# List of top-scoring protein chains for t06-100-30-str2-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 1dnlA 199 5.87e-13 1ci0A b.45.1.1 25753 1g79A 218 5.89e-13 1ci0A b.45.1.1 25752 1nrgA 261 2.77e-12 b.45.1.1 80694 1ty9A 222 3.29e-11 2fhqA 141 4.07e-11 1rfeA 162 7.88e-11 1vl7A 157 1.97e-09 b.45.1.1 108732 2fg9A 178 3.76e-09 2asfA 137 5.21e-09 2arzA 247 1.64e-08 2aq6A 147 2.76e-08 1w9aA 147 3.68e-08 2furA 209 3.42e-07 1w3oA 216 1.43e-06 1flmA 122 1.75e-06 1axj b.45.1.1 25747 1xhnA 184 2.05e-06 1ejeA 192 8.62e-03 1ejeA b.45.1.2 25757 1z4vA 532 1.75e-01 1oa4A 222 5.56e-01 b.29.1.11 86731 1ko3A 230 5.80e-01 d.157.1.1 90974 1b7yA 350 1.04e+00 1pysA d.104.1.1 40776 2d37A 176 1.07e+00 1k8kD 300 1.33e+00 d.198.2.1,d.198.2.1 68309,68310 1rz1A 161 1.35e+00 b.45.1.2 98124 1ww7A 160 1.49e+00 1y08A 323 1.67e+00 2bgiA 272 2.02e+00 1bj7 156 2.22e+00 1bj7 b.60.1.1 27113 1i0rA 169 2.28e+00 1i0rA b.45.1.2 61489 1q6uA 245 2.94e+00 d.26.1.1 95998 1lrzA 426 3.27e+00 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1ylnA 252 3.31e+00 1iwmA 186 3.55e+00 b.125.1.2 83758 1wbiA 129 3.69e+00 1q6hA 224 3.87e+00 d.26.1.1 95975 1uscA 178 4.25e+00 b.45.1.2 99860 1pvtA 238 4.29e+00 c.74.1.1 95189 2a1vA 144 4.66e+00 1a8d 452 6.31e+00 1a8d b.29.1.6,b.42.4.2 24262,25607 1yoaA 159 6.90e+00 1zzkA 82 7.43e+00 2gibA 103 7.92e+00 2fp8A 322 8.15e+00 1jjtA 228 8.19e+00 1a7tA d.157.1.1 63139 1c8uA 285 8.79e+00 1c8uA d.38.1.3,d.38.1.3 38547,38548 1gvp 87 8.96e+00 1gvp b.40.4.7 25369 1qyaA 307 9.12e+00 d.21.1.2,d.21.1.2 104653,104654 2nlrA 234 9.25e+00 2nlrA b.29.1.11 24344 1gt1A 159 9.66e+00 b.60.1.1 90515 1wj9A 211 9.86e+00 1rocA 155 1.01e+01 b.1.22.1 97673 1widA 130 1.04e+01 1sdjA 310 1.04e+01 d.21.1.2,d.21.1.2 98807,98808 1agqA 135 1.05e+01 1agqA g.17.1.2 44789 2cw5A 255 1.09e+01 2d1sA 548 1.09e+01 1lbvA 252 1.18e+01 e.7.1.1 73813 1nszA 347 1.20e+01 b.30.5.4 80724 1aisA 182 1.20e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1s5jA 847 1.21e+01 2f15A 96 1.22e+01 2fe7A 166 1.25e+01 1vmfA 145 1.25e+01 1wocA 103 1.31e+01 1w8oA 601 1.32e+01 2bitX 165 1.33e+01 1vyoA 128 1.36e+01 2bh8A 101 1.38e+01 1tuhA 156 1.42e+01 d.17.4.11 107345 1b8aA 438 1.47e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 2bkrA 212 1.51e+01 1mhnA 59 1.57e+01 b.34.9.1 84964 2bklA 695 1.60e+01 1i24A 404 1.70e+01 c.2.1.2 83663 1cruA 454 1.70e+01 1c9uA b.68.2.1 27617 1tdhA 364 1.70e+01 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1wlgA 299 1.71e+01 1m40A 263 1.71e+01 e.3.1.1 74437 1y55X 126 1.71e+01 1f60A 458 1.73e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2d9rA 104 1.77e+01 1twfK 120 1.78e+01 1wvhA 134 1.79e+01 1vphA 149 1.80e+01 2gjgA 248 1.82e+01 1p35A 299 1.83e+01 1p35A b.28.1.1 23925 2cx1A 187 1.83e+01 1j58A 385 1.85e+01 b.82.1.2 71531 1mdbA 539 1.88e+01 e.23.1.1 79008 1rypJ 204 2.06e+01 d.153.1.4 41878 1v0wA 506 2.07e+01 d.136.1.2,d.136.1.2 108220,108221 1zvkA 358 2.08e+01 1vmjA 151 2.08e+01 2fgtA 417 2.09e+01 1vqzA 341 2.09e+01 1x54A 434 2.10e+01 1nrwA 288 2.15e+01 c.108.1.10 86128 1z52A 470 2.15e+01 1vlyA 338 2.16e+01 b.44.2.1,d.250.1.1 108871,108872 1qhdA 398 2.17e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 2fauA 341 2.24e+01 1vqoE 178 2.33e+01 1rypK 198 2.33e+01 d.153.1.4 41879 1ecfA 504 2.34e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1zd7A 159 2.35e+01 2bbeA 108 2.41e+01 1l0qA 391 2.45e+01 b.1.3.1,b.69.2.3 77644,77645 1kr4A 125 2.53e+01 d.58.5.2 72889 1ta3A 274 2.60e+01 c.1.8.5 106731 7ahlA 293 2.61e+01 7ahlA f.6.1.1 43812 1vk8A 106 2.67e+01 d.58.48.1 108636 1pbyA 489 2.71e+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 1goiA 499 2.74e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 2bgcA 238 2.82e+01 1lq9A 112 2.85e+01 d.58.4.3 78129 1xnzA 264 2.89e+01 1quqB 121 2.95e+01 1quqB b.40.4.3 25305 1vclA 432 2.96e+01 b.42.2.1,b.42.2.1,d.281.1.1 108498,108499,108500 2cwzA 141 2.98e+01 2a9sA 171 3.01e+01 1pcxA 810 3.07e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 2ftrA 108 3.09e+01 1z0nA 96 3.09e+01 1wsrA 375 3.20e+01 1mkiA 330 3.21e+01 e.3.1.2 84994 1rkiA 102 3.23e+01 1qsmA 152 3.24e+01 1qsmA d.108.1.1 40808 1xqbA 247 3.24e+01 1yndA 165 3.30e+01 1vkkA 154 3.33e+01 d.109.1.2 108669 2gp4A 628 3.38e+01 2cwsA 237 3.39e+01 1ckmA 330 3.41e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1ftrA 296 3.43e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1wi6A 88 3.44e+01 1pmi 440 3.47e+01 1pmi b.82.1.3 28114 1vcaA 202 3.48e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1p5vA 235 3.50e+01 b.1.11.1,b.7.2.1 87812,87813 1zx5A 300 3.52e+01 1sqwA 188 3.55e+01 1dzkA 157 3.61e+01 1obpA b.60.1.1 27096 2ga9D 469 3.63e+01 1iejA 332 3.65e+01 1nnt c.94.1.2 62328 1epfA 191 3.66e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1vmhA 144 3.66e+01 1zsyA 357 3.67e+01 2ggcA 263 3.67e+01 1yfnA 118 3.74e+01 1bywA 110 3.77e+01 1bywA d.110.3.6 40912 1kyqA 274 3.77e+01 c.2.1.11,e.37.1.1 73281,73282 1rypL 212 3.81e+01 d.153.1.4 41880 1p4kA 295 3.81e+01 d.153.1.5 87772 2bu3A 254 3.83e+01 1h2bA 359 3.86e+01 b.35.1.2,c.2.1.1 90543,90544 2arpA 116 3.91e+01 2cfxA 144 3.92e+01 1jb0D 138 3.98e+01 1jb0D d.187.1.1 62823 1wluA 136 4.05e+01 1g291 372 4.07e+01 1g291 1k0mA 241 4.07e+01 a.45.1.1,c.47.1.5 67949,67950 1y4hA 188 4.13e+01 1pjxA 314 4.16e+01 b.68.6.1 104167 1pfsA 78 4.18e+01 1pfsA b.40.4.7 25391 1pxvA 183 4.19e+01 d.3.1.1 95301 1at0 145 4.23e+01 1at0 b.86.1.1 28374 1jssA 224 4.28e+01 d.129.3.2 71844 1lf7A 182 4.35e+01 b.60.1.1 73878 1v5vA 401 4.44e+01 2exrA 524 4.48e+01 1rypH 205 4.52e+01 d.153.1.4 41876 1u6tA 121 4.56e+01 1xfsA 178 4.61e+01 d.129.3.5 109589 1vkbA 161 4.61e+01 d.269.1.1 108643 1q2lA 939 4.66e+01 1z4rA 168 4.70e+01 1z5bA 469 4.70e+01 1h6tA 291 4.71e+01 b.1.18.15,c.10.2.1 65686,65687 1vajA 214 4.74e+01 1ka1A 357 4.75e+01 e.7.1.1 68369 1tkeA 224 4.77e+01 1sq9A 397 4.81e+01 b.69.4.1 105889 1ycoA 279 4.81e+01 1s3rA 535 4.81e+01 1cjaA 342 4.85e+01 1cjaA d.144.1.3 41708 1gp0A 143 4.86e+01 b.64.1.1 70300 1exqA 154 4.87e+01 1b9dA c.55.3.2 33646 1wp5A 323 4.88e+01 1lfdA 87 4.89e+01 1lfdA d.15.1.5 37622 1xedA 117 4.92e+01 1v3eA 431 4.93e+01 b.68.1.1 100287 1ub9A 100 4.94e+01 a.4.5.28 99159 2f9zC 159 4.95e+01 1j5pA 253 4.97e+01 d.81.1.3,c.2.1.3 71577,83092 1q40B 219 5.09e+01 d.17.4.2 95771 1n67A 359 5.12e+01 b.2.3.4,b.2.3.4 85354,85355 1wznA 252 5.12e+01 1b6a 478 5.13e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1cr5A 189 5.18e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1se8A 301 5.18e+01 b.40.4.3 105448 1w6sA 599 5.19e+01 1pg4A 652 5.22e+01 e.23.1.1 88067 1on0A 158 5.24e+01 d.108.1.1 87095 1j1yA 136 5.30e+01 d.38.1.5 90776 2cveA 191 5.33e+01 1ysjA 404 5.34e+01 2bl9A 238 5.35e+01 1b4bA 71 5.41e+01 1b4aA d.74.2.1 39718 2c78A 405 5.43e+01 1te0A 318 5.43e+01 1w2iA 91 5.45e+01 d.58.10.1 109127 1o7fA 469 5.46e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1ox0A 430 5.47e+01 c.95.1.1,c.95.1.1 87495,87496 1mkaA 171 5.49e+01 1mkaA d.38.1.2 38543 1gvjA 146 5.49e+01 a.4.5.21 90525 1w94A 156 5.51e+01 2d0oA 610 5.52e+01 1aba 87 5.54e+01 1aba c.47.1.1 32760 1m5q1 130 5.56e+01 2aotA 292 5.56e+01 1os8A 223 5.59e+01 b.47.1.1 93481 1qd1A 325 5.65e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 2czrA 226 5.67e+01 1cg2A 393 5.70e+01 1cg2A c.56.5.4,d.58.19.1 33844,39360 1jofA 365 5.70e+01 b.69.10.1 71775 1xtzA 264 5.75e+01 1txuA 273 5.75e+01 a.222.1.1 107439 1jfuA 186 5.79e+01 c.47.1.10 62940 1e5dA 402 5.82e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1kb0A 677 5.83e+01 a.3.1.6,b.70.1.1 68378,68379 1qx4A 274 5.86e+01 b.43.4.2,c.25.1.1 104624,104625 1nbcA 155 5.93e+01 1nbcA b.2.2.2 22390 1v4pA 157 5.94e+01 1h09A 338 5.98e+01 b.109.1.1,c.1.8.8 83420,83421 2f06A 144 6.01e+01 1ksiA 642 6.02e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1dkzA 219 6.02e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1vqoX 92 6.07e+01 1uesA 191 6.09e+01 a.2.11.1,d.44.1.1 107798,107799 2bc4A 211 6.10e+01 1xteA 154 6.11e+01 1ri6A 343 6.25e+01 b.69.11.1 97503 1a6q 382 6.26e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1ihgA 370 6.31e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1vpsA 289 6.32e+01 1vpsA b.121.6.1 23336 1r9hA 135 6.34e+01 d.26.1.1 97260 4bcl 366 6.35e+01 4bcl b.75.1.1 27968 1qwdA 177 6.40e+01 b.60.1.1 96471 1zeqX 84 6.42e+01 1wvqA 167 6.43e+01 1io1A 398 6.43e+01 1io1A e.32.1.1 62611 1r45A 204 6.44e+01 1jnyA 435 6.44e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2dg5B 190 6.45e+01 1i4fA 275 6.49e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1rloA 271 6.52e+01 2acaA 189 6.55e+01 2bcjB 340 6.58e+01 1kolA 398 6.59e+01 b.35.1.2,c.2.1.1 77474,77475 2db2A 119 6.66e+01 1y0hA 105 6.70e+01 2bjrA 368 6.70e+01 1ee8A 266 6.71e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2cu5A 129 6.73e+01 1s57A 153 6.74e+01 1j5wA 298 6.74e+01 d.104.1.1 71589 1y9wA 140 6.76e+01 2cr4A 126 6.76e+01 2givA 295 6.78e+01 1mqeA 207 6.86e+01 d.113.1.1 91394 2fjrA 189 6.92e+01 1clc 639 6.94e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1zx4A 192 6.96e+01 2ar1A 172 7.00e+01 1w4sA 174 7.02e+01 1o4rA 108 7.03e+01 d.93.1.1 92469 1lm8V 160 7.03e+01 b.3.3.1 74035 1zatA 250 7.03e+01 1uzxA 169 7.04e+01 d.20.1.2 100238 2bnmA 198 7.05e+01 1zkkA 167 7.06e+01 2bvbA 137 7.07e+01 1twfI 122 7.10e+01 1vpbA 451 7.12e+01 1e5mA 416 7.15e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 2c4xA 260 7.16e+01 2avtA 378 7.17e+01 1oo0A 147 7.23e+01 d.232.1.1 87182 1yemA 179 7.23e+01 2bvfA 459 7.25e+01 1ywxA 102 7.25e+01 1u58A 253 7.26e+01 1rlhA 173 7.35e+01 d.256.1.1 97646 1r3dA 264 7.40e+01 1zvhA 134 7.41e+01 2a5zA 262 7.42e+01 1llnA 262 7.47e+01 d.165.1.1 84625 1wubA 178 7.50e+01 1gppA 237 7.52e+01 b.86.1.2 76262 1xdpA 687 7.54e+01 1q15A 503 7.58e+01 c.26.2.1,d.153.1.1 95538,95539 1t6gC 184 7.59e+01 b.29.1.11 106569 1i9zA 347 7.59e+01 1i9yA d.151.1.2 62102 1cv8 174 7.67e+01 1cv8 d.3.1.1 37089 1tqnA 486 7.75e+01 a.104.1.1 107238 1lvmA 229 7.76e+01 b.47.1.3 78243 1sczA 233 7.78e+01 c.43.1.1 98802 1zcxA 178 7.81e+01 2fhzB 108 7.87e+01 1wu7A 434 7.88e+01 2bbkH 355 8.05e+01 2bbkH b.69.2.1 27634 1e2wA 251 8.09e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 2c1lA 358 8.09e+01 1x0oA 119 8.17e+01 2eveA 157 8.23e+01 1xeuA 263 8.23e+01 1xxlA 239 8.24e+01 2gi3A 476 8.28e+01 1stzA 338 8.32e+01 a.4.5.51,d.110.2.3 106009,106010 2azpA 318 8.38e+01 1e4fT 419 8.39e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 1fp2A 352 8.39e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1wgrA 100 8.42e+01 1kv7A 488 8.44e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1z90A 469 8.49e+01 1gotB 340 8.49e+01 1tbgA b.69.4.1 27648 1dgfA 497 8.52e+01 1cf9A e.5.1.1 42782 1ukuA 102 8.57e+01 d.58.5.2 99533 2gpjA 252 8.59e+01 1aoeA 192 8.60e+01 1aoeA c.71.1.1 34923 1me4A 215 8.61e+01 d.3.1.1 79023 1rgyA 360 8.61e+01 e.3.1.1 97456 1i7nA 309 8.62e+01 c.30.1.5,d.142.1.3 83681,83682 1h4vB 421 8.64e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1n6aA 259 8.71e+01 b.76.2.1,b.85.7.1 80121,80122 1xuvA 178 8.74e+01 1z02A 446 8.83e+01 2bjfA 329 8.90e+01 1y7bA 542 8.90e+01 1s5aA 150 8.94e+01 d.17.4.10 98525 1n8jA 186 8.94e+01 c.47.1.10 85401 1vjpA 394 8.94e+01 c.2.1.3,d.81.1.3 100828,100829 2df7A 458 8.99e+01