.07e+01 d.51.1.1 71529 d.51.1.1 71530 1ysbA 161 3.09e+01 c.97.1.2 123966 2z64A 599 3.11e+01 1ehiA 377 3.14e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1uaqA 158 3.24e+01 c.97.1.2 88386 1gq3A 310 3.25e+01 c.78.1.1 76268 c.78.1.1 76269 1p6oA 161 3.26e+01 c.97.1.2 94185 1jlwA 219 3.26e+01 a.45.1.1 71741 c.47.1.5 71742 2in8A 139 3.27e+01 2j0aA 280 3.29e+01 1d09A 310 3.31e+01 3csuA c.78.1.1 35100 c.78.1.1 35101 2psbA 320 3.36e+01 2al7A 186 3.63e+01 c.37.1.8 126972 1vluA 468 3.67e+01 c.82.1.1 108864 1pbtA 244 3.69e+01 c.124.1.1 94416 1vq0A 302 3.78e+01 d.193.1.1 114000 g.81.1.1 114001 2oemA 413 3.79e+01 2o3kA 161 3.82e+01 1qmoE 133 3.88e+01 1nls 1v3yA 192 3.92e+01 d.167.1.1 113508