# 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 1b8oA 284 1.18e+00 1b8oA c.56.2.1 33762 2gzaA 361 1.71e+00 1tcvA 287 2.23e+00 1tqjA 230 2.24e+00 c.1.2.2 107228 1vcvA 226 3.19e+00 7odcA 424 4.03e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1v6tA 255 4.52e+00 1i4uA 181 4.94e+00 b.60.1.1 61732 2bsxA 253 5.25e+00 1xwyA 264 5.50e+00 1qe5A 266 5.50e+00 1b8oA c.56.2.1 33784 1vheA 373 5.91e+00 b.49.3.1,c.56.5.4 100669,100670 1kicA 339 6.02e+00 c.70.1.1 72510 1qh4A 380 6.49e+00 1qh4A a.83.1.1,d.128.1.2 18462,41197 1s3zA 165 6.61e+00 d.108.1.1 105250 1a6q 382 6.62e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 2faoA 309 7.12e+00 1xc1A 309 7.24e+00 c.94.1.1 109543 1e9rA 437 7.30e+00 c.37.1.11 64827 1k7jA 206 7.74e+00 d.115.1.1 72103 1w3iA 293 7.87e+00 c.1.10.1 109152 1pvvA 315 8.05e+00 c.78.1.1,c.78.1.1 95190,95191 1xgsA 295 8.19e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1vhwA 253 8.47e+00 c.56.2.1 100706 1mg7A 417 8.50e+00 d.14.1.6,d.58.26.6 84954,84955 1wdtA 665 9.02e+00 1bqk 124 9.49e+00 1bqk b.6.1.1 22889 1f5vA 240 1.00e+01 1bkjA d.90.1.1 40255 1o66A 275 1.00e+01 c.1.12.8 92547 1q45A 391 1.06e+01 c.1.4.1 95780 1xl7A 612 1.10e+01 1fcyA 236 1.11e+01 2lbd a.123.1.1 19282 1sg4A 260 1.13e+01 1cb0A 283 1.15e+01 1cb0A c.56.2.1 33790 1kt6A 183 1.18e+01 b.60.1.1 84466 1eceA 358 1.20e+01 1eceA c.1.8.3 28813 1z0sA 278 1.26e+01 1wduA 245 1.34e+01 d.151.1.1 109286 1wqaA 455 1.35e+01 1nofA 383 1.38e+01 b.71.1.2,c.1.8.3 92020,92021 1ia9A 280 1.45e+01 1ia9A d.144.1.5 62113 1ta3A 274 1.52e+01 c.1.8.5 106731 1odkA 235 1.56e+01 c.56.2.1 86863 1j6oA 268 1.57e+01 c.1.9.12 77088 1sjiA 350 1.58e+01 1izcA 339 1.69e+01 c.1.12.5 83838 2c0hA 353 1.70e+01 1wz8A 264 1.75e+01 1qy1A 174 1.79e+01 b.60.1.1 96568 1rq2A 382 1.79e+01 c.32.1.1,d.79.2.1 105048,105049 2gzxA 265 1.85e+01 2a8yA 270 1.87e+01 1f35A 162 1.88e+01 1f35A b.94.1.1 59628 1zndA 174 1.88e+01 1uk8A 282 1.96e+01 c.69.1.10 107907 1ru3A 732 2.00e+01 e.26.1.3 97835 1bj7 156 2.03e+01 1bj7 b.60.1.1 27113 2ffcA 353 2.03e+01 1w8sA 263 2.04e+01 1zzmA 259 2.04e+01 2av4A 162 2.08e+01 2gj8A 172 2.09e+01 1j31A 262 2.13e+01 d.160.1.2 90808 1ko6A 187 2.14e+01 b.119.1.1 77471 1yb0A 159 2.23e+01 1d8wA 426 2.25e+01 1de5A c.1.15.2 29394 2asbA 251 2.28e+01 1ub3A 220 2.29e+01 c.1.10.1 88395 1nuyA 337 2.30e+01 e.7.1.1 86213 2f5gA 133 2.32e+01 1u6rA 380 2.33e+01 1ztuA 341 2.34e+01 1fm0E 150 2.35e+01 1fmaE d.41.5.1 38629 1q2lA 939 2.39e+01 1auiB 169 2.43e+01 1auiB a.39.1.5 17325 1zosA 230 2.52e+01 1wy7A 207 2.60e+01 1qwgA 251 2.61e+01 c.1.27.1 96473 2fckA 181 2.64e+01 1avqA 228 2.66e+01 1avqA c.52.1.13 33326 1oyc 400 2.69e+01 1oyc c.1.4.1 28603 1vraB 215 2.71e+01 1kcfA 258 2.71e+01 a.140.2.1,c.55.3.7 68434,68435 2fwtA 125 2.78e+01 2c6qA 351 2.79e+01 1d3yA 301 2.83e+01 1d3yA e.12.1.1 43252 1fvgA 199 2.89e+01 1fvaA d.58.28.1 39408 2bitX 165 2.94e+01 1ws0A 156 2.95e+01 1io2A 213 2.97e+01 1ekeA c.55.3.1 62612 2al1A 436 3.05e+01 2aamA 309 3.05e+01 1knwA 425 3.06e+01 b.49.2.3,c.1.6.1 90969,90970 1pixA 587 3.11e+01 c.14.1.4 94708 1suwA 249 3.11e+01 e.52.1.1 106027 1uslA 170 3.16e+01 c.121.1.1 99871 1b25A 619 3.21e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 2fliA 220 3.24e+01 1vjeA 166 3.26e+01 d.185.1.2 100807 1zzoA 136 3.31e+01 1zd9A 188 3.32e+01 1rxyA 253 3.33e+01 c.56.2.1 98065 1k3rA 268 3.54e+01 b.40.4.10,c.116.1.2 72018,72019 1uhvA 500 3.61e+01 b.71.1.2,c.1.8.3 99402,99403 1t7lA 766 3.63e+01 1yp2A 451 3.65e+01 1musA 477 3.66e+01 c.55.3.4 79494 1z7xW 461 3.69e+01 2a5dA 175 3.72e+01 1ekeA 230 3.72e+01 1ekeA c.55.3.1 33572 1hl2A 297 3.72e+01 c.1.10.1 83581 2hvm 273 3.72e+01 1cnv c.1.8.5 28985 1wtaA 275 3.76e+01 1ua4A 455 3.79e+01 c.72.1.3 99128 1zl0A 311 3.81e+01 1r6xA 395 3.85e+01 b.122.1.3,c.26.1.5 97167,97168 1g6aA 271 3.92e+01 1btl e.3.1.1 42704 2cbzA 237 3.95e+01 2al2A 436 3.96e+01 1wohA 305 3.96e+01 c.42.1.1 109446 2c0nA 203 3.98e+01 1j1lA 290 4.04e+01 b.82.1.12 90766 2fvgA 340 4.06e+01 1wwrA 171 4.08e+01 1cl8A 276 4.12e+01 1ckqA c.52.1.1 33230 1w77A 228 4.25e+01 1wcdJ 441 4.27e+01 1sk4A 163 4.37e+01 d.118.1.1 105664 1ne8A 117 4.42e+01 b.34.6.2 80424 1ne9A 335 4.42e+01 d.108.1.4,d.108.1.4 91839,91840 1v9kA 228 4.43e+01 d.265.1.3 108449 1r2rA 248 4.57e+01 c.1.1.1 96875 1wvfA 520 4.62e+01 1vkmA 297 4.64e+01 c.138.1.1 108670 1g66A 207 4.71e+01 1bs9 c.69.1.30 31329 1r5lA 262 4.76e+01 a.5.3.1,c.13.1.1 97099,97100 1yw0A 276 4.76e+01 1epxA 370 4.78e+01 1fbaA c.1.10.1 29150 1mzbA 136 4.90e+01 a.4.5.42 91497 1hleA 345 4.96e+01 1ovaA e.1.1.1 42618 1vkhA 273 5.04e+01 c.69.1.32 108662 1em8A 147 5.07e+01 c.128.1.1 90457 1wa3A 205 5.14e+01 1cmcA 104 5.15e+01 1cmbA a.43.1.5 17462 1vp8A 201 5.19e+01 1b43A 340 5.20e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2oatA 439 5.29e+01 2dkb c.67.1.4 34452 1jb7B 260 5.29e+01 1otcB b.40.4.3 62839 1w85A 368 5.36e+01 7aatA 401 5.37e+01 1ajsA c.67.1.1 34250 1xocA 520 5.40e+01 3pmgA 561 5.43e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1i2sA 282 5.45e+01 e.3.1.1 71104 1ppjB 439 5.45e+01 d.185.1.1,d.185.1.1 104254,104255 2choA 716 5.47e+01 2gdnA 267 5.57e+01 1e6yC 247 5.59e+01 1mroC d.58.31.1 39441 1ydlA 79 5.61e+01 1us5A 314 5.64e+01 c.94.1.1 99856 1w6uA 302 5.64e+01 1sznA 417 5.70e+01 b.71.1.1,c.1.8.1 106162,106163 1jysA 242 5.70e+01 c.56.2.1 77216 1qd1A 325 5.72e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1behA 187 5.75e+01 1a44 b.17.1.1 23700 1m6jA 261 5.76e+01 c.1.1.1 78693 1bazA 53 5.78e+01 1bazA a.43.1.1 17421 2fpmA 322 5.79e+01 1gegA 256 5.81e+01 1ybvA c.2.1.2 29888 1oneA 436 5.86e+01 4enl c.1.11.1,d.54.1.1 29200,38844 1mml 265 5.92e+01 1mml e.8.1.2 43015 1uwcA 261 5.95e+01 c.69.1.17 100101 1zsxA 347 5.99e+01 2c8mA 262 6.03e+01 1h1yA 228 6.05e+01 c.1.2.2 76506 1efpB 252 6.08e+01 1efvB c.26.2.3 31636 1wh5A 80 6.09e+01 1xw8A 252 6.13e+01 1f89A 291 6.13e+01 d.160.1.1 64988 1m3uA 264 6.21e+01 c.1.12.8 84784 2g2cA 167 6.28e+01 1csn 298 6.28e+01 1csn d.144.1.7 41664 1ryiA 382 6.29e+01 2aieP 203 6.32e+01 1vb3A 428 6.32e+01 1pmy 123 6.43e+01 1bqk b.6.1.1 22888 2gfsA 372 6.44e+01 1oxxK 353 6.50e+01 b.40.6.3,c.37.1.12 93715,93716 2g0wA 296 6.52e+01 1o9gA 250 6.52e+01 c.66.1.29 86692 1ynpA 317 6.54e+01 1e7uA 961 6.57e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1bjt 793 6.62e+01 1bjt e.11.1.1 43249 2afbA 351 6.69e+01 1uayA 242 6.71e+01 c.2.1.2 88390 1g0cA 364 6.72e+01 7a3hA c.1.8.3 60165 2gi9A 56 6.73e+01 1eswA 500 6.73e+01 1cwyA c.1.8.1 59500 1sgwA 214 6.73e+01 c.37.1.12 105541 1vp4A 425 6.74e+01 1gsoA 431 6.74e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1yjsA 419 6.78e+01 1kk1A 410 6.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1vggA 161 6.85e+01 1qwnA 1045 6.87e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1e5dA 402 6.90e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 2gtrA 261 6.92e+01 1x7yA 400 6.92e+01 1edg 380 6.93e+01 1edg c.1.8.3 28807 1pzsA 208 6.96e+01 b.1.8.1 104397 1ixh 321 7.01e+01 1ixh c.94.1.1 35761 1yemA 179 7.02e+01 1o6zA 303 7.04e+01 c.2.1.5,d.162.1.1 81107,81108 1oaoC 729 7.06e+01 e.26.1.3 86746 1o58A 303 7.07e+01 c.79.1.1 92491 2cpgA 45 7.14e+01 2cpgA a.43.1.3 17455 1u7eB 154 7.20e+01 1zhsA 113 7.22e+01 1exbA 332 7.23e+01 1qrqA c.1.7.1 28666 1m65A 245 7.26e+01 c.6.3.1 84847 1z41A 338 7.26e+01 1vpqA 273 7.27e+01 3cla 213 7.32e+01 3cla c.43.1.1 32610 1s5jA 847 7.37e+01 2g2dA 193 7.44e+01 2a0mA 316 7.52e+01 1geqA 248 7.53e+01 2tysA c.1.2.4 28589 1efvB 255 7.54e+01 1efvB c.26.2.3 31634 1sviA 195 7.60e+01 c.37.1.8 106048 2aebA 322 7.65e+01 1uozA 315 7.65e+01 1aocA 175 7.67e+01 1aocA g.17.1.5 44817 2fyxA 143 7.72e+01 1i40A 175 7.72e+01 b.40.5.1 66024 1hjrA 158 7.82e+01 1hjrA c.55.3.6 33727 1nqkA 381 7.82e+01 c.1.16.4 92050 1r7aA 504 7.88e+01 b.71.1.1,c.1.8.1 97192,97193 1dp4A 435 7.89e+01 1dp4A c.93.1.1 35710 1d3vA 323 7.90e+01 1d3vA c.42.1.1 32559 1bn7A 294 7.94e+01 1bn6A c.69.1.8 34677 1hp1A 516 7.96e+01 d.114.1.1,d.159.1.2 70976,70977 1ng6A 148 8.02e+01 a.182.1.1 85670 1vzwA 244 8.05e+01 2aa1A 144 8.11e+01 2ftxB 64 8.18e+01 1ry6A 360 8.19e+01 c.37.1.9 98090 1n5nA 180 8.19e+01 d.167.1.1 85336 1byrA 155 8.21e+01 1byrA d.136.1.1 41450 1z47A 355 8.24e+01 1rybA 212 8.25e+01 c.56.3.1 98098 1r8sA 164 8.30e+01 c.37.1.8 97247 2ptd 298 8.31e+01 2plc c.1.18.2 29605 1vkpA 383 8.36e+01 d.126.1.6 108686 2bfdA 400 8.36e+01 1c0pA 363 8.38e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1zp4A 304 8.42e+01 2ceyA 306 8.44e+01 2dc4A 165 8.46e+01 1pfbA 55 8.47e+01 b.34.13.2 94655 1vqoM 195 8.48e+01 1wstA 417 8.49e+01 1zarA 282 8.52e+01 1f2tB 148 8.52e+01 1f2tB 1yacA 208 8.53e+01 1yacA c.33.1.3 31757 1iu8A 206 8.55e+01 c.56.4.1 71436 1i3cA 149 8.59e+01 c.23.1.1 71112 1pyfA 312 8.62e+01 c.1.7.1 95334 1sj1A 66 8.67e+01 d.58.1.4 105595 1tmy 120 8.73e+01 1dbwA c.23.1.1 31083 1o3yA 166 8.76e+01 c.37.1.8 86618 1jubA 311 8.80e+01 c.1.4.1 90908 2chnA 716 8.80e+01 1c4oA 664 8.81e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1zwyA 185 8.89e+01 1wvqA 167 8.92e+01 1yloA 348 8.93e+01 1vk3A 615 8.95e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1u0sY 118 8.97e+01 c.23.1.1 107566