# List of top-scoring protein chains for t2k-w0.5-1-o_sep-0.1-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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 1ffkW 73 0.02658 g.41.8.1 45315 1jj2Y 73 0.02669 g.41.8.1 63110 1rlyA 60 0.03691 g.41.3.1 104988 3cngA 189 0.08080 1jj2Z 56 0.1354 g.41.8.2 63111 1dl6A 58 0.1846 g.41.3.1 45207 2apoB 60 0.2172 g.41.16.1 127135 2ct7A 86 0.5286 g.44.1.4 130791 1vk6A 269 0.5412 d.113.1.4,d.113.1.4,g.41.14.1 100852,111609,111610 3c0dA 119 0.6066 2rfkB 53 0.6402 2qjtA 352 0.7585 2ausB 60 0.7603 1ltlA 279 0.8261 b.40.4.11 84701 2gnrA 145 0.8716 1uaqA 158 0.9001 c.97.1.2 88386 2fmlA 273 0.9228 a.4.5.68,d.113.1.6 133778,133779 1z3aA 168 1.050 c.97.1.2 124396 1s72Z 73 1.086 g.41.8.1 105345 2riqA 160 1.158 2a8nA 144 1.167 c.97.1.2 126408 2j015 60 1.177 1ptqA 50 1.203 g.49.1.1 45349 1n0zA 45 1.277 g.41.11.1 85247 2e72A 49 1.357 1tiyA 164 1.540 c.97.1.2 107012 3bk3C 67 1.733 3c7bA 417 1.811 2nx8A 179 1.954 1v54F 98 2.024 g.41.5.3 100327 1wwrA 171 2.036 c.97.1.2 121366 1wkqA 164 2.050 c.97.1.2 109393 2gbwA 454 2.162 2b3jA 159 2.341 c.97.1.2 127787 1lv3A 68 2.432 g.39.1.9 78231 2bh0A 208 2.490 1ptq 50 3.030 2bmoA 447 3.061 b.33.1.2,d.129.3.3 128804,128805 2occF 98 3.091 g.41.5.3 45256 2hf1A 68 3.131 1shyB 551 3.334 b.69.12.1,g.16.2.1 105565,105566 2ih2A 421 3.490 1beiA 35 3.597 g.19.1.1 44877 1wdxA 69 3.821 1b71A 191 3.839 a.25.1.1,g.41.5.1 16647,45246 1s5aA 150 3.889 d.17.4.10 98525 2ctdA 96 3.940 g.37.1.1,g.37.1.1 130792,130793 1g38A 393 3.949 c.66.1.27,d.287.1.1 111567,111568 1ma3A 253 3.955 c.31.1.5 78883 1h98A 78 4.266 d.58.1.2 65743 2pvxA 54 4.290 1iroA 54 4.297 g.41.5.1 45223 1vm9A 111 4.326 b.33.1.1 108886 2conA 79 4.388 g.41.15.1 130680 6rxnA 45 4.402 g.41.5.1 45222 1yo8A 634 4.481 1yc5A 246 4.594 c.31.1.5 122910 2hvwA 184 4.635 2ckfA 454 4.886 2e4qA 109 4.963 1yk4A 52 5.081 1jocA 125 5.198 g.50.1.1,h.1.21.1 66990,66991 1m2kA 249 5.202 c.31.1.5 84754 1vqoZ 83 5.289 g.41.8.1 120387 2csbA 519 5.401 a.60.2.4,a.60.2.4,a.60.2.4,a.60.2.4,a.267.1.1 130751,130752,130753,130754,130755 2dsxA 52 5.417 g.41.5.1 131699 1eu1A 780 5.435 b.52.2.2,c.81.1.1 26903,35311 1p6oA 161 5.439 c.97.1.2 94185 2pveA 54 5.445 2qjoA 341 5.699 1iciA 256 5.953 c.31.1.5 62266 2cttA 104 6.108 1rb9A 52 6.156 g.41.5.1 45214 1ltsA 185 6.251 d.166.1.1 42229 1xpaA 122 6.265 a.6.1.2,g.39.1.5 16308,45151 1kqfA 1015 6.309 b.52.2.2,c.81.1.1 72871,72872 1dsvA 31 6.349 g.40.1.1 45174 1dx8A 70 6.438 g.41.5.1 45243 1irxA 523 6.559 a.97.1.2,c.26.1.1 71378,71379 1b2oA 54 6.628 g.41.5.1 45233 1b13A 54 6.683 g.41.5.1 45227 7fd1A 106 6.706 d.58.1.2 38953 1b2jA 54 6.728 g.41.5.1 45231 2jmoA 80 6.769 2b5lC 222 6.780 1j8eA 44 6.877 g.12.1.1 66437 2b1xA 470 6.929 b.33.1.2,d.129.3.3 127675,127676 1ro5A 201 7.002 d.108.1.3 105023 1brfA 53 7.057 g.41.5.1 45236 1cl4A 60 7.101 g.40.1.1 45171 2bngA 149 7.223 1p91A 269 7.241 c.66.1.33 94378 1dgsA 667 7.273 a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1bq9A 54 7.375 g.41.5.1 45238 1bq8A 54 7.389 g.41.5.1 45237 1eg9A 449 7.528 b.33.1.2,d.129.3.3 24443,41322 2hr7A 486 7.661 2napA 723 7.752 b.52.2.2,c.81.1.1 26926,35334 1q16A 1247 7.889 b.52.2.2,c.81.1.1 95546,95547 2de6A 392 7.966 b.33.1.2,d.129.3.3 131415,131416 1uliA 460 7.985 b.33.1.2,d.129.3.3 107921,107922 2i13A 190 8.071 k.12.1.1 136964 1sjgA 112 8.092 b.33.1.1 105647 1fqtA 112 8.100 b.33.1.1 24441 1h0hA 977 8.106 b.52.2.2,c.81.1.1 76435,76436 1x6mA 196 8.235 b.88.1.4 114920 1g8kA 825 8.271 b.52.2.2,c.81.1.1 26920,35328 1y5iA 1246 8.451 b.52.2.2,c.81.1.1 122639,122640 2v3vA 723 8.523 1rb9 53 8.786 2fdn 55 8.812 1vq2A 193 8.845 c.97.1.2 114004 4gatA 66 8.861 g.39.1.1 45100 2g84A 197 9.017 c.97.1.2 134766 2nutA 769 9.080 1q1aA 289 9.213 c.31.1.5 95561 1z02A 446 9.274 2ibtA 421 9.577 c.66.1.27,d.287.1.1 137205,137206 1gaxA 862 9.616 b.51.1.1,c.26.1.1,a.2.7.3,a.27.1.1 26893,31595,75842,75843 1k82A 268 9.807 a.156.1.2,b.113.1.1,g.39.1.8 75866,75867,75868 2fiyA 309 10.04 e.59.1.1 133540 1ajj 37 10.09 1ee8A 266 10.17 a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1ryqA 69 10.19 g.41.9.3 105126 1g8jA 825 10.31 b.52.2.2,c.81.1.1 26924,35332 1vhzA 198 10.32 d.113.1.1 100718 1xm0A 147 10.32 b.88.1.3 122140 1wd2A 60 10.36 g.44.1.1 109232 2jo6A 113 10.50 1f5yA 85 10.52 g.12.1.1,g.12.1.1 44610,44611 1l3yA 41 10.67 g.3.11.6 73558 2i5oA 39 10.93 1sl4A 155 11.08 d.169.1.1 105710 1twfL 70 11.42 g.41.9.2 112737 1aqjA 421 12.31 c.66.1.27,d.287.1.1 111563,111564 1kzfA 230 12.36 d.108.1.3 73354 1l1zA 274 12.57 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1k3xA 262 12.60 a.156.1.2,b.113.1.1,g.39.1.8 77242,77243,77244 3c7bB 366 12.66 1u5mA 73 12.71 g.27.1.2 113043 1jhdA 396 12.89 b.122.1.3,c.26.1.5 66712,66713 2v2kA 105 13.01 2pmzP 48 13.22 1l1dA 152 13.43 b.88.1.3 73452 1vfyA 73 13.44 g.50.1.1 45357 1twfI 122 13.80 g.41.3.1,g.41.3.1 112733,112734 1npoC 95 13.85 b.9.1.1 23271 1b0tA 106 14.04 d.58.1.2 38965 1ajjA 37 14.27 g.12.1.1 44609 1s5pA 235 14.36 c.31.1.5 98569 2qkdA 404 14.46 1q98A 165 14.69 c.47.1.10 96253 1npoA 95 15.30 b.9.1.1 23270 2d8qA 70 15.33 g.85.1.1 131335 1ndoA 449 15.48 b.33.1.2,d.129.3.3 24444,41323 1xbtA 193 16.52 c.37.1.24,g.39.1.14 115080,115081 1gntA 553 16.61 e.26.1.1 70290 2fcwB 80 16.95 g.12.1.1,g.12.1.1 133289,133290 3bm4A 210 17.00 2e7zA 727 17.31 1wjnA 97 17.53 d.15.1.1 114703 2baiA 32 17.55 g.87.1.1 128237 1tuhA 156 17.56 d.17.4.11 107345 2gb4A 252 17.90 2bs6A 90 17.96 2oap1 511 18.02 2vil 126 18.26 1l5cA 92 18.29 b.9.1.1 73577 1th5A 74 18.31 d.52.8.1 119263 1lkoA 191 18.38 a.25.1.1,g.41.5.1 78063,78064 2hjhA 354 18.76 2jrpA 81 18.82 2ba1A 179 19.08 1ryt 190 19.19 2vpzA 765 19.25 2jrrA 67 19.48 1w4rA 195 19.59 1lml 478 19.68 2admA 421 19.98 c.66.1.27,d.287.1.1 111611,111612 2hldG 278 20.25 1h8eG 272 20.41 c.49.2.1 60756 2owaA 138 20.51 1vqo3 92 20.81 1cr8A 42 20.92 g.12.1.1 44613 1l8dA 112 21.30 h.4.12.1 73687 2cy9A 140 21.82 d.38.1.5 131019 1gh9A 71 22.17 g.41.6.1 45266 1jjdA 55 22.28 g.46.1.1 63116 1dvpA 220 22.38 a.118.9.2,g.50.1.1 19216,45358 1jy2P 48 23.06 h.1.8.1 67442 1o13A 136 23.32 c.55.5.1 80762 1u5kA 244 23.47 b.40.4.13,g.45.1.2 113038,113039 2i7fA 108 23.57 1nwwA 149 23.84 d.17.4.8 86306 2g45A 129 24.03 1mfwA 107 24.27 d.15.11.1 84940 3c5kA 109 24.38 1qxfA 66 24.49 g.41.8.4 96527 2ivfB 352 24.88 1g0sA 209 24.90 d.113.1.1 60187 2de6D 115 24.94 1bv8A 138 24.98 b.2.4.1 22430 1t3vA 124 25.01 c.55.5.1 112232 1x3zA 335 25.27 d.3.1.4 121673 2p57A 144 25.66 1mzbA 136 26.49 a.4.5.42 91497 2jvmA 80 26.54 2bx9A 53 26.86 1vqo1 57 26.98 1kte 105 27.01 1a1tA 55 27.07 g.40.1.1 45165 1a7iA 81 27.11 g.39.1.3,g.39.1.3 45143,45144 1yfuA 174 27.15 b.82.1.20 123094 1xx6A 191 27.15 c.37.1.24,g.39.1.14 116139,116140 1qw2A 102 27.44 d.249.1.1 96456 2iqjA 134 27.50 2pg3A 232 27.58 2j6aA 141 27.74 2b4yA 271 27.90 c.31.1.5 127868 1knwA 425 28.00 b.49.2.3,c.1.6.1 90969,90970 2olmA 140 28.44 1hdlA 55 28.83 g.68.1.2 65808 2atrA 138 29.50 d.108.1.1 127305 2q3wA 111 29.80 b.33.1.1 139813 1hyiA 65 30.92 g.50.1.1 61406 2bn2A 95 31.73 b.9.1.1 23266 1lt3A 240 31.77 d.166.1.1 42230 2f8lA 344 32.03 c.66.1.45 133132 1p3y1 194 32.10 2eppA 66 32.24 1x3xA 82 32.32 1mmcA 30 32.56 g.3.1.2 44061 2nutB 753 32.92 1ykfA 352 33.25 b.35.1.2,c.2.1.1 24757,29773 1zoyB 252 33.55 1j8fA 323 33.56 c.31.1.5 62738 3bwwA 307 33.74 2gliA 160 33.80 g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1,g.37.1.1 45041,45042,45043,45044,45045 1k8kC 372 33.86 b.69.4.1 68308 2b8tA 223 33.95 c.37.1.24,g.39.1.14 128109,128110 1e79G 272 34.10 c.49.2.1 33158 1boeA 47 34.25 g.3.9.1 44187 2v0cA 878 34.40 2bs2B 241 34.68 a.1.2.1,d.15.4.2 129033,129034 1b8sA 504 35.02 c.3.1.2,d.16.1.1 30335,37866 1o9gA 250 35.04 c.66.1.29 86692 2gmgA 105 36.01 1wqkA 42 36.13 1erdA 40 36.61 a.10.1.1 16362 2h88B 252 36.70 2aqaA 63 37.02 g.41.16.1 127168 1s1dA 331 37.07 b.67.3.1 98344 1x6vA 630 37.25 b.122.1.3,c.26.1.5,c.37.1.4 121755,121756,121757 2fe3A 145 37.32 1g73C 121 37.84 g.52.1.1 45375 1jk4A 89 38.08 b.9.1.1 77130 2fs2A 151 38.13 d.38.1.5 134003 1g7eA 122 38.35 c.47.1.7 33055 2orwA 184 38.43 1wo3A 25 38.45 1pedA 351 38.54 b.35.1.2,c.2.1.1 24753,29769 1kbeA 49 38.63 g.49.1.1 68380 2e74D 179 38.86 b.33.1.1,f.23.12.1 132049,132050 1bw3A 125 39.10 b.52.1.2 26899 2iv2X 715 39.64 b.52.2.2,c.81.1.1 137714,137715 3cxkA 164 40.16 1y02A 120 40.35 a.140.2.1,g.50.1.1 116278,116279 2fbwB 252 40.53 2ck3G 272 40.82 c.49.2.1 130562 1eyoA 30 41.01 g.3.6.1 44098 1pl8A 356 41.07 b.35.1.2,c.2.1.1 94878,94879 1zy7A 403 41.35 1gatA 60 41.41 g.39.1.1 45106 1kevA 351 41.68 b.35.1.2,c.2.1.1 24749,29765 1e3jA 352 41.92 b.35.1.2,c.2.1.1 24765,29781 2cdcA 366 42.82 1obpA 159 43.40 b.60.1.1 27092 2jdiG 273 43.70 c.49.2.1 138272 1zkiA 133 43.87 d.38.1.5 125199 1o7nA 449 43.95 b.33.1.2,d.129.3.3 81162,81163 1p0fA 373 44.18 b.35.1.2,c.2.1.1 87642,87643 1wqjB 80 44.36 1wo6A 25 45.12 2yrkA 55 45.51 1n35A 1267 45.67 e.8.1.4 79935 1ovnA 248 45.84 a.71.1.1,c.47.1.7 93602,93603 2idaA 102 46.45 1yukB 120 46.60 2nswA 60 46.87 2gatA 66 47.04 g.39.1.1 45102 1kxoA 184 47.14 b.60.1.1 84475 1jqbA 351 48.03 b.35.1.2,c.2.1.1 77151,77152 1kolA 398 48.07 b.35.1.2,c.2.1.1 77474,77475 1eueA 86 48.24 d.120.1.1 59504 1ldjB 90 48.80 g.44.1.1 73850 1yymG 313 48.85 d.172.1.1 124232 1jvbA 347 48.99 b.35.1.2,c.2.1.1 77181,77182 1gmyA 261 49.38 d.3.1.1 76236 1ayoA 130 50.13 b.2.4.1 22431 2r0lB 35 50.86 1u3wA 374 50.88 b.35.1.2,c.2.1.1 113013,113014 2hd5A 359 51.13 1b0vA 106 51.56 d.58.1.2 38982 2qgvA 140 51.56 1oqqA 106 51.60 d.15.4.1 93422 1eo1A 124 51.84 c.55.5.1 33739 1icwA 72 52.03 d.9.1.1 37357 1a1gA 90 52.05 g.37.1.1,g.37.1.1,g.37.1.1 45010,45011,45012 2poiA 94 52.11 2j01V 101 52.18 2d8aA 348 52.27 2iafA 151 52.76 d.81.2.1 137157 2vrwB 406 52.94 1zbdB 134 53.31 g.50.1.1 45359 2p35A 259 53.53 1f3hA 142 53.56 g.52.1.1 45381 2d9kA 75 53.71 2h2tB 175 53.83 1fu9A 36 54.20 g.37.1.2 45074 3ch0A 272 54.73 2agkA 260 55.15 1wo7A 25 55.50 1cyoA 93 55.71 d.120.1.1 41065 2ohxA 374 56.15 b.35.1.2,c.2.1.1 24669,29685 1cxyA 90 56.63 d.120.1.1 41085 2i00A 406 57.31 1keoA 154 58.01 b.64.1.1 68534 1r4yA 136 58.45 d.1.1.3 97056 1a1hA 90 58.51 g.37.1.1,g.37.1.1,g.37.1.1 45004,45005,45006 1fljA 260 58.60 b.74.1.1 27954 1de3A 150 58.91 d.1.1.3 36240 1ss3A 50 59.76 g.2.3.1 105975 1d4xG 126 60.14 d.109.1.1 59109 1ile 821 60.15 1bs9 207 60.58 1mj4A 82 60.61 d.120.1.1 79189 1sjwA 144 60.68 d.17.4.9 98899 1tjlA 151 60.68 a.2.14.1,g.39.1.13 107027,107028 2htuA 390 60.71 1ee2A 373 60.89 b.35.1.2,c.2.1.1 24663,29679 1uv0A 149 61.61 d.169.1.1 100028 1qdpA 42 61.77 g.3.6.2 44113 2nvaA 372 62.63 2ivfA 976 62.73 2hnuA 81 63.20 1e1dA 553 63.45 e.26.1.1 43363 2gelA 231 63.91 1vehA 92 64.22 d.52.8.1 113635 1nykA 165 64.54 b.33.1.1 86408 1lqxA 82 65.26 d.120.1.1 78153 3d9tA 97 65.46 2pspA 106 65.93 g.16.1.1,g.16.1.1 44730,44731 1lugA 259 65.97 b.74.1.1 91127 1t44G 147 65.99 d.109.1.1 106395 1lb3A 182 66.44 a.25.1.1 77873 1awpA 92 66.77 d.120.1.1 41071 1zntA 31 67.06 1jd0A 263 67.64 b.74.1.1 62888 1h2bA 359 67.71 b.35.1.2,c.2.1.1 90543,90544 2c7nA 74 68.08 g.39.1.15 130069 2b5wA 357 68.50 2vm5A 106 69.45 1c2uA 35 70.01 g.19.1.1 44878 1hxrA 115 70.54 b.88.1.1 28392 2geyA 158 70.55 2f0xA 148 71.02 d.38.1.5 132673 2amdA 311 71.07 1yuiA 54 71.48 g.37.1.1 45073 1ug1A 92 71.56 b.34.2.1 99360 1n71A 180 71.57 d.108.1.1 85370 1isiA 265 72.89 c.23.14.3 71394 1fwqA 123 73.31 b.88.1.1 28394 2cjsC 62 73.67 1d7kA 421 73.70 b.49.2.3,c.1.6.1 26486,28648 1a15A 67 74.31 d.9.1.1 37451 1h7xA 1025 74.42 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1zncA 266 74.54 b.74.1.1 27955 1lj0A 92 75.25 d.120.1.1 78019 1kj1D 109 75.53 b.78.1.1 68639 2uvlA 96 75.67 2okcA 445 75.84 2diuA 96 75.84 2oizD 135 76.04 1sdwA 314 78.91 b.121.1.2,b.121.1.2 98810,98811 1f5xA 208 81.45 a.87.1.1 18516 1p90A 145 82.29 c.55.5.2 94377 1wflA 74 82.44 g.80.1.1 114586 1zatA 250 82.83 b.160.1.1,d.335.1.1 124845,124846 3lriA 83 83.23 g.1.1.1 43995 1p0hA 318 84.66 d.108.1.1 93866 1wuiL 534 84.67 e.18.1.1 121289 1f8fA 371 84.89 b.35.1.2,c.2.1.1 83246,83247 1dsqA 21 84.98 g.40.1.1 45173 2jvxA 28 85.17 1fs0G 230 85.25 c.49.2.1 59999 2fdnA 55 85.43 d.58.1.1 38944 1ivgA 388 85.55 b.68.1.1 27578 1jd5A 124 85.64 g.52.1.1 66544 1vjwA 60 85.70 d.58.1.4 38991 1adwA 123 85.88 b.6.1.1 22893 1qf8A 182 85.99 g.41.4.1 45212 1w61A 414 86.83 2h4uA 145 87.04 d.38.1.5 136082 1mgsA 73 87.63 d.9.1.1 37389 1qorA 327 87.82 b.35.1.2,c.2.1.1 24766,29782 1y8qB 640 87.95 2cihA 183 88.13 1l1nA 183 88.24 b.47.1.4 73476 1vj0A 380 88.71 b.35.1.2,c.2.1.1 100786,100787 1jrfA 47 88.95 g.12.1.1 71824 2hv2A 400 89.94