# List of top-scoring protein chains for t06-100-30-o_notor2-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 1xv2A 237 2.25e-04 1ys7A 233 1.31e-01 1naqA 112 2.28e-01 d.58.5.2 91761 1wrvA 308 2.52e-01 1kv0A 66 9.98e-01 g.3.7.1 91040 1m1hA 248 9.98e-01 b.114.1.1,d.58.42.1 78415,78416 1iyeA 309 1.02e+00 e.17.1.1 83786 1vl5A 260 1.09e+00 c.66.1.41 108720 2dexX 671 1.17e+00 2cvjA 180 1.56e+00 1nzaA 103 1.57e+00 d.58.5.2 86444 1ln4A 104 1.62e+00 d.68.4.1 74043 1ohvA 472 1.70e+00 c.67.1.4 93031 1sffA 426 1.73e+00 c.67.1.4 105482 1xxlA 239 1.92e+00 2al3A 90 2.09e+00 1qwkA 317 2.14e+00 c.1.7.1 96482 2f96A 224 2.20e+00 1vl4A 447 2.23e+00 d.283.1.1 108718 1p1lA 102 2.24e+00 d.58.5.2 87695 1m1nB 522 2.29e+00 c.92.2.3 78418 1y8qA 346 2.35e+00 1zud1 251 2.50e+00 1zjjA 263 2.51e+00 1zmdA 474 2.69e+00 2ffyA 358 2.72e+00 1euvB 86 2.93e+00 1a5r d.15.1.1 37598 1k8wA 327 2.96e+00 b.122.1.1,d.265.1.2 83094,90388 1xsoA 150 3.01e+00 1mfmA b.1.8.1 22273 2absA 383 3.38e+00 1qh8B 519 3.45e+00 1qguB c.92.2.3 35634 1moq 368 3.50e+00 1moq c.80.1.1 35302 1wn2A 121 3.59e+00 1p5tA 127 3.65e+00 b.55.1.2 94148 2cpgA 45 3.70e+00 2cpgA a.43.1.3 17455 1hl9A 449 3.76e+00 b.71.1.3,c.1.8.11 90650,90651 1hf2A 210 3.78e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 1kgsA 225 3.81e+00 a.4.6.1,c.23.1.1 68596,68597 1s1pA 331 3.85e+00 c.1.7.1 98350 1rkuA 206 3.85e+00 c.108.1.11 97627 1u9cA 224 4.06e+00 1z4rA 168 4.07e+00 2b8eA 273 4.12e+00 1v1aA 309 4.12e+00 c.72.1.1 100249 2azpA 318 4.32e+00 1wddS 128 4.59e+00 1wo8A 126 4.71e+00 1j31A 262 4.82e+00 d.160.1.2 90808 1vcoA 550 5.08e+00 c.23.16.1,c.37.1.10 108508,108509 2f06A 144 5.20e+00 2ab0A 205 5.20e+00 1w41A 101 5.20e+00 2c6cA 707 5.26e+00 1gox 370 5.30e+00 1gox c.1.4.1 28607 1epfA 191 5.31e+00 2ncm b.1.1.4,b.1.1.4 21694,21695 1uzmA 247 5.34e+00 1vkmA 297 5.35e+00 c.138.1.1 108670 1pv0A 46 5.36e+00 a.2.12.1 95141 1puiA 210 5.45e+00 c.37.1.8 88292 1ezwA 349 5.54e+00 1ezwA c.1.16.3 29558 1h1yA 228 5.58e+00 c.1.2.2 76506 3daaA 277 5.69e+00 1daaA e.17.1.1 43272 1upiA 225 5.94e+00 b.82.1.1 99757 1cs1A 386 6.04e+00 1ibjA c.67.1.3 34399 1gheA 177 6.06e+00 d.108.1.1 76222 1siqA 392 6.31e+00 a.29.3.1,e.6.1.1 105585,105586 1pkoA 139 6.40e+00 b.1.1.1 88147 1vr6A 350 6.47e+00 1n7kA 234 6.56e+00 c.1.10.1 85374 1w2wB 191 6.66e+00 1jo0A 98 6.71e+00 d.68.4.1 77140 1i8fA 81 7.07e+00 1i8fA b.38.1.1 61959 1ekqA 272 7.17e+00 1c3qA c.72.1.2 34941 1gs5A 258 7.25e+00 c.73.1.2 70395 1uk8A 282 7.65e+00 c.69.1.10 107907 2axwA 134 7.65e+00 2b5hA 200 7.72e+00 1zdrA 164 7.83e+00 1vjqA 79 7.86e+00 k.43.1.1 100830 1y14B 171 7.87e+00 1g0oA 283 7.89e+00 1ybvA c.2.1.2 60181 1rfs 139 8.03e+00 1rfs b.33.1.1 24434 1ve3A 227 8.09e+00 1vpbA 451 8.33e+00 1t0tV 248 8.34e+00 d.58.4.10 106229 1hqsA 423 8.60e+00 1iso c.77.1.1 61154 1wl4A 397 8.93e+00 2gnxA 365 9.18e+00 1jx6A 342 9.37e+00 c.93.1.1 67406 1wzoA 246 9.56e+00 2f1fA 164 9.76e+00 2erfA 209 9.79e+00 1c1yB 77 9.88e+00 1c1yB d.15.1.5 37618 1qkkA 155 1.00e+01 1dbwA c.23.1.1 31104 1zoxA 113 1.03e+01 1k66A 149 1.03e+01 c.23.1.1 90941 1icpA 376 1.03e+01 1oyc c.1.4.1 62270 1ryiA 382 1.03e+01 1rkd 309 1.03e+01 1rkd c.72.1.1 34928 1lm4A 194 1.04e+01 d.167.1.1 84626 1g291 372 1.04e+01 1g291 1o69A 394 1.06e+01 c.67.1.4 92560 1y2qA 143 1.07e+01 1k20A 310 1.07e+01 c.107.1.1 68027 1jbwA 428 1.08e+01 c.59.1.2,c.72.2.2 62860,62861 1frb 315 1.08e+01 1frb c.1.7.1 28665 1bqcA 302 1.08e+01 1bqcA c.1.8.3 28831 1b00A 127 1.08e+01 3chy c.23.1.1 31122 1vphA 149 1.09e+01 1yx1A 264 1.09e+01 1qzzA 374 1.11e+01 a.4.5.29,c.66.1.12 96719,96720 1i5pA 633 1.11e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1w8sA 263 1.12e+01 1sc6A 404 1.13e+01 1zi8A 236 1.13e+01 1c3mA 147 1.15e+01 1jotA b.77.3.1 27983 1i8dA 213 1.17e+01 b.43.4.3,b.43.4.3 61953,61954 2b0tA 738 1.19e+01 1ooeA 236 1.22e+01 c.2.1.2 87196 1rlmA 271 1.23e+01 1bqsA 209 1.23e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1din 236 1.27e+01 1din c.69.1.9 34682 1uslA 170 1.27e+01 c.121.1.1 99871 1r85A 379 1.29e+01 c.1.8.3 104839 1bkb 136 1.30e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1l2hA 153 1.31e+01 b.42.1.2 77655 1qo0D 196 1.33e+01 1qo0D c.23.1.3 31125 1n5nA 180 1.35e+01 d.167.1.1 85336 1vizA 240 1.35e+01 c.1.4.1 100784 1jq5A 370 1.36e+01 e.22.1.2 67084 2ca6A 386 1.37e+01 2c71A 216 1.39e+01 1xjcA 169 1.39e+01 1gskA 513 1.42e+01 b.6.1.3,b.6.1.3,b.6.1.3 83314,83315,83316 1wm3A 72 1.42e+01 1mvoA 136 1.43e+01 c.23.1.1 79513 1k2eA 156 1.44e+01 d.113.1.1 72010 2cvhA 220 1.54e+01 2bneA 241 1.54e+01 1y9wA 140 1.55e+01 1k92A 455 1.55e+01 c.26.2.1,d.210.1.1 68325,68326 1jmvA 141 1.56e+01 c.26.2.4 66897 2c0zA 216 1.61e+01 1s8nA 205 1.61e+01 c.23.1.1 105374 1oltA 457 1.61e+01 c.1.28.2 93334 1vf8A 377 1.62e+01 1oywA 523 1.64e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2a2cA 478 1.66e+01 1oi6A 205 1.67e+01 b.82.1.1 103940 1kzfA 230 1.68e+01 d.108.1.3 73354 1d4xG 126 1.73e+01 1d0nA d.109.1.1 59109 1pt6A 213 1.73e+01 c.62.1.1 95091 1xm7A 195 1.79e+01 1bolA 222 1.80e+01 1bolA d.124.1.1 41120 1tfr 305 1.80e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1vkkA 154 1.80e+01 d.109.1.2 108669 8abp 306 1.80e+01 8abp c.93.1.1 35647 1uyrA 737 1.80e+01 c.14.1.4,c.14.1.4 100188,100189 1q45A 391 1.81e+01 c.1.4.1 95780 1sv0C 82 1.81e+01 a.60.1.1 106037 1a8s 273 1.81e+01 1brt c.69.1.12 34710 1vc4A 254 1.82e+01 c.1.2.4 100557 1tiqA 180 1.82e+01 d.108.1.1 107010 2b0cA 206 1.85e+01 1dmhA 311 1.86e+01 1dmhA b.3.6.1 22633 1pvmA 184 1.87e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1oa2A 218 1.87e+01 b.29.1.11 86721 1ufoA 238 1.88e+01 c.69.1.27 99344 7aatA 401 1.88e+01 1ajsA c.67.1.1 34250 1vmfA 145 1.89e+01 1g61A 228 1.91e+01 1g61A d.126.1.1 41126 1bazA 53 1.92e+01 1bazA a.43.1.1 17421 1wb0A 445 1.96e+01 2bw0A 329 1.97e+01 1jmxA 494 2.00e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66901,66902,66903,66904,66905 1t4wA 196 2.00e+01 b.2.5.2 106427 1zo2A 129 2.01e+01 1epxA 370 2.01e+01 1fbaA c.1.10.1 29150 1xubA 298 2.02e+01 2a3nA 355 2.02e+01 1lc5A 364 2.02e+01 c.67.1.1 73827 1oi7A 288 2.03e+01 c.2.1.8,c.23.4.1 87049,87050 1vcvA 226 2.05e+01 2db3A 434 2.05e+01 1sn4A 64 2.07e+01 1aho g.3.7.1 44136 1wy2A 351 2.08e+01 1x7oA 287 2.08e+01 1z2lA 423 2.09e+01 1tg0A 68 2.09e+01 2ex5A 207 2.11e+01 1rybA 212 2.12e+01 c.56.3.1 98098 1gt1A 159 2.15e+01 b.60.1.1 90515 1e1oA 504 2.16e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1q7sA 117 2.18e+01 c.131.1.1 96055 1ny4A 82 2.19e+01 b.40.4.5 92316 1f1eA 154 2.19e+01 a.22.1.2 64927 1khyA 148 2.21e+01 a.174.1.1 77410 1dzfA 215 2.22e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1khdA 345 2.25e+01 a.46.2.1,c.27.1.1 77400,77401 1kjnA 157 2.25e+01 c.115.1.1 72614 1te5A 257 2.27e+01 d.153.1.1 106795 2fueA 262 2.29e+01 1dciA 275 2.29e+01 1dciA c.14.1.3 30918 1jg1A 235 2.30e+01 c.66.1.7 66661 1p1xA 260 2.31e+01 c.1.10.1 104060 1nbcA 155 2.31e+01 1nbcA b.2.2.2 22390 1jyhA 157 2.33e+01 d.60.1.3 71956 1l6rA 227 2.34e+01 c.108.1.10 77768 1widA 130 2.38e+01 1ymqA 261 2.39e+01 1ydmA 187 2.41e+01 2gaiA 633 2.42e+01 3sdhA 146 2.43e+01 3sdhA a.1.1.2 14984 1ykwA 435 2.44e+01 1o4sA 389 2.47e+01 c.67.1.1 86620 1uu3A 310 2.49e+01 d.144.1.7 99999 1h05A 146 2.51e+01 c.23.13.1 76433 1rgyA 360 2.53e+01 e.3.1.1 97456 1a62 130 2.55e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1wojA 214 2.57e+01 1w2xA 758 2.57e+01 c.14.1.4,c.14.1.4 109134,109135 1quqA 129 2.59e+01 1quqA b.40.4.3 25303 2bvcA 486 2.61e+01 2gh1A 301 2.63e+01 2beiA 170 2.64e+01 1qstA 160 2.64e+01 1yghA d.108.1.1 40804 1dkiA 371 2.65e+01 1dkiA d.3.1.1 37090 1qhqA 140 2.65e+01 1qhqA b.6.1.1 63326 1gteA 1025 2.69e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1j6rA 214 2.71e+01 d.173.1.2 71598 1vr4A 103 2.76e+01 1yzyA 413 2.76e+01 2cxxA 190 2.78e+01 1p5fA 189 2.78e+01 c.23.16.2 94142 1vr9A 213 2.79e+01 2cvbA 188 2.79e+01 1wd5A 208 2.80e+01 1dl5A 317 2.84e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1tv8A 340 2.85e+01 c.1.28.3 107352 1sr2A 116 2.85e+01 1v9kA 228 2.86e+01 d.265.1.3 108449 2afbA 351 2.87e+01 1u0kA 288 2.88e+01 d.21.1.2,d.21.1.2 107547,107548 1v8aA 265 2.89e+01 c.72.1.2 100494 1jqnA 883 2.89e+01 c.1.12.3 77159 1ig8A 486 2.92e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1j96A 323 2.93e+01 c.1.7.1 71616 2fqxA 318 2.95e+01 1b5pA 385 2.96e+01 c.67.1.1 90403 2tpsA 227 2.99e+01 2tpsA c.1.3.1 28591 1m4lA 307 3.00e+01 c.56.5.1 78604 1jdpA 441 3.05e+01 c.93.1.1 62906 1yqsA 349 3.06e+01 1xdnA 277 3.06e+01 1r3eA 309 3.07e+01 b.122.1.1,d.265.1.2 96907,96908 1xrtA 467 3.08e+01 1gvfA 286 3.08e+01 c.1.10.2 70599 1dwkA 156 3.09e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1nv8A 284 3.10e+01 c.66.1.30 86224 1ob8A 135 3.10e+01 1v8yA 170 3.17e+01 1gefA 123 3.17e+01 1gefA c.52.1.18 60465 1s1qA 145 3.17e+01 d.20.1.2 98351 1us0A 316 3.19e+01 c.1.7.1 99850 1mjhA 162 3.20e+01 1mjhA c.26.2.4 31639 1m4tA 392 3.20e+01 c.95.1.1,c.95.1.1 78617,78618 1ee8A 266 3.23e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1s2oA 244 3.24e+01 1fhgA 154 3.24e+01 1tlk b.1.1.4 21706 1q33A 292 3.26e+01 d.113.1.1 95657 1kr4A 125 3.28e+01 d.58.5.2 72889 2ezvA 269 3.28e+01 1wduA 245 3.30e+01 d.151.1.1 109286 1pwgA 349 3.31e+01 e.3.1.1 104340 1p9oA 313 3.32e+01 c.72.3.1 94397 1ay7B 89 3.32e+01 1ay7B c.9.1.1 30836 1osdA 72 3.32e+01 d.58.17.1 104022 1m3kA 392 3.33e+01 c.95.1.1,c.95.1.1 78565,78566 1bykA 255 3.33e+01 1bykA c.93.1.1 35706 1w94A 156 3.33e+01 1wstA 417 3.34e+01 1hdiA 413 3.34e+01 16pk c.86.1.1 60964 1f1gA 154 3.35e+01 b.1.8.1 76153 1hh1A 143 3.35e+01 1gefA c.52.1.18 61036 1wzuA 300 3.38e+01 1hbkA 94 3.42e+01 1aca a.11.1.1 60887 1f8eA 388 3.43e+01 2qwc b.68.1.1 59694 1i7kA 179 3.43e+01 1u9aA d.20.1.1 61889 1usmA 80 3.44e+01 d.74.1.1 99876 1pv5A 264 3.45e+01 d.251.1.1 95150 1zpwX 90 3.52e+01 1vjkA 98 3.52e+01 d.15.3.1 108631 1yirA 408 3.54e+01 1j1lA 290 3.56e+01 b.82.1.12 90766 1nf9A 207 3.58e+01 c.33.1.3 85631 1ek6A 348 3.59e+01 1xel c.2.1.2 29800 1vhcA 224 3.61e+01 c.1.10.1 100661 1wvfA 520 3.63e+01 2fi1A 190 3.64e+01 1w9yA 319 3.65e+01 2g8oA 264 3.69e+01 2fm8A 135 3.69e+01 1yd9A 193 3.70e+01 1iujA 106 3.70e+01 d.58.4.5 90701 2fhzA 109 3.70e+01 1dbwA 126 3.71e+01 1dbwA c.23.1.1 31095 1di2A 69 3.72e+01 1di2A d.50.1.1 38780 1vljA 407 3.73e+01 e.22.1.2 108832 1zxxA 319 3.75e+01 1p4kA 295 3.76e+01 d.153.1.5 87772 1q0vA 81 3.76e+01 j.105.1.1 95514 1aym3 238 3.78e+01 1aym3 1d7uA 433 3.78e+01 2dkb c.67.1.4 34439 1xeoA 168 3.78e+01 1hyhA 309 3.79e+01 1hyhA c.2.1.5,d.162.1.1 30150,42117 1wnaA 131 3.82e+01 1omoA 322 3.83e+01 c.2.1.13 104017 1zgzA 122 3.84e+01 2evaA 307 3.85e+01 1qsgA 265 3.86e+01 1eny c.2.1.2 29935 1vjpA 394 3.87e+01 c.2.1.3,d.81.1.3 100828,100829 1ztpA 251 3.89e+01 1v2dA 381 3.91e+01 c.67.1.1 108281 2bj7A 138 3.91e+01 1h7zA 194 3.93e+01 1qhvA b.21.1.1 60733 1vjzA 341 3.94e+01 c.1.8.3 100838 1ois 223 3.94e+01 1a36A e.15.1.1 43267 1s9uA 207 3.99e+01 a.184.1.1 105390 2g2cA 167 4.02e+01 2cbuA 468 4.02e+01 1vqzA 341 4.06e+01 2yhx 457 4.06e+01 2yhx i.12.1.1 46024 1rkqA 282 4.07e+01 c.108.1.10 97621 2basA 431 4.09e+01 1stmA 157 4.16e+01 1stmA b.121.7.1 23281 1fukA 165 4.17e+01 1fukA c.37.1.19 32409 1p7tA 731 4.19e+01 c.1.13.1 94319 2ftbA 125 4.21e+01 1php 394 4.23e+01 16pk c.86.1.1 35452 1gxjA 186 4.23e+01 d.215.1.1 70707 2fe7A 166 4.23e+01 2f71A 298 4.24e+01 1hp1A 516 4.24e+01 d.114.1.1,d.159.1.2 70976,70977 1a7w 69 4.28e+01 1a7w a.22.1.2 16477 1sdsA 117 4.33e+01 d.79.3.1 105439 1evlA 401 4.34e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 2bi0A 337 4.34e+01 1vyrA 364 4.35e+01 c.1.4.1 108906 1te0A 318 4.35e+01 1jflA 228 4.36e+01 c.78.2.1,c.78.2.1 71656,71657 1jmcA 246 4.37e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1h65A 270 4.39e+01 c.37.1.8 65640 1qwzA 235 4.39e+01 b.100.1.1 96510 1z41A 338 4.40e+01 1pbyA 489 4.40e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1m6sA 347 4.41e+01 c.67.1.1 78701 1gwyA 175 4.42e+01 b.97.1.1 83356 1iz6A 138 4.43e+01 b.34.5.2,b.40.4.5 76976,76977 1o98A 511 4.45e+01 c.105.1.1,c.76.1.3 86684,86685 1w6uA 302 4.47e+01 1xzoA 174 4.48e+01 1ojqA 212 4.51e+01 d.166.1.1 93146 1a6cA 513 4.51e+01 1a6cA b.121.4.2,b.121.4.2,b.121.4.2 23296,23297,23298 1wzaA 488 4.51e+01 1xp8A 366 4.52e+01 1yovA 537 4.53e+01 1jhfA 202 4.53e+01 a.4.5.2,b.87.1.1 63057,63058 1sqiA 393 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