# List of top-scoring protein chains for t06-100-40-40-str2+CB_burial_14_7-scores 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 1qynA 153 4.78e-03 d.33.1.1 96597 1z54A 132 6.25e-01 2ltnA 181 1.03e+00 1led b.29.1.1 24024 2cwzA 141 1.15e+00 1ttuA 477 1.30e+00 b.1.18.1,b.2.5.8,b.42.7.1 107305,107306,107307 2fug7 129 1.39e+00 1ts9A 102 1.44e+00 2b1xB 172 1.64e+00 1pyaB 228 2.22e+00 1pyaB 1s5uA 138 2.42e+00 d.38.1.1 98573 1bh9A 45 2.44e+00 1bh9A a.22.1.3 16483 1vjhA 122 2.53e+00 d.129.3.1 100811 2bmoB 194 2.61e+00 1mugA 168 2.70e+00 1mugA c.18.1.2 31030 1fit 147 2.98e+00 1fit d.13.1.1 37499 1z94A 147 3.21e+00 1u6zA 513 3.39e+00 1dwnA 127 3.41e+00 1dwnA d.85.1.1 40141 2gf6A 135 3.41e+00 1ywnA 316 3.81e+00 1vrbA 342 4.58e+00 1xkpC 143 4.81e+00 1f2tA 149 4.85e+00 1f2tA c.37.1.12 32373 2evrA 246 4.86e+00 1hw7A 255 5.13e+00 1i7fA d.193.1.1 61297 1zoiA 276 5.25e+00 1ihjA 98 5.43e+00 1pdr b.36.1.1 62382 1go3E 187 5.70e+00 b.40.4.5,d.230.1.1 83054,83055 3pmgA 561 5.83e+00 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1dkzA 219 6.38e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 2gx9A 129 6.96e+00 2cs7A 55 7.00e+00 1xyiA 66 7.04e+00 1hw5A 210 7.12e+00 2cgpA a.4.5.4,b.82.3.2 16098,28137 2f0aA 98 7.25e+00 2gpiA 91 8.00e+00 1zpyA 95 9.19e+00 1m93B 245 9.37e+00 2gfsA 372 1.01e+01 1b35C 282 1.02e+01 1b35C 1nhs 447 1.02e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1djrD 103 1.10e+01 3chbD b.40.2.1 24865 2fggA 101 1.10e+01 1v1dA 31 1.13e+01 1a8q 274 1.14e+01 1brt c.69.1.12 34702 1i0rA 169 1.21e+01 1i0rA b.45.1.2 61489 1e8gA 560 1.21e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1ze3C 205 1.25e+01 1stzA 338 1.25e+01 a.4.5.51,d.110.2.3 106009,106010 1a8s 273 1.28e+01 1brt c.69.1.12 34710 1sr9A 644 1.31e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 2ethA 154 1.33e+01 1u20A 212 1.33e+01 1kkeA 210 1.34e+01 b.21.1.2,b.83.1.2 68669,68670 1dytA 133 1.45e+01 7rsa d.5.1.1 37288 2bf9A 36 1.45e+01 1e7lA 157 1.47e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1l0qA 391 1.48e+01 b.1.3.1,b.69.2.3 77644,77645 1mw9X 592 1.52e+01 e.10.1.1 91480 1sbxA 106 1.56e+01 a.6.1.4 105414 1b8kA 119 1.59e+01 1bndA g.17.1.3 44795 1vs0A 310 1.63e+01 1xteA 154 1.65e+01 1ohzB 60 1.66e+01 a.139.1.1 93044 1j2gA 319 1.70e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 2d4rA 147 1.72e+01 2glzA 153 1.75e+01 1r6jA 82 1.92e+01 b.36.1.1 97151 2be3A 226 1.94e+01 1w3oA 216 1.96e+01 1fm4A 159 1.99e+01 1bv1 d.129.3.1 76186 1kb9H 93 2.01e+01 f.23.13.1 77323 2ccyA 128 2.02e+01 2ccyA a.24.3.2 16544 1u00A 227 2.02e+01 1di2A 69 2.03e+01 1di2A d.50.1.1 38780 2bngA 149 2.09e+01 1nr4A 71 2.09e+01 d.9.1.1 92077 1svb 395 2.13e+01 1svb b.1.18.4,f.10.1.1 21814,43827 2cohA 202 2.17e+01 1oshA 232 2.18e+01 a.123.1.1 93496 2fg9A 178 2.24e+01 1h3oB 76 2.27e+01 a.22.1.3 76645 1kcfA 258 2.29e+01 a.140.2.1,c.55.3.7 68434,68435 1hleA 345 2.31e+01 1ovaA e.1.1.1 42618 2es9A 115 2.37e+01 1p4oA 322 2.41e+01 d.144.1.7 87775 1puc 105 2.43e+01 1puc d.97.1.1 40675 1xuvA 178 2.44e+01 1unqA 125 2.45e+01 b.55.1.1 107968 1q6zA 528 2.46e+01 2h4uA 145 2.47e+01 1j3mA 129 2.60e+01 d.129.7.1 103836 1xodA 118 2.63e+01 2dd8S 202 2.66e+01 1pinA 163 2.71e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1pq4A 291 2.81e+01 c.92.2.2 94995 1sgoA 139 2.82e+01 d.82.3.1 98857 1hyeA 313 2.83e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1j1qA 261 2.86e+01 d.165.1.1 90768 2bskB 90 2.87e+01 1mw7A 240 2.92e+01 e.39.1.1 79557 1vggA 161 2.92e+01 2ggcA 263 2.92e+01 1nrjA 158 2.92e+01 d.110.4.4 86124 1x6oA 174 2.96e+01 b.34.5.2,b.40.4.5 109493,109494 1dokA 77 2.96e+01 1dokA d.9.1.1 37420 2bd0A 244 3.02e+01 1bj7 156 3.07e+01 1bj7 b.60.1.1 27113 1vq0A 302 3.09e+01 2cyeA 133 3.11e+01 1kpf 126 3.14e+01 1kpf d.13.1.1 37507 1lshA 1056 3.20e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2d69A 430 3.20e+01 1t1jA 125 3.22e+01 c.137.1.1 106249 1guzA 310 3.23e+01 c.2.1.5,d.162.1.1 65586,65587 1n13B 113 3.24e+01 1u58A 253 3.25e+01 1mgtA 174 3.25e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1ia9A 280 3.26e+01 1ia9A d.144.1.5 62113 2dp5A 332 3.27e+01 1u7iA 136 3.31e+01 d.32.1.7 107724 2a15A 139 3.34e+01 1vp2A 208 3.40e+01 2ayh 214 3.46e+01 1axkA b.29.1.2 24172 1tvxA 75 3.50e+01 1tvxA d.9.1.1 37441 1umgA 362 3.51e+01 d.280.1.1 107956 1otgA 125 3.57e+01 1otgA d.80.1.2 39831 1uhgA 385 3.61e+01 e.1.1.1 88491 1yqzA 438 3.69e+01 1n7eA 97 3.76e+01 b.36.1.1 91691 1q60A 99 3.77e+01 1vqoY 241 3.77e+01 1ygaA 342 3.81e+01 1p9eA 331 3.88e+01 d.157.1.5 104088 1h6tA 291 3.90e+01 b.1.18.15,c.10.2.1 65686,65687 1v8dA 235 3.95e+01 c.140.1.1 108425 1r8mE 203 3.96e+01 a.118.3.1 97242 1wrrA 301 4.02e+01 1g0oA 283 4.02e+01 1ybvA c.2.1.2 60181 1g0sA 209 4.07e+01 1g0sA d.113.1.1 60187 2g64A 140 4.12e+01 1d7qA 143 4.16e+01 1d7qA b.40.4.5 25331 1u07A 90 4.20e+01 1ocsA 162 4.20e+01 d.189.1.1 92776 1yavA 159 4.20e+01 1yx0A 159 4.23e+01 1t4hA 290 4.23e+01 d.144.1.7 106420 1bteA 97 4.24e+01 1bteA g.7.1.3 44463 2es7A 142 4.27e+01 1rh5C 53 4.32e+01 f.23.29.1 97466 1dqpA 230 4.34e+01 1dqnA c.61.1.1 34069 1uxjA 309 4.38e+01 c.2.1.5,d.162.1.1 108112,108113 1pzgA 331 4.41e+01 c.2.1.5,d.162.1.1 95425,95426 2f4pA 147 4.51e+01 1yv4A 104 4.52e+01 1fmjA 351 4.52e+01 c.37.1.5 59879 2b4yA 271 4.58e+01 1qwiA 143 4.59e+01 d.227.1.1 96474 1uz3A 102 4.60e+01 1o0xA 262 4.61e+01 d.127.1.1 80755 1zo2A 129 4.63e+01 1g9oA 91 4.67e+01 1pdr b.36.1.1 60400 1tzyB 126 4.71e+01 a.22.1.1 107531 1dptA 117 4.72e+01 1dptA d.80.1.3 39862 1wlqC 201 4.77e+01 a.4.5.52 109400 1agqA 135 4.80e+01 1agqA g.17.1.2 44789 2g0qA 173 4.83e+01 1zkiA 133 4.85e+01 1gy7A 125 4.93e+01 d.17.4.2 70738 1kqwA 134 4.93e+01 b.60.1.2 72887 1wyxA 69 4.96e+01 2czvC 120 4.99e+01 1w6uA 302 5.01e+01 3grs 478 5.04e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30441,30442,40152 1z5yE 149 5.07e+01 1wddA 477 5.11e+01 2bb6A 414 5.16e+01 1e5pA 151 5.16e+01 1bj7 b.60.1.1 59272 1ngkA 128 5.18e+01 a.1.1.1 85673 1y10A 407 5.20e+01 2a6aA 218 5.21e+01 1w7bA 339 5.30e+01 1aqzA 149 5.30e+01 1aqzA d.1.1.3 36238 3chbD 104 5.32e+01 3chbD b.40.2.1 24970 1qpcA 279 5.33e+01 1fgkA d.144.1.7 41685 1un3A 123 5.33e+01 d.5.1.1 99646 1uj8A 77 5.37e+01 1o4tA 133 5.38e+01 b.82.1.9 86622 1b56 135 5.39e+01 1hmt b.60.1.2 27183 1l2wI 69 5.41e+01 d.198.1.1 73526 1izmA 184 5.44e+01 a.199.1.1 90725 1xn5A 146 5.46e+01 1z91A 147 5.50e+01 1n6jG 35 5.53e+01 1xngA 268 5.63e+01 1u69A 163 5.64e+01 d.32.1.7 107699 1xfsA 178 5.66e+01 d.129.3.5 109589 1k3bA 119 5.68e+01 b.61.5.1 72016 2frnA 278 5.68e+01 1ohpA 125 5.68e+01 1r0uA 148 5.72e+01 b.60.1.5 96741 1l5xA 280 5.73e+01 c.106.1.1 77718 2iugA 120 5.73e+01 1eca 136 5.78e+01 1flp a.1.1.2 15209 2fuvA 549 5.78e+01 2ag4A 164 5.86e+01 1q79A 514 5.87e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1q77A 138 5.91e+01 c.26.2.4 96023 1iba 101 5.92e+01 1iba d.95.1.1 40567 2avxA 171 5.97e+01 1qz8A 113 6.03e+01 b.140.1.1 96619 1r26A 125 6.05e+01 c.47.1.1 96847 1fiqB 350 6.05e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 3il8 72 6.08e+01 1tvxA d.9.1.1 37356 1t6sA 162 6.08e+01 2fwtA 125 6.09e+01 1gk8A 475 6.11e+01 c.1.14.1,d.58.9.1 65234,65235 1sa3A 262 6.14e+01 c.52.1.23 105400 1wgxA 73 6.17e+01 1p30A 952 6.21e+01 b.121.2.2,b.121.2.2 93964,93965 1fgkA 310 6.23e+01 1fgkA d.144.1.7 41693 1acf 125 6.26e+01 3nul d.110.1.1 40882 1pcfA 66 6.28e+01 1pcfA d.18.1.1 38142 1dpjA 329 6.34e+01 1smrA b.50.1.2 26828 1g6gA 127 6.36e+01 1g6gA b.26.1.2 23916 1ypvA 313 6.38e+01 1v2bA 177 6.39e+01 d.107.1.2 108279 1u0kA 288 6.43e+01 d.21.1.2,d.21.1.2 107547,107548 2a8eA 220 6.46e+01 1kveA 63 6.46e+01 1kveA d.70.1.2 39590 1wtaA 275 6.46e+01 2f9dA 125 6.48e+01 2cxxA 190 6.50e+01 1wywA 230 6.54e+01 1l0lK 56 6.57e+01 f.23.15.1 84497 1o7nB 194 6.58e+01 d.17.4.4 81164 1ne8A 117 6.58e+01 b.34.6.2 80424 1iicA 422 6.59e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 1zsqA 528 6.60e+01 1ro0A 216 6.61e+01 d.264.1.2 97664 1xnzA 264 6.63e+01 1wy7A 207 6.65e+01 2f5yA 91 6.65e+01 1twfI 122 6.68e+01 1f32A 149 6.71e+01 1f32A d.62.1.1 39539 1uliB 187 6.71e+01 d.17.4.4 107923 1fxlA 167 6.72e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1wdtA 665 6.77e+01 1gbg 214 6.78e+01 1axkA b.29.1.2 24171 1xwvA 129 6.81e+01 2aneA 125 6.85e+01 1xhdA 173 6.85e+01 1njhA 119 6.90e+01 b.128.1.1 85787 1yqtA 538 6.91e+01 1o75A 415 7.04e+01 b.1.20.1,b.1.20.1,b.120.1.1 81117,81118,81119 1fcyA 236 7.09e+01 2lbd a.123.1.1 19282 2fbhA 146 7.10e+01 1m8uA 173 7.17e+01 b.11.1.1,b.11.1.1 91233,91234 1xewX 182 7.28e+01 2fl7A 232 7.32e+01 1iwlA 182 7.35e+01 b.125.1.1 83757 1fr2A 86 7.43e+01 a.28.2.1 83256 1ppjA 446 7.43e+01 d.185.1.1,d.185.1.1 104252,104253 1jkoC 52 7.43e+01 a.4.1.2 66809 1rfyA 102 7.44e+01 1vl2A 421 7.48e+01 c.26.2.1,d.210.1.1 108708,108709 1fl1A 230 7.49e+01 1at3A b.57.1.1 27023 1qkrA 188 7.50e+01 1qkrA a.24.9.1 16628 1ps1A 337 7.51e+01 1ps1A a.128.1.4 19450 2fxqA 264 7.65e+01 1f46A 140 7.66e+01 1f46A d.129.4.1 59643 4ubpB 126 7.70e+01 1ubpB b.85.3.1 28345 1zs4A 83 7.72e+01 1mkmA 249 7.79e+01 a.4.5.33,d.110.2.2 79242,79243 1u9lA 70 7.81e+01 a.60.4.2 107751 1i39A 225 7.82e+01 1ekeA c.55.3.1 61585 1nwzA 125 7.84e+01 d.110.3.1 86370 1repC 251 7.85e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2bsjA 133 7.88e+01 1gsoA 431 7.89e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1o08A 221 7.89e+01 c.108.1.6 86525 2fcfA 103 7.89e+01 1qy1A 174 7.90e+01 b.60.1.1 96568 1fjlA 81 7.96e+01 2hddA a.4.1.1 16017 1xh3A 276 7.97e+01 1o6aA 96 7.97e+01 b.139.1.1 92562 1h5qA 265 8.02e+01 1cydA c.2.1.2 60643 2a3qA 170 8.04e+01 1gpqA 135 8.06e+01 d.233.1.1 83295 2ez6A 221 8.11e+01 1xauA 122 8.12e+01 2fs3A 282 8.19e+01 1uyrA 737 8.20e+01 c.14.1.4,c.14.1.4 100188,100189 1k2eA 156 8.24e+01 d.113.1.1 72010 1jd1A 129 8.31e+01 1qu9A d.79.1.1 62890 1uvqA 197 8.32e+01 b.1.1.2,d.19.1.1 100062,100063 1k4nA 192 8.34e+01 d.32.1.5 72059 1k5dB 201 8.35e+01 b.55.1.3 68169 2axtH 66 8.36e+01 2fneA 117 8.38e+01 1zh1A 163 8.38e+01 2blkA 122 8.40e+01 1p2zA 968 8.42e+01 b.121.2.2,b.121.2.2 93962,93963 1tzyD 103 8.44e+01 a.22.1.1 107533 1ospO 257 8.49e+01 1ospO b.76.1.1 27971 1r6wA 322 8.50e+01 c.1.11.2,d.54.1.1 97165,97166 1m8aA 70 8.55e+01 d.9.1.1 74579 1wxcA 281 8.59e+01 1o6vA 466 8.62e+01 b.1.18.15,c.10.2.1 81099,81100 1dm9A 133 8.69e+01 1dm9A d.66.1.3 39560 1yhpA 212 8.71e+01 2lhb 149 8.72e+01 2fal a.1.1.2 15597 1xg0A 76 8.72e+01 1t46A 313 8.72e+01 d.144.1.7 106397 2bkfA 87 8.75e+01 1gesA 450 8.89e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1earA 147 8.90e+01 b.107.1.1,d.58.38.1 64875,64876 1xxqA 161 8.90e+01 1x75A 132 8.94e+01