# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 2b1eA 564 1.25e-01 2aexA 346 2.44e-01 2c5kT 95 7.02e-01 1y96B 85 7.12e-01 1j93A 353 1.07e+00 c.1.22.1 66454 1tw9A 206 1.22e+00 a.45.1.1,c.47.1.5 107381,107382 1wdpA 495 1.26e+00 1t95A 240 1.36e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1oyc 400 1.37e+00 1oyc c.1.4.1 28603 2beqD 48 1.48e+00 1jixA 351 1.66e+00 1c3jA c.87.1.1 63081 1q74A 303 1.73e+00 c.134.1.1 96019 1m1eB 81 1.88e+00 a.161.1.1 78400 1eca 136 1.90e+00 1flp a.1.1.2 15209 2au5A 139 2.26e+00 1t3wA 148 2.27e+00 1f46A 140 2.28e+00 1f46A d.129.4.1 59643 1bbhA 131 2.34e+00 1bbhA a.24.3.2 16546 1o6dA 163 2.34e+00 c.116.1.3 92567 1lj9A 144 2.43e+00 a.4.5.28 78035 1ka1A 357 3.42e+00 e.7.1.1 68369 2fu2A 102 4.51e+00 1n4kA 381 4.90e+00 a.118.22.1,b.42.6.1 79992,79993 1xhdA 173 4.91e+00 1ym3A 215 5.11e+00 1h6pA 203 5.14e+00 a.146.1.1 60690 1k2xB 143 5.31e+00 2aukA 190 5.44e+00 1txnA 328 5.56e+00 2af4C 333 5.94e+00 3tmkA 216 6.24e+00 3tmkA c.37.1.1 31920 2cvhA 220 6.37e+00 2tpsA 227 6.38e+00 2tpsA c.1.3.1 28591 2etxA 209 6.70e+00 1v2zA 111 7.03e+00 a.186.1.1 108300 1wy1A 172 7.06e+00 1g6hA 257 7.12e+00 1gajA c.37.1.12 60318 2fbhA 146 7.62e+00 1t5bA 201 7.81e+00 c.23.5.3 106433 1ofcX 304 7.99e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2amdA 311 8.21e+00 1upvA 257 8.49e+00 1jo0A 98 8.54e+00 d.68.4.1 77140 1wdtA 665 8.56e+00 1omrA 201 8.57e+00 a.39.1.5 93349 1a6q 382 8.94e+00 1a6q a.159.1.1,d.219.1.1 75801,75802 1rw1A 114 9.21e+00 2fefA 294 9.24e+00 1uw4A 91 9.47e+00 d.58.7.4 100071 1ovnA 248 9.87e+00 a.71.1.1,c.47.1.7 93602,93603 1vflA 356 9.94e+00 1aj8A 371 9.98e+00 1aj8A a.103.1.1 18900 1t0iA 191 1.01e+01 c.23.5.4 106209 1vjeA 166 1.03e+01 d.185.1.2 100807 2gl5A 410 1.05e+01 1vjvA 415 1.06e+01 d.3.1.9 108632 1dp3A 55 1.09e+01 1dp3A a.55.1.2 59128 1keaA 221 1.09e+01 a.96.1.2 68491 2fueA 262 1.10e+01 1nvmA 345 1.12e+01 a.5.7.1,c.1.10.5 86249,86250 1y791 680 1.13e+01 2fpqA 444 1.14e+01 1z7xW 461 1.16e+01 2erbA 125 1.16e+01 2fcwA 109 1.16e+01 1yirA 408 1.16e+01 2ck3A 510 1.17e+01 2c1vA 338 1.17e+01 1grj 158 1.18e+01 1grj a.2.1.1,d.26.1.2 15691,38433 1qksA 567 1.19e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1n3lA 372 1.21e+01 c.26.1.1 79966 1sauA 115 1.23e+01 1tzzA 392 1.23e+01 1v1dA 31 1.23e+01 1y9qA 192 1.24e+01 2a6sA 84 1.27e+01 1cvrA 435 1.30e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1uvqB 198 1.30e+01 b.1.1.2,d.19.1.1 100064,100065 1avsA 90 1.35e+01 1cll a.39.1.5 17226 1dekA 241 1.36e+01 1dekA c.37.1.1 31842 1dugA 234 1.37e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 2bezF 42 1.39e+01 1pkhA 204 1.41e+01 b.85.4.1 94832 1g0cA 364 1.41e+01 7a3hA c.1.8.3 60165 1qjtA 99 1.41e+01 1eh2 a.39.1.6 17335 1acf 125 1.42e+01 3nul d.110.1.1 40882 1ockA 412 1.43e+01 c.117.1.1 86802 1wmhA 89 1.43e+01 2b18A 164 1.44e+01 1v63A 101 1.50e+01 a.21.1.1 108391 1j79A 347 1.51e+01 1j79A c.1.9.4 62675 1a7w 69 1.52e+01 1a7w a.22.1.2 16477 1tzyD 103 1.57e+01 a.22.1.1 107533 1vjuA 309 1.68e+01 d.248.1.1 100835 1b0nA 111 1.72e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1paqA 189 1.79e+01 a.118.1.14 94413 1sczA 233 1.83e+01 c.43.1.1 98802 1ajsA 412 1.84e+01 1ajsA c.67.1.1 34276 1vcsA 102 1.87e+01 2f6mA 65 1.88e+01 2d81A 318 1.88e+01 1idrA 136 1.89e+01 1dlyA a.1.1.1 62301 1v3wA 173 1.90e+01 b.81.1.5 100291 1b67A 68 1.92e+01 1a7w a.22.1.2 16474 1kn1B 161 1.93e+01 a.1.1.3 77456 1wbeA 209 1.93e+01 2c4jA 218 1.99e+01 1d4aA 273 2.01e+01 1d4aA c.23.5.3 31219 1lvfA 110 2.05e+01 a.47.2.1 74280 1z0xA 220 2.07e+01 2f9dA 125 2.08e+01 1kqpA 271 2.28e+01 c.26.2.1 72883 2fsjA 346 2.28e+01 1svy 114 2.29e+01 1svy d.109.1.1 40831 1azo 232 2.30e+01 1azo c.52.1.14 33329 1t7rA 269 2.31e+01 a.123.1.1 106635 1bj7 156 2.34e+01 1bj7 b.60.1.1 27113 1ekqA 272 2.35e+01 1c3qA c.72.1.2 34941 2ar0A 541 2.35e+01 1czqA 46 2.36e+01 1czqA h.3.2.1 45720 1vzjA 40 2.39e+01 1h8eA 510 2.40e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1e5pA 151 2.42e+01 1bj7 b.60.1.1 59272 1woqA 267 2.42e+01 c.55.1.10,c.55.1.10 109462,109463 1fnnA 389 2.44e+01 1fnnA a.4.5.11,c.37.1.20 16129,32426 1u53A 196 2.44e+01 1pvmA 184 2.58e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2bkaA 242 2.63e+01 2cbzA 237 2.64e+01 1zavU 30 2.65e+01 1tr0A 108 2.71e+01 d.58.4.4 107261 1k3bB 164 2.72e+01 d.3.1.1 72015 1yzyA 413 2.74e+01 2fnoA 248 2.74e+01 1r0mA 375 2.75e+01 c.1.11.2,d.54.1.1 104747,104748 2cw6A 298 2.79e+01 1nkpA 88 2.82e+01 a.38.1.1 80573 1h5rA 293 2.86e+01 c.68.1.6 65623 1r2zA 274 2.93e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1h97A 147 2.97e+01 1h97A a.1.1.2 60812 1r3sA 367 2.99e+01 c.1.22.1 96963 1wmaA 276 3.01e+01 1brwA 433 3.05e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1pzlA 237 3.05e+01 a.123.1.1 104393 1h5wA 309 3.08e+01 e.27.1.1 65635 1wrdA 103 3.12e+01 1iq4A 179 3.16e+01 1iq4A d.77.1.1 62641 1clc 639 3.20e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1r2rA 248 3.20e+01 c.1.1.1 96875 2ezvA 269 3.24e+01 1m0uA 249 3.28e+01 a.45.1.1,c.47.1.5 78359,78360 2bskB 90 3.29e+01 1j09A 468 3.34e+01 a.97.1.1,c.26.1.1 77025,77026 1wa3A 205 3.38e+01 1woyA 500 3.40e+01 1p5zB 263 3.40e+01 c.37.1.1 87815 1cpq 129 3.41e+01 1cpq a.24.3.2 16556 1pmzA 86 3.41e+01 a.39.1.10 104195 1wc3A 219 3.42e+01 2a7oA 112 3.46e+01 1z0kB 69 3.47e+01 1wkyA 464 3.47e+01 1edg 380 3.48e+01 1edg c.1.8.3 28807 2cq2A 114 3.48e+01 2b7kA 200 3.51e+01 1tqnA 486 3.60e+01 a.104.1.1 107238 1fy7A 278 3.62e+01 1fy7A d.108.1.1 40817 1pyfA 312 3.64e+01 c.1.7.1 95334 1hulA 108 3.65e+01 1hulA a.26.1.2 16865 1sknP 92 3.69e+01 1sknP a.37.1.1 17127 1n1jA 93 3.73e+01 a.22.1.3 79813 1icpA 376 3.74e+01 1oyc c.1.4.1 62270 1xpcA 248 3.76e+01 1y8aA 332 3.84e+01 1yy7A 213 3.85e+01 1l8dA 112 3.86e+01 h.4.12.1 73687 1vbuA 328 3.96e+01 1t3qB 788 3.98e+01 d.41.1.1,d.133.1.1 106369,106370 1iuqA 367 4.02e+01 c.112.1.1 90703 1or4A 178 4.03e+01 a.1.1.2 93447 1iznB 277 4.09e+01 e.43.1.2 83848 1yzmA 51 4.09e+01 1jmsA 381 4.18e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1srqA 341 4.21e+01 e.55.1.1 105967 1wmiB 67 4.22e+01 1zbsA 291 4.28e+01 1g24A 211 4.30e+01 1g24A d.166.1.1 42270 1whzA 70 4.32e+01 1gnxA 479 4.39e+01 c.1.8.4 76241 2cqsA 842 4.48e+01 1wudA 89 4.49e+01 1jsdB 176 4.51e+01 h.3.1.1 63259 1l0bA 229 4.51e+01 c.15.1.3,c.15.1.3 73391,73392 1jboB 172 4.56e+01 a.1.1.3 84151 1cmcA 104 4.62e+01 1cmbA a.43.1.5 17462 1i4dA 224 4.63e+01 h.4.7.1 61682 1q8cA 151 4.67e+01 a.79.1.2 96202 1jf8A 131 4.69e+01 c.44.1.1 66621 1zp4A 304 4.70e+01 1jboA 162 4.73e+01 a.1.1.3 84150 1snnA 227 4.75e+01 d.115.1.2 105821 1cpcB 172 4.78e+01 1qgwC a.1.1.3 15644 1fviA 297 4.82e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 1vykA 149 4.83e+01 1oaqH 121 4.83e+01 b.1.1.1 92707 2gsq 202 4.83e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1eyvA 156 4.87e+01 1eyvA a.79.1.1 18446 1yozA 116 4.88e+01 1xd8A 289 4.89e+01 2c2aA 258 4.90e+01 1sdiA 213 4.91e+01 a.198.1.1 105437 1uzeA 589 4.92e+01 d.92.1.5 108174 1b4pA 217 4.96e+01 a.45.1.1,c.47.1.5 83158,83159 2aaoA 166 4.96e+01 2ftuA 118 4.99e+01 1dpsA 167 5.01e+01 1dpsA a.25.1.1 16716 2fk8A 318 5.03e+01 1ef8A 261 5.08e+01 1ef8A c.14.1.3 30921 1q1fA 151 5.11e+01 a.1.1.2 104476 1h1nA 305 5.14e+01 c.1.8.3 70855 2ccjA 205 5.15e+01 1auoA 218 5.17e+01 1auoA c.69.1.14 34716 1yn9A 169 5.22e+01 1ug6A 431 5.26e+01 c.1.8.4 88490 1uekA 275 5.31e+01 d.14.1.5,d.58.26.5 88483,88484 4ubpA 101 5.37e+01 1ubpA d.8.1.1 37352 1useA 45 5.38e+01 1rh5A 436 5.38e+01 f.41.1.1 97464 1v77A 212 5.40e+01 c.6.3.2 108402 1zs4A 83 5.40e+01 1pgvA 197 5.43e+01 c.10.1.1 88073 1fr2A 86 5.46e+01 a.28.2.1 83256 1vaxA 287 5.52e+01 1wwrA 171 5.52e+01 2gokA 429 5.53e+01 1izmA 184 5.63e+01 a.199.1.1 90725 1tgrA 52 5.68e+01 1n46A 258 5.69e+01 a.123.1.1 85315 1vk0A 206 5.70e+01 c.55.3.5 100839 1eumA 165 5.71e+01 1eumA a.25.1.1 59507 1kv5A 250 5.71e+01 c.1.1.1 73052 1p65A 73 5.73e+01 d.254.1.1 94156 1rgxA 114 5.76e+01 g.77.1.1 104932 1q4rA 112 5.78e+01 d.58.4.4 95823 2fliA 220 5.84e+01 1b0b 142 5.87e+01 2fal a.1.1.2 15010 1jksA 294 5.92e+01 d.144.1.7 71710 1j0hA 588 5.93e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1ia8A 289 5.94e+01 1ia8A d.144.1.7 62112 1c7sA 858 6.00e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1j77A 209 6.04e+01 1j77A a.132.1.2 62674 1ou8A 111 6.06e+01 b.136.1.1 93543 1tzyB 126 6.09e+01 a.22.1.1 107531 2d48A 129 6.13e+01 1zjcA 418 6.15e+01 2f1lA 187 6.16e+01 1ep3A 311 6.18e+01 2dorA c.1.4.1 28597 1pgtA 210 6.21e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1mv8A 436 6.21e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1regX 122 6.21e+01 1regX d.58.27.1 39406 1ywfA 296 6.23e+01 1ic2A 81 6.27e+01 h.1.5.1 62247 1kr7A 110 6.29e+01 a.1.1.4 72890 1h3nA 878 6.29e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1y74A 57 6.32e+01 2affB 44 6.36e+01 1lk2A 274 6.49e+01 b.1.1.2,d.19.1.1 91056,91057 1szoA 257 6.49e+01 c.14.1.3 106164 2apjA 260 6.50e+01 1sbp 310 6.53e+01 1sbp c.94.1.1 35760 2f2eA 146 6.55e+01 1n83A 270 6.55e+01 a.123.1.1 80276 1m4jA 142 6.56e+01 d.109.1.2 78602 2b5dX 528 6.56e+01 2aotA 292 6.58e+01 2f9dP 43 6.58e+01 1px5A 349 6.59e+01 a.160.1.2,d.218.1.6 95277,95278 1n55A 251 6.62e+01 c.1.1.1 80007 1kn1A 160 6.64e+01 a.1.1.3 77455 1vhuA 211 6.65e+01 c.50.1.2 100703 2cybA 323 6.66e+01 2ao9A 155 6.69e+01 2gi3A 476 6.71e+01 1z8uA 102 6.76e+01 1a41 234 6.79e+01 1a41 d.163.1.2 42174 1eyhA 144 6.82e+01 1eduA a.118.9.1 19214 2cq8A 110 6.87e+01 1ak0 270 6.87e+01 1ak0 a.124.1.2 19345 2fvtA 135 6.90e+01 1ykiA 217 6.97e+01 1spvA 184 7.02e+01 c.50.1.2 98957 1ydmA 187 7.03e+01 1m12A 84 7.11e+01 a.64.1.1 84745 1c1dA 355 7.17e+01 1bw9A c.2.1.7,c.58.1.1 30270,33918 2b5gA 171 7.18e+01 1no4A 97 7.23e+01 h.1.24.1 85918 1n0wA 243 7.23e+01 c.37.1.11 79772 1jhgA 101 7.26e+01 1jhgA a.4.12.1 19009 2b95A 106 7.30e+01 1b0uA 262 7.31e+01 1b0uA c.37.1.12 32370 1r8eA 278 7.35e+01 a.6.1.3,d.60.1.1 104843,104844 1kktA 511 7.35e+01 a.102.2.1 68687 1vzoA 355 7.35e+01 d.144.1.7 108971 1nh1A 330 7.39e+01 e.45.1.1 91871 1evsA 187 7.40e+01 1evsA a.26.1.1 16845 1erv 105 7.42e+01 1erv c.47.1.1 32743 1k1vA 41 7.42e+01 a.37.1.1 71999 1olmA 403 7.52e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1wzdA 215 7.55e+01 1ypyA 184 7.55e+01 1yf3A 259 7.58e+01 1u9iA 519 7.59e+01 1z90A 469 7.60e+01 1vp8A 201 7.60e+01 1iw0A 215 7.60e+01 a.132.1.1 83720 1yqgA 263 7.61e+01 1mj3A 260 7.62e+01 c.14.1.3 79183 1s9pA 227 7.63e+01 a.123.1.1 105384 1lqtA 456 7.67e+01 c.3.1.1,c.4.1.1 74198,74199 1dmhA 311 7.73e+01 1dmhA b.3.6.1 22633 1y08A 323 7.75e+01 2cvdA 198 7.75e+01 1oeyJ 107 7.78e+01 d.15.2.2 92804 1fo8A 343 7.81e+01 1foaA c.68.1.10 59927 1oe8A 211 7.85e+01 a.45.1.1,c.47.1.5 86905,86906 2b3yA 888 7.85e+01 1v5iB 76 7.86e+01 1tqhA 247 7.89e+01 c.69.1.29 107225 1gs9A 165 7.94e+01 a.24.1.1 83313 1ln4A 104 7.97e+01 d.68.4.1 74043 1qznA 173 7.99e+01 b.2.2.2 104669 1u1tA 82 8.08e+01 1u1sA 82 8.10e+01 1b0nB 57 8.11e+01 1b0nB a.34.1.1 17002 1ev0A 58 8.13e+01 1ev0A d.71.1.1 39594 2f6uA 234 8.15e+01 1r9lA 309 8.18e+01 c.94.1.1 97262 1swvA 267 8.21e+01 1m2dA 110 8.35e+01 c.47.1.11 78476 1xzoA 174 8.46e+01 1lm4A 194 8.46e+01 d.167.1.1 84626 1iyhA 198 8.49e+01 a.45.1.1,c.47.1.5 83790,83791 1b8zA 90 8.53e+01 1huuA a.55.1.1 17902 1o50A 157 8.55e+01 d.37.1.1,d.37.1.1 92478,92479 1h3oB 76 8.55e+01 a.22.1.3 76645 1kb9B 352 8.56e+01 d.185.1.1,d.185.1.1 77313,77314 1ufbA 127 8.59e+01 a.24.16.3 99331 1jnmA 62 8.66e+01 h.1.3.1 84181 2ap3A 199 8.72e+01 1ow1A 195 8.72e+01 b.131.1.3 93625 1wq6A 72 8.73e+01 1y97A 238 8.73e+01 1ka2A 499 8.74e+01 d.92.1.5 77305 1t6cA 315 8.81e+01 c.55.1.8,c.55.1.8 106558,106559 1vf6A 83 8.83e+01 a.194.1.1 100600 1v0lA 313 8.86e+01 c.1.8.3 108207 1uozA 315 8.89e+01 1ir6A 424 8.89e+01 c.107.1.2 71342 1r44A 202 8.93e+01 d.65.1.4 104787 1a6m 151 8.96e+01 1a6m a.1.1.2 15018