# List of top-scoring protein chains for t04-100-40-40-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 1sjyA 159 2.39e-02 d.113.1.1 98900 1vheA 373 9.85e-02 b.49.3.1,c.56.5.4 100669,100670 1n08A 163 1.99e-01 b.43.5.1 79730 1txyA 104 2.47e-01 1se8A 301 6.66e-01 b.40.4.3 105448 1k2eA 156 7.17e-01 d.113.1.1 72010 1wlpB 138 8.36e-01 1mqeA 207 8.37e-01 d.113.1.1 91394 1wznA 252 8.42e-01 2bbhA 269 9.72e-01 2b0vA 153 1.10e+00 1ov3A 138 1.22e+00 b.34.2.1,b.34.2.1 87451,87452 1ylqA 96 1.25e+00 1u24A 337 1.48e+00 1x3eA 165 1.54e+00 1bb9 115 1.64e+00 1bb9 b.34.2.1 24554 1pm4A 119 2.36e+00 b.135.1.1 94891 1r8oA 96 2.48e+00 b.42.4.1 104852 1kxoA 184 2.94e+00 b.60.1.1 84475 1jmuB 666 3.12e+00 1ng2A 193 4.24e+00 b.34.2.1,b.34.2.1 85660,85661 2ahmE 203 4.45e+00 1wocA 103 4.72e+00 1u2fA 90 5.19e+00 1u2fA d.58.7.1 39168 1kcfA 258 5.23e+00 a.140.2.1,c.55.3.7 68434,68435 1f42A 306 5.60e+00 1f42A b.1.1.4,b.1.2.1,b.1.2.1 59636,59637,59638 1jeyA 609 5.61e+00 1jeqA b.131.1.1,c.62.1.3 90370,90371 2aw2A 120 5.95e+00 1usuA 260 6.39e+00 d.14.1.8 99885 1g2bA 62 6.48e+00 1tud b.34.2.1 24488 1pht 85 6.55e+00 1ckaA b.34.2.1 24483 1z8fA 228 7.05e+00 1s4qA 228 7.11e+00 c.37.1.1 98507 1sg1X 161 7.13e+00 g.24.1.1,g.24.1.1,g.24.1.1,g.24.1.1 105515,105516,105517,105518 1aa8A 347 7.39e+00 1an9A 1zhvA 134 7.39e+00 1p5vB 147 7.63e+00 b.2.3.2 87814 1amuA 563 7.96e+00 1amuA e.23.1.1 43351 1mv3A 213 8.04e+00 b.34.2.1 91468 2c43A 323 8.17e+00 1o94A 729 8.56e+00 c.1.4.1,c.3.1.1,c.4.1.1 81200,81201,81202 1xn5A 146 8.59e+00 1z3iX 644 8.59e+00 1l8bA 190 8.71e+00 d.86.1.1 73683 2a6aA 218 8.86e+00 1vyoA 128 8.89e+00 1qpxA 218 9.02e+00 1qpxA b.1.11.1,b.7.2.1 22318,23200 1gky 187 9.47e+00 1gky c.37.1.1 31839 1faoA 126 9.55e+00 1faoA b.55.1.1 26974 1fyhB 229 1.06e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1klfB 279 1.11e+01 b.2.3.2,b.2.3.2 72684,72685 1vhzA 198 1.11e+01 d.113.1.1 100718 1y55X 126 1.12e+01 1bbpA 173 1.13e+01 1bbpA b.60.1.1 27147 1t9fA 187 1.13e+01 b.42.6.1 106710 1tr7A 164 1.13e+01 1wftA 123 1.15e+01 1twyA 290 1.21e+01 2aegA 268 1.21e+01 1ej1A 190 1.21e+01 1ejhA d.86.1.1 40144 1ve9A 347 1.21e+01 c.4.1.2,d.16.1.3 100571,100572 1umzA 278 1.22e+01 b.29.1.2 99639 1m8uA 173 1.22e+01 b.11.1.1,b.11.1.1 91233,91234 1cjaA 342 1.25e+01 1cjaA d.144.1.3 41708 1qunB 279 1.29e+01 b.2.3.2,b.2.3.2 22411,22412 1zd0A 150 1.31e+01 1m1hA 248 1.33e+01 b.114.1.1,d.58.42.1 78415,78416 2agmA 167 1.39e+01 1eaf 243 1.41e+01 1eaf c.43.1.1 32617 1ahsA 126 1.42e+01 1ahsA b.19.1.1 23794 1ex7A 186 1.45e+01 1gky c.37.1.1 59537 1rvaA 244 1.48e+01 1rvaA c.52.1.2 33240 1an9A 340 1.49e+01 1an9A c.4.1.2,d.16.1.3 30617,37904 2cqeA 98 1.50e+01 1pcfA 66 1.51e+01 1pcfA d.18.1.1 38142 1wyxA 69 1.54e+01 1qexA 288 1.59e+01 1qexA b.32.1.1 24425 2c1dA 264 1.59e+01 1aoeA 192 1.62e+01 1aoeA c.71.1.1 34923 1sglA 209 1.63e+01 d.124.1.1 105536 1t4wA 196 1.64e+01 b.2.5.2 106427 1lylA 504 1.65e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 2bkaA 242 1.67e+01 2bydA 323 1.69e+01 1vjyA 303 1.71e+01 d.144.1.7 108633 1nqnA 122 1.71e+01 b.61.1.1 86042 1gppA 237 1.73e+01 b.86.1.2 76262 1x1fA 149 1.75e+01 1ktbA 405 1.75e+01 b.71.1.1,c.1.8.1 72960,72961 1t8tA 271 1.76e+01 c.37.1.5 106685 1w9hA 427 1.78e+01 1fna 93 1.80e+01 1fnf b.1.2.1 21971 2fkbA 180 1.82e+01 1i50A 1733 1.87e+01 e.29.1.2 61754 1o69A 394 1.87e+01 c.67.1.4 92560 2b06A 155 1.88e+01 1mfgA 95 1.90e+01 b.36.1.1 79043 1x1rA 178 1.92e+01 1ue1A 164 1.98e+01 b.40.4.3 99243 2c36A 285 1.98e+01 1cskA 71 2.01e+01 1ckaA b.34.2.1 24513 1oo4A 111 2.04e+01 d.93.1.1 87185 1ryqA 69 2.10e+01 g.41.9.3 105126 3dfr 162 2.19e+01 3dfr c.71.1.1 34880 1amm 174 2.19e+01 1amm b.11.1.1,b.11.1.1 23587,23588 1m2oA 768 2.24e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1guiA 155 2.28e+01 b.18.1.14 76351 1bwzA 274 2.30e+01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1qjvA 342 2.33e+01 1qjvA b.80.1.5 28035 1vdeA 454 2.36e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 1uwfA 158 2.42e+01 1py5A 326 2.43e+01 d.144.1.7 104389 1m1cA 680 2.43e+01 e.42.1.1 78395 3ullA 132 2.44e+01 3ullA b.40.4.3 25282 1z52A 470 2.48e+01 1bkb 136 2.50e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1mrzA 293 2.54e+01 b.43.5.1,c.26.1.3 91452,91453 1f7lA 121 2.56e+01 1f7lA d.150.1.2 59666 1qwtA 255 2.65e+01 b.26.1.3 96501 1sx5A 244 2.66e+01 c.52.1.2 99023 1xovA 326 2.68e+01 1vjfA 180 2.71e+01 d.116.1.1 100809 1preA 470 2.74e+01 1preA d.169.1.2,f.8.1.1 42437,43824 1twfA 1733 2.75e+01 1seiA 130 2.78e+01 1seiA d.140.1.1 41463 1sqjA 789 2.83e+01 b.69.13.1,b.69.13.1 105918,105919 1okjA 251 2.84e+01 c.55.1.9,c.55.1.9 103998,103999 1vbvA 105 2.84e+01 2d1pB 119 2.86e+01 1ravA 127 2.90e+01 1swuA b.61.1.1 27409 2fxqA 264 2.98e+01 1q1oA 98 3.02e+01 d.15.2.2 95596 1vhrA 184 3.03e+01 1vhrA c.45.1.1 32651 1rz2A 254 3.05e+01 b.100.1.1 105130 4gcr 174 3.07e+01 1amm b.11.1.1,b.11.1.1 23589,23590 1i50I 122 3.12e+01 g.41.3.1,g.41.3.1 61762,61763 1l1dA 152 3.16e+01 b.88.1.3 73452 1neu 124 3.19e+01 1neu b.1.1.1 19704 1qwzA 235 3.25e+01 b.100.1.1 96510 1h9oA 112 3.32e+01 1qadA d.93.1.1 60837 1a70 97 3.32e+01 1awd d.15.4.1 37678 2fclA 169 3.39e+01 1qzgA 187 3.40e+01 b.40.4.3 96643 1e1oA 504 3.42e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1ztxE 108 3.45e+01 1z6gA 218 3.45e+01 1r26A 125 3.45e+01 c.47.1.1 96847 1vd2A 89 3.49e+01 d.15.2.2 108517 1wb4A 297 3.50e+01 1gklA 297 3.50e+01 c.69.1.2 65250 1gqzA 274 3.53e+01 d.21.1.1,d.21.1.1 83311,83312 1nr4A 71 3.56e+01 d.9.1.1 92077 1vq3A 94 3.60e+01 2cklA 108 3.62e+01 1ng0A 253 3.64e+01 b.121.4.7 80475 2a7yA 83 3.65e+01 1bzyA 217 3.68e+01 1qk3A c.61.1.1 34071 2bc3A 159 3.69e+01 1x9mA 698 3.70e+01 2a6hA 315 3.72e+01 1acx 108 3.79e+01 2mcm b.1.7.1 22211 1kid 203 3.83e+01 1derA c.8.5.1 30771 1wmhA 89 3.87e+01 2coaA 125 4.01e+01 1rewC 135 4.02e+01 g.7.1.3 97336 1twfI 122 4.04e+01 1mi8A 158 4.04e+01 b.86.1.2 91279 1yqdA 366 4.07e+01 1k8kA 418 4.11e+01 c.55.1.1,c.55.1.1 68305,68306 1vkiA 181 4.12e+01 d.116.1.1 108664 1a41 234 4.15e+01 1a41 d.163.1.2 42174 1uisA 231 4.16e+01 d.22.1.1 99431 1zirA 173 4.19e+01 1q5qA 259 4.19e+01 d.153.1.4 95904 1kx5B 102 4.23e+01 a.22.1.1 77594 1sxvA 172 4.25e+01 1h8dH 260 4.26e+01 5ptp 2camA 127 4.31e+01 1swuA b.61.1.1 27407 2tmdA 729 4.31e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28616,30317,30602 1uch 230 4.35e+01 1uch d.3.1.6 37129 1ema 236 4.41e+01 1ema d.22.1.1 38339 2gkeA 274 4.50e+01 1ok0A 74 4.73e+01 b.5.1.1 93191 1oa4A 222 4.76e+01 b.29.1.11 86731 2f23A 156 4.77e+01 1vc3B 97 4.79e+01 1omiA 248 4.80e+01 b.82.3.3,a.4.5.4 87079,87080 1yarA 233 4.81e+01 1djnA 729 4.83e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28612,30313,30598 1kfuL 699 4.84e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 2fdbM 164 4.87e+01 1wlsA 328 4.88e+01 1mqiA 263 4.88e+01 c.94.1.1 91398 1wqvT 218 4.90e+01 2amxA 376 5.04e+01 1yo8A 634 5.14e+01 1w7oA 118 5.22e+01 1eaxA 241 5.26e+01 b.47.1.2 64889 2hntE 81 5.29e+01 1ucyH 2a1vA 144 5.29e+01 2csvA 72 5.31e+01 1n6aA 259 5.36e+01 b.76.2.1,b.85.7.1 80121,80122 2b7kA 200 5.43e+01 3pviA 157 5.44e+01 3pviA c.52.1.6 33300 1l1eA 287 5.48e+01 c.66.1.18 73454 1egiA 147 5.50e+01 1eggA d.169.1.1 42331 1ybiA 288 5.51e+01 1przA 252 5.56e+01 d.265.1.3 95064 1xmkA 79 5.58e+01 1yloA 348 5.59e+01 1cdy 178 5.59e+01 1cdy b.1.1.1,b.1.1.3 19719,21658 2cy3 118 5.59e+01 3cyr a.138.1.1 19649 1hq8A 123 5.63e+01 1b6e d.169.1.1 61127 1wp5A 323 5.70e+01 2djkA 133 5.75e+01 1djqA 729 5.77e+01 2tmdA c.1.4.1,c.3.1.1,c.4.1.1 28614,30315,30600 1zmeC 70 5.83e+01 1zmeC g.38.1.1,h.1.3.1 45081,45514 1pc6A 146 5.86e+01 d.262.1.1 94430 1vr1H 261 5.88e+01 5ptp 1tueA 212 5.91e+01 c.37.1.20 107323 2pviA 157 5.92e+01 3pviA c.52.1.6 33302 1nx8A 273 5.94e+01 b.82.2.8 86374 2gf9A 189 5.97e+01 1zq1A 438 5.99e+01 1ohgA 282 6.11e+01 d.183.1.1 93018 2c34A 116 6.12e+01 2fo3A 125 6.17e+01 1upiA 225 6.17e+01 b.82.1.1 99757 1wnfA 328 6.21e+01 1xyiA 66 6.22e+01 1uthA 315 6.22e+01 c.94.1.1 108032 2biiA 424 6.22e+01 1y7mA 164 6.31e+01 1lvwA 295 6.31e+01 c.68.1.6 84723 1xd3A 230 6.40e+01 1ykdA 398 6.44e+01 1g8kB 133 6.49e+01 1g8jB b.33.1.1 24435 1onqA 283 6.49e+01 b.1.1.2,d.19.1.1 93365,93366 1mai 131 6.53e+01 1mai b.55.1.1 26951 2cb5A 453 6.53e+01 3gcb d.3.1.1 37035 1vcdA 126 6.64e+01 2cc3A 150 6.66e+01 1r4pA 297 6.72e+01 d.165.1.2 97025 1dynA 125 6.75e+01 1dynA b.55.1.1 26955 1lkkA 105 6.77e+01 1lckA d.93.1.1 40412 3hhrB 203 6.84e+01 1axiB b.1.2.1,b.1.2.1 22005,22006 2g1lA 104 6.84e+01 1hztA 190 6.85e+01 1i9aA d.113.1.2 61459 1zdrA 164 6.87e+01 1eq6A 189 6.90e+01 1eq6A d.107.1.1 40796 1nh8A 304 6.91e+01 c.94.1.1,d.58.5.3 80507,80508 2eulA 156 6.92e+01 1uaiA 224 6.99e+01 b.29.1.18 107761 1x6oA 174 7.05e+01 b.34.5.2,b.40.4.5 109493,109494 1o51A 114 7.06e+01 d.58.5.4 92480 1q9jA 422 7.09e+01 c.43.1.2,c.43.1.2 104590,104591 1r8nA 185 7.14e+01 b.42.4.1 104851 3rabA 169 7.32e+01 1ctqA c.37.1.8 32018 1jh6A 189 7.34e+01 d.61.1.1 66707 1ro7A 259 7.41e+01 c.130.1.1 97667 1fi8A 228 7.44e+01 5ptp b.47.1.2 26374 1y71A 130 7.46e+01 1usuB 170 7.58e+01 d.83.2.1 99886 1pufA 77 7.65e+01 a.4.1.1 95131 2aorA 223 7.68e+01 1zhmA 238 7.69e+01 1agi 125 7.79e+01 7rsa d.5.1.1 37303 1uptC 170 7.80e+01 c.37.1.8 99769 2bycA 137 8.03e+01 1kcvH 217 8.05e+01 b.1.1.1,b.1.1.2 72315,72316 1avpA 204 8.10e+01 1avpA d.3.1.7 37132 1smpI 101 8.19e+01 1smpI b.61.2.1 27417 1mjfA 281 8.21e+01 c.66.1.17 79198 1nb9A 147 8.29e+01 b.43.5.1 85515 1xtlA 175 8.31e+01 1h5rA 293 8.34e+01 c.68.1.6 65623 1gnkA 112 8.35e+01 2pii d.58.5.1 39073 2sak 121 8.38e+01 2sak d.15.5.1 37711 1hyxH 224 8.38e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 1o7dE 126 8.39e+01 1xfiA 367 8.47e+01 e.50.1.1 109584 1rhfA 182 8.57e+01 b.1.1.1,b.1.1.4 97469,97470 1eonA 245 8.61e+01 1rvaA c.52.1.2 33238 1s3sG 127 8.61e+01 d.15.1.2 98457 1vioA 243 8.70e+01 d.265.1.3,d.66.1.5 100762,100763 2c0zA 216 8.72e+01 2c3gA 98 8.74e+01 1wz3A 96 8.82e+01 1sgt 223 8.85e+01 5ptp b.47.1.1 25814 1jhsA 188 8.87e+01 d.107.1.1 84172 2bv5A 282 8.89e+01 1wh2A 78 8.91e+01 1xqaA 113 8.96e+01