# 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 1y8qA 346 1.53e-01 1sgvA 316 2.53e-01 b.122.1.1,d.265.1.2 98858,98859 1r3eA 309 3.88e-01 b.122.1.1,d.265.1.2 96907,96908 1a99A 344 1.19e+00 1pot c.94.1.1 35812 1ytvA 366 1.51e+00 2cybA 323 1.67e+00 1anf 370 1.72e+00 4mbp c.94.1.1 35776 1ww9A 392 1.73e+00 1j34B 123 1.73e+00 d.169.1.1 84049 2faoA 309 1.87e+00 1jg5A 83 2.08e+00 d.205.1.1 66666 1wm3A 72 2.29e+00 1z02A 446 2.37e+00 1fyhB 229 2.59e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 1yemA 179 3.34e+00 3seb 238 4.03e+00 3seb b.40.2.2,d.15.6.1 25184,37773 1xgsA 295 4.28e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1xkzA 255 4.98e+00 1yqfA 203 5.82e+00 1k8wA 327 5.93e+00 b.122.1.1,d.265.1.2 83094,90388 2gupA 292 5.93e+00 1u20A 212 6.19e+00 1e5dA 402 6.34e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1t0hB 224 6.47e+00 c.37.1.1 106208 2gtqA 867 6.57e+00 2f20A 240 6.85e+00 2c4wA 176 7.15e+00 1vjeA 166 7.39e+00 d.185.1.2 100807 1bkpA 278 8.85e+00 1bkpA d.117.1.1 41029 1ockA 412 9.03e+00 c.117.1.1 86802 1fukA 165 9.03e+00 1fukA c.37.1.19 32409 2cvlA 124 9.13e+00 1j8rA 196 9.24e+00 1j8rA b.2.3.3 62745 1f0xA 571 9.59e+00 1f0xA d.58.32.2,d.145.1.1 39483,41746 1nh0A 99 9.86e+00 b.50.1.1 91869 1n3lA 372 9.98e+00 c.26.1.1 79966 1eo1A 124 1.04e+01 1eo1A c.55.5.1 33739 1s2oA 244 1.05e+01 1vmjA 151 1.06e+01 3il8 72 1.07e+01 1tvxA d.9.1.1 37356 1yzhA 214 1.08e+01 2b9eA 303 1.10e+01 1k55A 246 1.11e+01 e.3.1.1 68156 1f1uA 323 1.15e+01 d.32.1.3,d.32.1.3 83200,83201 1vpqA 273 1.16e+01 1iukA 140 1.20e+01 c.2.1.8 83712 1b6a 478 1.20e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1xuuA 349 1.20e+01 2f7fA 494 1.24e+01 1qo7A 394 1.27e+01 1qo7A c.69.1.11 34697 1l8bA 190 1.34e+01 d.86.1.1 73683 1f1xA 322 1.34e+01 d.32.1.3,d.32.1.3 83208,83209 2ewcA 126 1.35e+01 2bvcA 486 1.38e+01 1y60A 169 1.39e+01 1tw7A 99 1.42e+01 1hf2A 210 1.48e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1r31A 428 1.51e+01 d.58.20.1,d.179.1.1 96897,96898 1k38A 254 1.55e+01 e.3.1.1 84303 1q5yA 85 1.57e+01 d.58.18.4 95950 1qwgA 251 1.57e+01 c.1.27.1 96473 1j3mA 129 1.57e+01 d.129.7.1 103836 2fhzA 109 1.62e+01 2fp7B 172 1.65e+01 1reqB 637 1.65e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1jg1A 235 1.67e+01 c.66.1.7 66661 1xx6A 191 1.68e+01 1zndA 174 1.72e+01 1w41A 101 1.73e+01 1ufkA 254 1.73e+01 c.66.1.39 99340 1ta0A 197 1.79e+01 c.108.1.16 106729 2c1lA 358 1.81e+01 1wvfA 520 1.82e+01 1mbyA 88 1.83e+01 d.223.1.1 78931 1uekA 275 1.84e+01 d.14.1.5,d.58.26.5 88483,88484 2adzA 178 1.90e+01 1o22A 170 1.91e+01 d.238.1.1 86557 2gcfA 73 1.91e+01 2gwgA 350 1.93e+01 1brwA 433 1.98e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2acy 98 1.99e+01 2acy d.58.10.1 39298 1o0xA 262 2.05e+01 d.127.1.1 80755 1rxyA 253 2.07e+01 c.56.2.1 98065 1nf2A 268 2.08e+01 c.108.1.10 91849 1k07A 263 2.11e+01 d.157.1.1 77218 1va4A 279 2.13e+01 c.69.1.12 108458 1z08A 170 2.13e+01 1u7lA 392 2.14e+01 2g30A 258 2.15e+01 1opjA 293 2.15e+01 d.144.1.7 87230 2d5cA 263 2.17e+01 2apoA 357 2.19e+01 1v25A 541 2.21e+01 e.23.1.1 108275 2gcc 70 2.26e+01 2gcc d.10.1.2 37484 1e42A 258 2.26e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1mp9A 198 2.27e+01 d.129.1.1,d.129.1.1 91385,91386 1e0bA 68 2.30e+01 1e0bA b.34.13.2 37476 2ggcA 263 2.33e+01 1n6zA 105 2.38e+01 d.263.1.1 85369 1gnkA 112 2.41e+01 2pii d.58.5.1 39073 1qy1A 174 2.42e+01 b.60.1.1 96568 1kq6A 141 2.43e+01 d.189.1.1 91020 1ve0A 134 2.43e+01 1epfA 191 2.46e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1m6kA 251 2.47e+01 e.3.1.1 78695 2f5gA 133 2.49e+01 1hyvA 166 2.52e+01 1b9dA c.55.3.2 61424 1vchA 175 2.52e+01 1qh5A 260 2.53e+01 1qh5A d.157.1.2 42057 1xnzA 264 2.53e+01 2b3yA 888 2.54e+01 1wj9A 211 2.57e+01 1ju3A 583 2.57e+01 b.18.1.13,c.69.1.21 67300,67301 1wzcA 249 2.59e+01 1izmA 184 2.59e+01 a.199.1.1 90725 1fmb 104 2.60e+01 1fmb b.50.1.1 26777 2bkrA 212 2.61e+01 1qysA 106 2.63e+01 k.41.1.1 96603 1t6aA 126 2.65e+01 d.129.8.1 106555 1vl5A 260 2.65e+01 c.66.1.41 108720 1y7rA 133 2.66e+01 1fkqA 124 2.67e+01 3lzt d.2.1.2 36601 1wi1A 126 2.68e+01 1exqA 154 2.69e+01 1b9dA c.55.3.2 33646 2d8sA 80 2.81e+01 2fb0A 94 2.84e+01 1e25A 282 2.86e+01 1e25A e.3.1.1 42731 1pzxA 289 2.89e+01 c.119.1.1 95484 1thtA 305 2.94e+01 1thtA c.69.1.13 34711 1czaN 917 2.99e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1fe0A 68 3.02e+01 1cc8A d.58.17.1 39345 1ogwA 76 3.03e+01 d.15.1.1 87001 1qloA 34 3.06e+01 1qloA j.35.1.1 46281 2fblA 153 3.08e+01 1vqoU 66 3.08e+01 2a9sA 171 3.12e+01 1ldjA 760 3.15e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1yqzA 438 3.16e+01 1k2eA 156 3.18e+01 d.113.1.1 72010 1t0fA 276 3.20e+01 2a14A 263 3.27e+01 1vlmA 219 3.29e+01 c.66.1.41 108836 1jfrA 262 3.31e+01 1jfrA c.69.1.16 34724 2bolA 314 3.33e+01 1s57A 153 3.33e+01 1r1qA 100 3.33e+01 d.93.1.1 104763 1x1iA 752 3.38e+01 2fomB 185 3.43e+01 1wojA 214 3.44e+01 1nh8A 304 3.45e+01 c.94.1.1,d.58.5.3 80507,80508 2mhr 118 3.45e+01 2mhr a.24.4.1 16581 1mkiA 330 3.46e+01 e.3.1.2 84994 1v9nA 360 3.48e+01 1j6qA 136 3.52e+01 b.40.9.1 77091 1edn 21 3.54e+01 j.28.1.1 46197 1us0A 316 3.58e+01 c.1.7.1 99850 1xc3A 302 3.59e+01 1kngA 156 3.60e+01 c.47.1.10 72777 1nddA 76 3.62e+01 1ubi d.15.1.1 37599 2b8tA 223 3.65e+01 1zu0A 529 3.86e+01 1o4wA 147 3.87e+01 c.120.1.1 86629 1l1qA 186 3.88e+01 c.61.1.1 77653 1v4pA 157 3.89e+01 1y9wA 140 3.90e+01 2gi9A 56 3.93e+01 1ayaA 101 3.94e+01 1qadA d.93.1.1 40460 1wcwA 261 4.00e+01 1i8oA 114 4.00e+01 1ycc a.3.1.1 61979 2b0cA 206 4.02e+01 1wt9B 123 4.07e+01 2fi0A 81 4.09e+01 1q67A 231 4.11e+01 b.55.1.7 95960 3tss 194 4.13e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 2gf9A 189 4.14e+01 1dq3A 454 4.14e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1x74A 360 4.29e+01 1ppjF 110 4.30e+01 f.27.1.1 104262 1sqiA 393 4.35e+01 d.32.1.3,d.32.1.3 105914,105915 1s68A 249 4.37e+01 d.142.2.4 98591 2bcgY 206 4.46e+01 2acaA 189 4.49e+01 1hh1A 143 4.55e+01 1gefA c.52.1.18 61036 1o4vA 183 4.55e+01 c.23.8.1 86628 1xmpA 170 4.55e+01 1z0jA 170 4.56e+01 2bgcA 238 4.61e+01 1yj1A 76 4.61e+01 1rypL 212 4.63e+01 d.153.1.4 41880 1gci 269 4.63e+01 1gci c.41.1.1 32503 1x0rA 249 4.64e+01 1a6q 382 4.66e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1n71A 180 4.71e+01 d.108.1.1 85370 1wv9A 94 4.79e+01 1ppjB 439 4.80e+01 d.185.1.1,d.185.1.1 104254,104255 1vqoH 171 4.80e+01 1vf8A 377 4.85e+01 2g9zA 348 4.87e+01 2bpsA 81 4.94e+01 1z57A 339 4.98e+01 1dl5A 317 5.00e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1l7mA 211 5.01e+01 c.108.1.4 73664 1klrA 30 5.03e+01 g.37.1.1 72722 2bhuA 602 5.06e+01 1cqqA 180 5.08e+01 1cqqA b.47.1.4 26422 1wd7A 261 5.08e+01 1ivyA 452 5.12e+01 1ivyA c.69.1.5 34654 1dzkA 157 5.14e+01 1obpA b.60.1.1 27096 1n9lA 109 5.14e+01 d.110.3.6 85468 2ah5A 210 5.21e+01 1w6uA 302 5.27e+01 1gefA 123 5.27e+01 1gefA c.52.1.18 60465 1nrjA 158 5.30e+01 d.110.4.4 86124 1jbeA 128 5.30e+01 3chy c.23.1.1 62845 1vgjA 184 5.33e+01 1ey4A 149 5.34e+01 1snc b.40.1.1 24815 1w66A 232 5.34e+01 1ctqA 166 5.39e+01 1ctqA c.37.1.8 31965 1j0pA 108 5.43e+01 a.138.1.1 90743 1m6eX 359 5.45e+01 c.66.1.35 91188 1m7gA 211 5.48e+01 c.37.1.4 78724 2cr5A 109 5.53e+01 1x9dA 538 5.54e+01 1aohA 147 5.56e+01 1aohA b.2.2.2 22401 1yrrA 382 5.57e+01 1btkA 169 5.58e+01 1btkA b.55.1.1 26959 2agaA 190 5.61e+01 1wriA 93 5.62e+01 1vkyA 347 5.64e+01 e.53.1.1 108696 2bwqA 129 5.64e+01 1vd4A 62 5.70e+01 1nr4A 71 5.73e+01 d.9.1.1 92077 1ucnA 152 5.76e+01 d.58.6.1 99183 1d3bA 75 5.87e+01 1d3bA b.38.1.1 24798 1pot 325 5.88e+01 1pot c.94.1.1 35807 1pmy 123 5.88e+01 1bqk b.6.1.1 22888 2fexA 188 5.96e+01 1jnrB 150 5.97e+01 d.58.1.5 66969 1pjxA 314 6.02e+01 b.68.6.1 104167 1k5dB 201 6.04e+01 b.55.1.3 68169 1ysqA 193 6.05e+01 1z1zA 131 6.10e+01 2ctoA 93 6.15e+01 1h75A 81 6.22e+01 1h75A c.47.1.1 60716 1jmuB 666 6.34e+01 2fulA 178 6.39e+01 1sq2N 113 6.40e+01 b.1.1.1 105881 2d00A 109 6.44e+01 1qe3A 489 6.57e+01 2bce c.69.1.1 34630 1otkA 249 6.58e+01 a.25.1.2 93521 1vkdA 338 6.61e+01 b.67.2.4 108644 1wu7A 434 6.64e+01 1yseA 141 6.66e+01 1up8A 598 6.85e+01 a.111.1.2 99710 1jnyA 435 6.90e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1heiA 451 6.92e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1b24A 188 7.02e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 2genA 197 7.02e+01 1wurA 220 7.03e+01 1tc5A 194 7.06e+01 c.110.1.1 106752 1l7dA 384 7.07e+01 c.2.1.4,c.23.12.2 77774,77775 1mzbA 136 7.13e+01 a.4.5.42 91497 2ex2A 458 7.18e+01 1w5rA 278 7.25e+01 1j09A 468 7.29e+01 a.97.1.1,c.26.1.1 77025,77026 1cjaA 342 7.29e+01 1cjaA d.144.1.3 41708 1u6pA 56 7.30e+01 1kt6A 183 7.34e+01 b.60.1.1 84466 1zowA 313 7.34e+01 1im3D 95 7.36e+01 1im3D b.1.18.5 62568 1v95A 130 7.41e+01 c.51.1.1 108435 1n13B 113 7.42e+01 1zbfA 142 7.43e+01 2czcA 334 7.47e+01 2d1pA 140 7.48e+01 1i4uA 181 7.50e+01 b.60.1.1 61732 2aioA 269 7.51e+01 1mml 265 7.57e+01 1mml e.8.1.2 43015 1sauA 115 7.59e+01 1ub1A 133 7.65e+01 d.10.1.3 99140 1fm0E 150 7.68e+01 1fmaE d.41.5.1 38629 1eyqA 222 7.69e+01 1eypA d.36.1.1 38534 1zoiA 276 7.70e+01 1mtpB 43 7.70e+01 2cwkA 160 7.76e+01 1woqA 267 7.77e+01 c.55.1.10,c.55.1.10 109462,109463 1kdj 102 7.84e+01 1plc b.6.1.1 22864 1mlwA 301 7.85e+01 d.178.1.1 79289 2d5xA 141 7.86e+01 1wosA 364 7.98e+01 b.44.2.1,d.250.1.1 109468,109469 1cqyA 99 8.07e+01 1b9zA b.3.1.1 22527 1r6wA 322 8.08e+01 c.1.11.2,d.54.1.1 97165,97166 2bhoA 130 8.16e+01 1edg 380 8.18e+01 1edg c.1.8.3 28807 1qnrA 344 8.22e+01 1qnoA c.1.8.3 28834 1vm0A 130 8.22e+01 d.68.6.2 108873 2b99A 156 8.23e+01 1kb9B 352 8.24e+01 d.185.1.1,d.185.1.1 77313,77314 2pii 112 8.30e+01 2pii d.58.5.1 39071 1ornA 226 8.32e+01 a.96.1.1 87342 1q0qA 406 8.33e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 2gp5A 349 8.35e+01 1jm1A 204 8.39e+01 b.33.1.1 71745 1e9gA 286 8.40e+01 1wgjA b.40.5.1 59393 1u8zA 168 8.44e+01 1gx3A 284 8.46e+01 d.3.1.5 70678 1gegA 256 8.48e+01 1ybvA c.2.1.2 29888 1ng7A 60 8.48e+01 a.178.1.1 85671 2d4pA 141 8.53e+01 1ctf 74 8.54e+01 1ctf d.45.1.1 38759 1j6wA 175 8.54e+01 1j98A d.185.1.2 62663 1l7yA 94 8.63e+01 d.15.1.6 73676 1uheA 97 8.66e+01 2ethA 154 8.74e+01 1tqzA 133 8.74e+01 1o1xA 155 8.80e+01 c.121.1.1 86553 1j5wA 298 8.81e+01 d.104.1.1 71589 1zbqA 327 8.81e+01 1xer 103 8.82e+01 1xer d.58.1.3 38990 2cqeA 98 8.95e+01 1oaqH 121 8.95e+01 b.1.1.1 92707 1qftA 175 8.95e+01 1qftA b.60.1.1 27151