# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1ffyA 917 2.87e-01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2f4qA 346 3.35e-01 1omiA 248 3.92e-01 b.82.3.3,a.4.5.4 87079,87080 1b24A 188 7.28e-01 1b24A d.95.2.1,d.95.2.1 40573,40574 1mxiA 160 9.56e-01 c.116.1.1 79646 2c3vA 102 1.20e+00 1yaxA 153 1.27e+00 1lktA 104 1.57e+00 1lktA b.90.1.1 28398 1ui0A 205 1.90e+00 c.18.1.2 99411 1jsf 130 2.17e+00 3lzt d.2.1.2 36410 1lz1 130 2.18e+00 3lzt d.2.1.2 36415 1tp6A 128 2.48e+00 d.17.4.12 107184 1m7xA 617 2.67e+00 b.1.18.2,b.71.1.1,c.1.8.1 78749,78750,78751 1qx4A 274 2.68e+00 b.43.4.2,c.25.1.1 104624,104625 1jogA 146 2.91e+00 a.24.16.2 77142 2bgcA 238 2.95e+00 2fafA 608 2.97e+00 1yksA 440 3.14e+00 1szoA 257 3.24e+00 c.14.1.3 106164 1yx1A 264 3.54e+00 1o8uA 257 3.67e+00 c.14.1.3 81194 1vq2A 193 3.79e+00 1qqyA 130 4.31e+00 3lzt d.2.1.2 36586 1xhcA 367 4.76e+00 1h7mA 102 4.94e+00 d.79.3.1 83485 1d4oA 184 5.07e+00 1d4oA c.31.1.4 31748 1xwwA 157 5.21e+00 2jdxA 385 5.58e+00 1jdw d.126.1.2 41139 1hg8A 349 5.65e+00 b.80.1.3 65830 1i3dA 146 6.34e+00 a.1.1.2 61587 1yrlA 491 6.58e+00 1izoA 417 7.15e+00 a.104.1.1 83851 1w41A 101 7.34e+00 1c0eA 157 7.61e+00 1dg9A c.44.1.1 32638 1e25A 282 7.78e+00 1e25A e.3.1.1 42731 1t5yA 190 8.24e+00 b.122.1.1,d.17.6.3 106495,106496 2cfuA 658 8.49e+00 1vmjA 151 8.51e+00 1jdw 423 8.64e+00 1jdw d.126.1.2 41129 1txkA 498 9.01e+00 b.1.18.2,b.30.5.9 107425,107426 1l1qA 186 9.03e+00 c.61.1.1 77653 2a4hA 126 9.55e+00 1gsa 316 9.91e+00 1gsa c.30.1.3,d.142.1.1 31718,41477 1nxuA 333 1.00e+01 c.122.1.1 86389 1dg9A 157 1.01e+01 1dg9A c.44.1.1 32637 1iscA 192 1.01e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1vhnA 318 1.04e+01 c.1.4.1 100693 1vr8A 142 1.10e+01 2eshA 118 1.24e+01 1fsgA 233 1.26e+01 1qk3A c.61.1.1 34029 1cjbA 231 1.27e+01 1qk3A c.61.1.1 34079 1vbvA 105 1.27e+01 1khbA 625 1.38e+01 c.91.1.1,c.109.1.1 68606,68607 1y8qB 640 1.39e+01 1tzaA 134 1.53e+01 b.1.23.1 107468 2b59B 172 1.60e+01 1oyiA 82 1.66e+01 a.4.5.19 93729 1qgtA 149 1.66e+01 1qgtA a.62.1.1 18135 2a25A 193 1.68e+01 1i8oA 114 1.74e+01 1ycc a.3.1.1 61979 2d2mD 145 1.77e+01 2cr5A 109 1.81e+01 1g5aA 628 1.86e+01 b.71.1.1,c.1.8.1 65152,65153 1i6wA 181 2.03e+01 1i6wA c.69.1.18 61859 1v32A 101 2.06e+01 a.42.1.1 100277 2gclA 261 2.09e+01 1vfrA 218 2.09e+01 1vfrA d.90.1.1 40247 1zkdA 387 2.15e+01 2hbg 147 2.24e+01 2hbg a.1.1.2 15014 2a2pA 129 2.24e+01 1bkrA 109 2.25e+01 1bkrA a.40.1.1 17394 1iseA 185 2.28e+01 d.67.3.1 90691 1s4nA 348 2.31e+01 c.68.1.16 98501 1i7pA 274 2.34e+01 b.43.4.2,c.25.1.1 66048,66049 1hb6A 86 2.37e+01 a.11.1.1 70959 1gyxA 76 2.38e+01 d.80.1.1 76387 1pufB 73 2.54e+01 a.4.1.1 95132 1k2fA 190 2.57e+01 b.8.1.2 68054 1cqyA 99 2.60e+01 1b9zA b.3.1.1 22527 1ycqA 107 2.62e+01 1ycqA a.42.1.1 17419 1zin 217 2.62e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1sqwA 188 2.63e+01 1ttzA 87 2.70e+01 c.47.1.1 107309 1rrmA 386 2.71e+01 e.22.1.2 105081 2h3jA 75 2.73e+01 1a8h 500 2.74e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1jf3A 147 2.74e+01 a.1.1.2 71642 1woyA 500 2.74e+01 1ne9A 335 2.79e+01 d.108.1.4,d.108.1.4 91839,91840 1vkrA 125 2.84e+01 c.44.2.1 108689 1eemA 241 2.90e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ek8A 185 2.93e+01 1ek8A d.67.3.1 59444 1bouA 139 2.98e+01 1bouA a.88.1.1 18521 1ispA 181 3.00e+01 c.69.1.18 76778 1vrvA 101 3.06e+01 1j3bA 529 3.10e+01 c.91.1.1,c.109.1.1 77071,77072 1vjvA 415 3.11e+01 d.3.1.9 108632 1zy9A 564 3.11e+01 1xewY 172 3.13e+01 1g71A 347 3.18e+01 1g71A d.264.1.1 43268 1is1A 185 3.19e+01 d.67.3.1 83704 1umkA 275 3.19e+01 1ktbA 405 3.19e+01 b.71.1.1,c.1.8.1 72960,72961 1babB 146 3.20e+01 1abwA a.1.1.2 15414 1ndh 272 3.21e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1xxoA 147 3.25e+01 1b9wA 89 3.26e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1vr9A 213 3.34e+01 1rkqA 282 3.41e+01 c.108.1.10 97621 1ng2A 193 3.45e+01 b.34.2.1,b.34.2.1 85660,85661 2gi9A 56 3.46e+01 1i0cA 60 3.46e+01 1aojA b.34.2.1 61485 1v0jA 399 3.46e+01 1irdB 146 3.47e+01 a.1.1.2 66287 1v8cA 168 3.52e+01 d.15.3.1,d.129.5.1 100495,100496 1omrA 201 3.61e+01 a.39.1.5 93349 1nuuA 252 3.63e+01 c.26.1.3 86209 1ci4A 89 3.70e+01 1qckA a.60.5.1 17970 1rpyA 114 3.73e+01 d.93.1.1 97718 1v4eA 299 3.75e+01 a.128.1.1 100296 1ztcA 221 3.77e+01 1fjgP 88 3.81e+01 1emwA d.27.1.1 38444 1byrA 155 3.82e+01 1byrA d.136.1.1 41450 2comA 124 3.83e+01 1nvpB 57 3.83e+01 a.32.1.1 92211 1kutA 230 3.87e+01 d.143.1.1 73017 1gv3A 248 3.88e+01 a.2.11.1,d.44.1.1 70585,70586 1a4yB 123 3.98e+01 7rsa d.5.1.1 37296 1bed 181 3.99e+01 1fvkA c.47.1.13 90330 1uvqA 197 4.00e+01 b.1.1.2,d.19.1.1 100062,100063 1i2uA 44 4.04e+01 g.3.7.4 65987 1wg8A 285 4.12e+01 1npsA 88 4.16e+01 1prs b.11.1.1 23622 1un3A 123 4.26e+01 d.5.1.1 99646 1w9aA 147 4.27e+01 1tyyA 339 4.32e+01 1ijqA 316 4.34e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1ri9A 102 4.35e+01 b.34.2.1 97506 1mmvB 419 4.35e+01 d.174.1.1 91318 1dk8A 147 4.38e+01 1agrE a.91.1.1 18548 2fa8A 105 4.41e+01 2d1yA 256 4.41e+01 2fbmA 291 4.43e+01 1n82A 331 4.46e+01 c.1.8.3 91703 1j1tA 233 4.51e+01 b.29.1.18 90771 1eceA 358 4.53e+01 1eceA c.1.8.3 28813 1qmvA 197 4.56e+01 1qq2A c.47.1.10 33066 2azqA 311 4.56e+01 1zbfA 142 4.62e+01 1qy1A 174 4.66e+01 b.60.1.1 96568 1eswA 500 4.67e+01 1cwyA c.1.8.1 59500 1ct5A 256 4.76e+01 1ct5A c.1.6.2 28663 3ezmA 101 4.77e+01 3ezmA b.89.1.1 28395 1wtyA 119 4.84e+01 2aq6A 147 4.84e+01 1yioA 208 4.88e+01 1c75A 71 4.90e+01 451c a.3.1.1 15796 1lrwA 600 4.90e+01 b.70.1.1 91111 1lwdA 413 4.94e+01 c.77.1.1 78265 1ywfA 296 5.04e+01 1om4A 422 5.09e+01 d.174.1.1 87067 2ga9A 297 5.16e+01 1m0wA 491 5.23e+01 c.30.1.4,d.142.1.6 78363,78364 1fp1D 372 5.27e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1yqtA 538 5.31e+01 1giqA 413 5.33e+01 d.166.1.1,d.166.1.1 76224,76225 1rgeA 96 5.37e+01 1rgeA d.1.1.2 36028 1oshA 232 5.40e+01 a.123.1.1 93496 1l6sA 323 5.47e+01 c.1.10.3 73627 1ldjA 760 5.52e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1o7fA 469 5.68e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1qhoA 686 5.69e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1hxrA 115 5.72e+01 1fwqA b.88.1.1 28392 1nd4A 264 5.73e+01 d.144.1.6 91815 1bquA 215 5.74e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 1ugjA 141 5.75e+01 b.41.1.3 107826 2cu3A 64 5.77e+01 1izmA 184 5.80e+01 a.199.1.1 90725 1zq7A 207 5.80e+01 1p2fA 220 5.87e+01 a.4.6.1,c.23.1.1 87720,87721 1odzA 386 5.89e+01 c.1.8.3 86889 1zndA 174 5.96e+01 2ct5A 73 5.97e+01 1bbhA 131 5.97e+01 1bbhA a.24.3.2 16546 1hw6A 278 5.99e+01 1frb c.1.7.1 61296 1m6iA 493 6.11e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2esnA 310 6.12e+01 1zgzA 122 6.13e+01 2astC 69 6.20e+01 1jv4A 162 6.23e+01 b.60.1.1 67343 1vp9 322 6.27e+01 3mag c.66.1.25 34210 1wn5A 130 6.27e+01 1j79A 347 6.28e+01 1j79A c.1.9.4 62675 3mag 307 6.30e+01 3mag c.66.1.25 34205 5eau 548 6.34e+01 5eat a.102.4.1,a.128.1.3 18851,19443 1zip 217 6.35e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1tr0A 108 6.38e+01 d.58.4.4 107261 1oapA 109 6.43e+01 d.79.7.1 92706 1z3eB 73 6.48e+01 2dg5B 190 6.55e+01 1s72L 165 6.59e+01 c.12.1.1 105331 1k1eA 180 6.63e+01 c.108.1.5 67995 1x1gA 129 6.64e+01 2abwA 227 6.68e+01 1uhvA 500 6.72e+01 b.71.1.2,c.1.8.3 99402,99403 1jj2K 164 6.73e+01 1ffkJ c.12.1.1 63096 1yb3A 175 6.73e+01 1sgmA 191 6.74e+01 a.4.1.9,a.121.1.1 105537,105538 1b72B 87 6.85e+01 1akhA a.4.1.1 16001 1s3rA 535 6.93e+01 1kwgA 645 7.00e+01 b.71.1.1,c.1.8.1,c.23.16.5 77561,77562,77563 1gmuA 143 7.00e+01 b.107.1.1,d.58.38.1 65335,65336 1ur1A 378 7.08e+01 c.1.8.3 99804 1sur 215 7.17e+01 1sur c.26.2.2 31620 1wkvA 389 7.21e+01 1iakA 199 7.28e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 2g76A 335 7.39e+01 1obpA 159 7.54e+01 1obpA b.60.1.1 27092 1e19A 314 7.65e+01 1b7bA c.73.1.1 34967 1kb0A 677 7.68e+01 a.3.1.6,b.70.1.1 68378,68379 1v39 322 7.69e+01 3mag c.66.1.25 34206 1d7cA 190 7.71e+01 1d7bA b.1.9.1 22309 1yarH 217 7.72e+01 1v84A 253 7.73e+01 c.68.1.7 108419 1f1eA 154 7.77e+01 a.22.1.2 64927 1rkbA 173 7.79e+01 1m7lA 40 7.92e+01 h.1.1.1 78735 1u0tA 307 7.94e+01 e.52.1.1 107567 2f9zC 159 7.97e+01 1xrkA 124 8.03e+01 1sedA 117 8.12e+01 a.219.1.1 105449 1i8jA 323 8.13e+01 1b4kA c.1.10.3 61968 1p5hA 428 8.25e+01 c.123.1.1 87802 1qauA 112 8.28e+01 1qauA b.36.1.1 24779 1zvpA 133 8.31e+01 1hn2A 159 8.33e+01 b.60.1.1 65890 1f2tB 148 8.39e+01 1f2tB 1y14B 171 8.40e+01 1gt1A 159 8.44e+01 b.60.1.1 90515 1dhpA 292 8.45e+01 1dhpA c.1.10.1 29097 2b0tA 738 8.49e+01 1m93C 41 8.50e+01 1oacA 727 8.51e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 2cq8A 110 8.55e+01 1ckaA 57 8.64e+01 1ckaA b.34.2.1 24459 2cwpA 112 8.65e+01 1jdlA 121 8.71e+01 a.3.1.1 66557 1v1aA 309 8.72e+01 c.72.1.1 100249 1jd1A 129 8.73e+01 1qu9A d.79.1.1 62890 1lgpA 116 8.77e+01 b.26.1.2 73890 1epaA 164 8.84e+01 1epaA b.60.1.1 27128 1lniA 96 8.91e+01 d.1.1.2 74046