# List of top-scoring protein chains for t2k-100-30-bys-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.soe.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 2q1zB 195 1.66e-14 2f4pA 147 7.78e-11 b.82.1.9 132933 3ebrA 159 9.38e-11 3cjxA 165 1.35e-10 1vj2A 126 4.19e-10 b.82.1.10 100796 3ht1A 145 6.62e-10 2qdrA 303 1.83e-09 2pfwA 116 2.45e-09 2o1qA 145 7.14e-09 b.82.1.21 148547 1j58A 385 4.48e-08 b.82.1.2 71531 1o4tA 133 1.02e-07 b.82.1.9 86622 3h8uA 125 1.40e-07 2d40A 354 1.50e-07 b.82.1.23 146454 1lr5A 163 2.08e-07 b.82.1.2 74215 1tq5A 242 2.92e-07 b.82.1.12 119311 1y3tA 337 3.12e-07 b.82.1.5 122600 2et1A 201 5.05e-07 b.82.1.2 132351 1fi2A 201 5.65e-07 1fi2A b.82.1.2 59845 2h0vA 338 8.75e-07 2vqaA 361 1.14e-06 2q30A 110 1.79e-06 1v70A 105 1.99e-06 b.82.1.9 113555 3l2hA 162 2.70e-06 3h7jA 243 2.79e-06 3cewA 125 2.97e-06 3d82A 102 1.63e-05 3i7dA 163 1.91e-05 2phdA 368 2.36e-05 b.82.1.23 149468 1sfnA 246 2.38e-05 b.82.1.11 105496 1yhfA 115 3.38e-05 b.82.1.9 123176 2i45A 107 3.46e-05 3es1A 172 4.64e-05 1sefA 274 5.98e-05 b.82.1.11 105452 2o8qA 134 9.36e-05 3lwcA 119 1.05e-04 1rc6A 261 1.45e-04 b.82.1.11 97287 2pytA 133 1.53e-04 b.82.1.24 149957 3fjsA 114 1.98e-04 1yfuA 174 2.33e-04 b.82.1.20 123094 3ibmA 167 2.35e-04 2bnmA 198 3.34e-04 a.35.1.3,b.82.1.10 128835,128836 2p17A 277 4.01e-04 2gm6A 208 5.75e-04 b.82.1.19 147130 1zvfA 176 6.73e-04 b.82.1.20 146029 1vr3A 191 7.98e-04 b.82.1.6 120431 2fqpA 97 1.24e-03 1j1lA 290 2.03e-03 b.82.1.12 90766 2opkA 112 2.44e-03 3es4A 116 2.50e-03 3eqeA 171 2.56e-03 3kgzA 156 3.29e-03 2oziA 98 7.32e-03 3lagA 98 7.32e-03 1xjaA 178 1.14e-02 b.82.4.1 115382 2aacA 177 1.55e-02 2arcA b.82.4.1 28150 2arcA 164 2.20e-02 2arcA b.82.4.1 28148 2e9qA 459 3.06e-02 2b8mA 117 3.09e-02 b.82.1.18 128092 2ozjA 114 3.17e-02 2ea7A 434 3.90e-02 2zklA 369 4.64e-02 1qwrA 319 6.78e-02 b.82.1.3 96491 1o5uA 101 9.77e-02 b.82.1.8 92518 2d5fA 493 1.00e-01 1od5A 492 1.12e-01 b.82.1.2,b.82.1.2 86832,86833 1y9qA 192 1.29e-01 a.35.1.8,b.82.1.15 116592,116593 3dl3A 119 1.31e-01 b.82.2.13 157762 1qxrA 189 1.36e-01 b.82.1.7 96552 1vp6A 138 1.51e-01 b.82.3.2 113939 2gc1A 188 1.53e-01 b.82.1.7 134928 2vecA 256 1.70e-01 2brfA 110 2.12e-01 b.26.1.2 128996 2cavA 445 2.23e-01 1dgwA b.82.1.2,b.82.1.2 28094,28095 1juhA 350 2.23e-01 b.82.1.5 71884 1x82A 190 2.63e-01 b.82.1.7 114955 2gu9A 113 3.04e-01 3jv1A 182 3.48e-01 2cg7A 90 4.23e-01 g.27.1.1,g.27.1.1 130423,130424 1yjmA 110 4.41e-01 b.26.1.2 123427 1ujxA 119 4.72e-01 b.26.1.2 99473 2yu1A 451 4.98e-01 3iteA 562 5.32e-01 3bcwA 123 6.59e-01 2b9uA 176 7.61e-01 1lci 550 7.89e-01 1lci 2xbnA 427 9.88e-01 2i24N 121 1.28e+00 2jg2A 422 1.33e+00 2ixkA 184 1.33e+00 1dgwA 178 1.48e+00 1dgwA b.82.1.2 28090 2qnkA 286 1.58e+00 2x8uA 412 1.58e+00 2oa2A 148 1.91e+00 3hqxA 111 1.93e+00 1ne6A 283 2.11e+00 b.82.3.2,b.82.3.2 91831,91832 1mt6A 280 2.27e+00 b.76.2.1,b.85.7.1 79446,79447 3fz3A 531 2.58e+00 1vrbA 342 2.77e+00 b.82.2.11 120450 3eo6A 106 2.85e+00 1znpA 154 3.07e+00 b.82.1.16 125394 1nltA 248 3.19e+00 b.4.1.1,b.4.1.1,g.54.1.1 91963,91964,91965 3k3oA 371 3.48e+00 2w8tA 427 3.50e+00 2j3xA 431 3.87e+00 3liuA 402 3.90e+00 1uz8B 212 3.91e+00 b.1.1.1,b.1.1.2 108168,108169 2phlA 397 3.93e+00 1dgwA b.82.1.2,b.82.1.2 28082,28083 2f15A 96 4.00e+00 b.1.18.21 146993 1ep0A 185 4.14e+00 1dzrA b.82.1.1 28080 3eh0A 341 4.28e+00 3bb6A 127 4.58e+00 b.82.2.13 155045 2wwuA 371 4.94e+00 2rg4A 216 4.95e+00 1rl3A 288 5.24e+00 b.82.3.2,b.82.3.2 104975,104976 2b5hA 200 5.45e+00 b.82.1.19 127894 2atfA 200 5.53e+00 b.82.1.19 127290 3elnA 200 5.71e+00 b.82.1.19 158185 2v72A 143 5.72e+00 2azeB 106 5.84e+00 e.63.1.2 127606 1fs0E 138 6.11e+00 1aqt a.2.10.1,b.93.1.1 59997,59998 1ci3M 249 6.56e+00 1hcz b.2.6.1,b.84.2.2 22480,28266 1e5rA 290 6.84e+00 1e5rA b.82.2.4 59276 1q5yA 85 6.89e+00 d.58.18.4 95950 1rgs 288 7.19e+00 1rgs 3c3vA 510 7.68e+00 1f39A 101 7.80e+00 1umuA b.87.1.1 28386 2d2eA 250 7.99e+00 1yqfA 203 8.20e+00 d.25.1.1 123880 3etcA 580 8.29e+00 2nysA 176 8.41e+00 b.136.1.2 148518 3mmlA 318 8.42e+00 1aqt 138 8.67e+00 1aqt 1qr4B 186 8.94e+00 1qr4B b.1.2.1,b.1.2.1 21988,21989 1dmhA 311 9.21e+00 1dmhA b.3.6.1 22633 1ztpA 251 9.26e+00 d.86.1.2 125649 3kg0A 128 9.36e+00 2fdiA 211 9.54e+00 b.82.2.10 133311 2h6cA 232 1.02e+01 a.4.5.4,b.82.3.2 147232,147233 3fttA 199 1.03e+01 2wvvA 450 1.03e+01 2pqmA 343 1.05e+01 1k5nA 276 1.06e+01 b.1.1.2,d.19.1.1 77266,77267 2i5vO 251 1.08e+01 1cauA 181 1.09e+01 1dgwA b.82.1.2 28102 2a9mH 126 1.13e+01 2c0zA 216 1.14e+01 b.82.1.1 129615 1t2jA 116 1.15e+01 2a9nH 126 1.17e+01 1wdvA 152 1.18e+01 d.116.1.1 114539 2dr1A 386 1.24e+01 1dzrA 183 1.27e+01 1dzrA b.82.1.1 28076 3f6zB 101 1.28e+01 2cwrA 103 1.36e+01 3hd4A 139 1.44e+01 2d5rA 252 1.48e+01 c.55.3.9 146466 1z0mA 96 1.49e+01 b.1.18.21 145952 3cj8A 236 1.51e+01 2yxyA 115 1.58e+01 1qtrA 317 1.63e+01 1qtrA c.69.1.7 34660 2vveA 254 1.75e+01 2c4nA 250 1.77e+01 c.108.1.14 129837 2wfpA 394 1.77e+01 1d4tA 104 1.87e+01 1d4tA d.93.1.1 40537 3h1wA 393 1.89e+01 1a1nA 276 2.01e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1a2yB 116 2.02e+01 1gc1H b.1.1.1 19927 1h4gA 207 2.11e+01 b.29.1.11 70863 3ckaA 320 2.11e+01 1xruA 282 2.14e+01 b.82.1.13 122262 2okxA 956 2.19e+01 2jenA 261 2.19e+01 1wu2A 396 2.25e+01 b.85.6.1,b.103.1.1,c.57.1.2 114884,114885,114886 1npsA 88 2.34e+01 1prs b.11.1.1 23622 1qr4A 186 2.37e+01 1qr4B b.1.2.1,b.1.2.1 21986,21987 1yzbA 182 2.38e+01 1kgcD 206 2.38e+01 b.1.1.1,b.1.1.2 77384,77385 3kl9A 355 2.39e+01 1dr9A 201 2.41e+01 1dr9A b.1.1.1,b.1.1.3 19762,21684 2hwzH 227 2.47e+01 1zrrA 179 2.49e+01 b.82.1.6 125555 1a7oH 116 2.50e+01 1gc1H b.1.1.1 19943 2ea3A 189 2.51e+01 1r75A 141 2.55e+01 b.134.1.1 97189 2j4oA 401 2.56e+01 1wkvA 389 2.56e+01 c.79.1.1 120989 1cauB 184 2.59e+01 1caxB b.82.1.2 28103 3d8cA 349 2.64e+01 1gmuA 143 2.67e+01 b.107.1.1,d.58.38.1 65335,65336 1q2wA 308 2.67e+01 b.47.1.4 88355 4pazA 123 2.68e+01 b.6.1.1 22881 1dgwY 93 2.69e+01 1caxB 3bwaA 276 2.72e+01 b.1.1.2,d.19.1.1 155683,155684 1zo2A 129 2.72e+01 d.17.4.2 146021 2v0hA 456 2.73e+01 2z0tA 109 2.74e+01 1xk5A 204 2.79e+01 1lk2A 274 2.80e+01 b.1.1.2,d.19.1.1 91056,91057 2kijA 124 2.81e+01 1pmyA 123 2.81e+01 b.6.1.1 22888 3byqA 193 2.87e+01 d.79.9.1 155728 2z69A 154 2.91e+01 3hzaA 174 3.01e+01 2x00D 227 3.02e+01 3h9yA 223 3.05e+01 3gd7A 390 3.12e+01 3fpxA 499 3.17e+01 1fxzA 476 3.29e+01 b.82.1.2,b.82.1.2 65059,65060 2obeA 932 3.35e+01 1dkuA 317 3.38e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 3a27A 272 3.41e+01 3e5xA 250 3.43e+01 2vpvA 166 3.46e+01 3bkzA 201 3.52e+01 2q4kA 251 3.52e+01 d.86.1.2 139864 2f7tA 227 3.53e+01 3e97A 231 3.57e+01 2hnfA 133 3.62e+01 3ea8A 306 3.68e+01 1agdA 276 3.71e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1ksyA 154 3.73e+01 d.89.1.2 72948 3ixcA 191 3.73e+01 3g7gA 158 3.76e+01 1i6aA 219 3.77e+01 c.94.1.1 61827 2bg9E 370 3.80e+01 1oi6A 205 3.83e+01 b.82.1.1 103940 2zcwA 202 3.83e+01 2cohA 202 3.84e+01 a.4.5.4,b.82.3.2 130677,130678 1aym1 285 3.87e+01 1aym1 2g3rA 123 3.89e+01 b.34.9.1,b.34.9.1 134570,134571 3e9tA 114 3.93e+01 1f5jA 199 3.94e+01 1axkA b.29.1.11 24342 1xh3A 276 4.05e+01 b.1.1.2,d.19.1.1 115287,115288 1lj0A 92 4.06e+01 d.120.1.1 78019 3a7qA 725 4.06e+01 2bynA 227 4.12e+01 1hm9A 468 4.12e+01 b.81.1.4,c.68.1.5 65866,65867 2hdpA 63 4.14e+01 1f08A 148 4.15e+01 1f08A d.89.1.2 59564 2aujD 309 4.16e+01 3hvzA 78 4.18e+01 2awfA 172 4.20e+01 d.20.1.1 127432 3bzhA 194 4.22e+01 2pkaB 152 4.23e+01 5ptp 1mzeA 351 4.23e+01 b.82.2.6 79694 1vj0A 380 4.24e+01 b.35.1.2,c.2.1.1 100786,100787 3i3qA 211 4.26e+01 1prs 173 4.30e+01 1prs 1tg7A 971 4.31e+01 b.149.1.1,b.18.1.27,b.18.1.27,b.71.1.5,c.1.8.14 112418,112419,112420,112421,112422 3dkqA 243 4.32e+01 1u0tA 307 4.33e+01 e.52.1.1 107567 3d0jA 140 4.48e+01 2fp7B 172 4.49e+01 b.47.1.3 133899 3ckjA 329 4.53e+01 2gjdA 157 4.56e+01 2h2zA 306 4.59e+01 1fzoA 274 4.63e+01 1agdA b.1.1.2,d.19.1.1 60155,60156 1fiqC 763 4.65e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1h5zA 455 4.68e+01 a.104.1.1 90622 1h3iA 293 4.69e+01 b.76.2.1,b.85.7.1 76635,76636 1gxcA 149 4.71e+01 b.26.1.2 70687 2wkdA 119 4.74e+01 1h80A 464 4.78e+01 b.80.1.8 65714 3ie4A 107 4.78e+01 2qjvA 270 4.80e+01 1fx7A 230 4.83e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 3lgfA 125 4.83e+01 2w9hA 159 4.87e+01 3is6A 244 4.90e+01 2jg9C 131 4.92e+01 b.22.1.1 148047 2ckkA 127 4.94e+01 1e2wA 251 4.94e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1efuA 385 4.95e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 2iuyA 342 4.97e+01 3km3A 206 4.99e+01 1wtaA 275 5.00e+01 1n0xH 230 5.01e+01 b.1.1.1,b.1.1.2 91528,91529 2hkdA 320 5.02e+01 2iutA 574 5.02e+01 1a1oA 276 5.03e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 2zqkA 189 5.04e+01 1c4kA 730 5.07e+01 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1ipaA 274 5.10e+01 c.116.1.1,d.79.3.3 71254,71255 2c9wA 169 5.12e+01 a.271.1.1,d.93.1.1 145023,145024 1jnyA 435 5.13e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1z0nA 96 5.15e+01 b.1.18.21 145955 3fq0A 157 5.15e+01 3butA 136 5.18e+01 1k28A 584 5.20e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 2in5A 207 5.22e+01 b.177.1.1 147736 2jixB 225 5.23e+01 b.1.2.1,b.1.2.1 148107,148108 1zhvA 134 5.25e+01 d.58.18.8,d.58.18.8 125109,125110 1z7bA 358 5.25e+01 c.2.1.2 124599 3f0uX 157 5.29e+01 1hcgA 241 5.32e+01 5ptp b.47.1.2 26341 1aqkH 226 5.33e+01 1igtB b.1.1.1,b.1.1.2 20193,21209 2p0wA 324 5.35e+01 1reqB 637 5.35e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 2bllA 345 5.36e+01 c.2.1.2 128733 1cseI 71 5.36e+01 1egpA d.40.1.1 38559 2wlgA 215 5.37e+01 2x29A 167 5.37e+01 1u4cA 349 5.39e+01 b.69.4.2 107666 2hewF 152 5.39e+01 b.22.1.1 136364 2wn9A 228 5.46e+01 2bypA 214 5.48e+01 3divA 499 5.51e+01 2af4C 333 5.54e+01 c.77.1.5 126656 2bbkL 125 5.56e+01 2bbkL g.21.1.1 44882 1h2kA 349 5.62e+01 b.82.2.6 76572 2px7A 236 5.62e+01 1s21A 206 5.67e+01 d.166.1.4 105222 2cibA 455 5.69e+01 a.104.1.1 146398 2vwkA 773 5.73e+01 c.55.3.5,e.8.1.1 153677,153678 1fxjA 331 5.73e+01 1fwyA b.81.1.4,c.68.1.5 28062,34520 1ruzH 328 5.90e+01 b.19.1.2 97889 3k4iA 244 5.92e+01 3c05B 64 5.92e+01 1c5cH 215 5.92e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 3ea9A 306 5.94e+01 2dasA 62 5.95e+01 g.39.1.17 146476 1fwyA 331 6.00e+01 1fwyA b.81.1.4,c.68.1.5 28064,34522 1fzkA 274 6.00e+01 1agdA b.1.1.2,d.19.1.1 60149,60150 1u9jA 358 6.00e+01 c.2.1.2 113243 2deoA 230 6.00e+01 1caxB 184 6.03e+01 1caxB b.82.1.2 28105 1pmi 440 6.06e+01 1pmi 1pmiA 440 6.06e+01 b.82.1.3 28114 3eadA 137 6.08e+01 2g8cO 251 6.12e+01 3fqiA 417 6.12e+01 2bokA 241 6.12e+01 b.47.1.2 128916 2or0A 414 6.14e+01 2x7lA 231 6.15e+01 3i4qA 176 6.17e+01 2pgzA 230 6.18e+01 3etrC 755 6.21e+01 1u13A 455 6.22e+01 a.104.1.1 107578 1mxiA 160 6.25e+01 c.116.1.1 79646 1x8vA 455 6.31e+01 a.104.1.1 114968 2zz8A 241 6.40e+01 1c44A 123 6.40e+01 1qndA d.106.1.1 40795 1gybA 125 6.42e+01 d.17.4.2 70744 1mkmA 249 6.45e+01 a.4.5.33,d.110.2.2 79242,79243 2de3A 365 6.47e+01 3kbgA 213 6.47e+01 1wm1A 317 6.60e+01 c.69.1.7 109405 1a9eA 277 6.62e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 3guaA 217 6.63e+01 3fn0H 231 6.63e+01 1tdtA 259 6.66e+01 3tdt b.81.1.2 28055 1kbaA 66 6.78e+01 3ebx g.7.1.1 44431 3l1oH 227 6.82e+01 2bvpA 276 6.87e+01 b.1.1.2,d.19.1.1 129291,129292 1icmA 131 6.94e+01 b.60.1.2 27174 2nutB 753 6.96e+01 2e26A 725 6.97e+01 3e6cC 250 6.99e+01 a.4.5.4,b.82.3.2 158038,158039 1g2lA 235 7.00e+01 b.47.1.2 65112 1iqyA 638 7.12e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 3bfpA 194 7.19e+01 b.81.1.8 155234 2p3uB 233 7.21e+01 b.47.1.2 149189 1hn0A 1021 7.21e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 2jkhA 241 7.30e+01 1bqk 124 7.32e+01 1bqk 1bqkA 124 7.32e+01 b.6.1.1 22889 3baeH 228 7.34e+01 b.1.1.2 155029 2d1wA 638 7.34e+01 b.30.2.1,d.17.2.1,d.17.2.1 131145,131146,131147 1r1a1 287 7.37e+01 1aym1 2wakA 167 7.39e+01 1a1mA 278 7.45e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1i69A 219 7.45e+01 c.94.1.1 61825 2h6bA 250 7.48e+01 a.4.5.4,b.82.3.2 147228,147229 1gytA 503 7.50e+01 c.50.1.1,c.56.5.3 70765,70766 3m46A 666 7.53e+01 3b5lB 198 7.56e+01 1ep3B 262 7.59e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 3lvmA 423 7.63e+01 2gh9A 386 7.64e+01 2vjeA 64 7.69e+01 1wgpA 137 7.72e+01 b.82.3.2 114619 1gycA 499 7.76e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1ui8A 638 7.77e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1ea1A 455 7.78e+01 1ea1A a.104.1.1 18970 1llfA 534 7.78e+01 c.69.1.17 78094 2zpdA 190 7.80e+01 1v97A 1332 7.88e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 2pygA 377 7.95e+01