# List of top-scoring protein chains for t2k-100-40-40-str2+CB_burial_14_7-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 3duzA 487 1.01e+00 2bl5A 140 2.13e+00 d.51.1.1 128728 1mzuA 129 2.23e+00 d.110.3.1 79714 3f8mA 248 3.28e+00 2cfxA 144 3.51e+00 a.4.5.32,d.58.4.2 130395,130396 1ug8A 87 3.56e+00 d.68.7.1 107825 2p0sA 143 4.07e+00 c.94.1.3 149140 2d74B 148 4.09e+00 1keaA 221 4.41e+00 a.96.1.2 68491 3c1qA 123 4.42e+00 2ia0A 171 4.45e+00 2lefA 86 4.60e+00 2lefA a.21.1.1 16433 2r78A 117 4.95e+00 1m5yA 408 4.95e+00 a.223.1.2,d.26.1.1,d.26.1.1 78664,78665,78666 3i79A 484 5.01e+00 2o37A 92 5.60e+00 3hhtB 229 5.74e+00 2fb1A 226 5.75e+00 a.4.5.68,d.113.1.6 133225,133226 2ciuA 127 6.38e+00 2pjwH 88 6.63e+00 3ckdA 312 7.61e+00 2okvA 209 7.84e+00 2x04A 80 7.98e+00 2e7xA 150 8.13e+00 2pn6A 150 8.82e+00 1kdxA 81 9.01e+00 1kdxA a.12.1.1 16375 1p9yA 121 9.33e+00 d.241.2.1 94402 3hztA 467 9.64e+00 2e0gA 107 1.01e+01 2zhgA 154 1.14e+01 1u6mA 199 1.15e+01 d.108.1.1 113069 1m1eB 81 1.21e+01 a.161.1.1 78400 1eysH 259 1.21e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 2hxjA 144 1.26e+01 a.136.1.1 147432 2j5zA 221 1.50e+01 3ez7A 398 1.51e+01 3iedA 272 1.53e+01 3lfkA 129 1.54e+01 1aocA 175 1.55e+01 1aocA g.17.1.5 44817 1kx5C 128 1.63e+01 a.22.1.1 77595 3ku2A 507 1.74e+01 1k6kA 143 1.75e+01 a.174.1.1 77274 1orc 71 1.83e+01 1orc 1orcA 71 1.83e+01 a.35.1.2 17054 2hueB 77 1.91e+01 3fqdA 899 1.92e+01 3h0dA 155 1.94e+01 3aazB 229 1.95e+01 1w9yA 319 1.98e+01 b.82.2.1 120801 3lq9A 134 2.07e+01 2peqA 134 2.08e+01 a.280.1.1 149443 1e1hB 174 2.12e+01 2dlbA 80 2.12e+01 b.174.1.1 146541 1lq9A 112 2.13e+01 d.58.4.3 78129 3kusA 88 2.13e+01 3ef0A 372 2.13e+01 2qalM 117 2.15e+01 a.156.1.1 150226 3ir3A 148 2.23e+01 1j4aA 333 2.38e+01 c.2.1.4,c.23.12.1 71502,71503 3kuuA 174 2.41e+01 1y4oA 104 2.42e+01 d.110.7.1 145901 2hr3A 147 2.44e+01 a.4.5.28 136678 1uehA 253 2.50e+01 c.101.1.1 99259 1nvpD 108 2.50e+01 a.32.1.1,b.56.1.1 92213,92214 2wv0A 243 2.56e+01 2b95A 106 2.66e+01 d.110.7.1 146092 3k3qC 175 2.66e+01 1sb0A 87 2.71e+01 a.12.1.1 98789 5croA 66 2.76e+01 1orc a.35.1.2 17044 3b47A 134 2.80e+01 3kkdA 237 2.80e+01 1wibA 92 2.81e+01 d.47.1.1 114665 1mhyG 169 2.85e+01 1mtyG a.23.3.1 16518 2j00I 128 2.88e+01 d.14.1.1 137847 2hdhA 293 2.89e+01 2hdhA a.100.1.3,c.2.1.6 18795,30199 2oa5A 110 2.90e+01 d.362.1.1 148691 3lynA 136 2.96e+01 1lis a.19.1.1 16413 2dbqA 334 2.99e+01 1o9iA 266 3.01e+01 a.25.1.3 92671 1uhnA 189 3.05e+01 a.39.1.5 99399 1ryt 190 3.07e+01 1ryt 3e4rA 324 3.08e+01 2lisA 136 3.10e+01 1lis a.19.1.1 16405 1gdtA 183 3.19e+01 2rslA a.4.1.2,c.53.1.1 16021,33348 1zg2A 107 3.23e+01 3hqaA 73 3.24e+01 2rn7A 108 3.27e+01 2ovgA 66 3.30e+01 1wudA 89 3.32e+01 a.60.8.1 121283 1qczA 169 3.34e+01 1qczA c.23.8.1 31276 1y1vS 179 3.37e+01 i.8.1.1 116361 2i5nH 258 3.38e+01 b.41.1.1,f.23.10.1 137064,137065 1xa3A 437 3.41e+01 c.123.1.1 115025 1jkvA 266 3.53e+01 a.25.1.3 71719 2c5rA 67 3.57e+01 a.251.1.1 129944 1n3kA 130 3.57e+01 a.77.1.4 79965 2nshA 169 3.63e+01 1lis 136 3.71e+01 1lis 1f0yA 302 3.90e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 2yx1A 336 3.92e+01 1zu1A 127 3.92e+01 g.37.1.4,g.37.1.4 146026,146027 3e8oA 119 3.98e+01 2hz5A 106 4.04e+01 d.110.7.1 147460 1wmuA 141 4.04e+01 a.1.1.2 109416 2w2kA 348 4.05e+01 1ehwA 162 4.05e+01 1npk d.58.6.1 39088 2ko6A 89 4.11e+01 1xn7A 78 4.20e+01 a.4.5.62 115576 1rfmA 344 4.26e+01 c.122.1.1 97385 2g4rA 160 4.28e+01 1ornA 226 4.29e+01 a.96.1.1 87342 1ed7A 45 4.29e+01 1ed7A b.72.2.1 27809 2dldA 337 4.30e+01 1dxy c.2.1.4,c.23.12.1 30099,31359 2od6A 110 4.40e+01 d.58.4.22 148737 2wpvB 59 4.41e+01 2hxoA 237 4.43e+01 2pijA 67 4.47e+01 2yvvA 338 4.48e+01 b.108.1.5 153780 1wp1A 474 4.51e+01 f.5.1.1 114778 1i0aA 466 4.53e+01 1auwA a.127.1.1 61479 1y0nA 78 4.55e+01 d.291.1.1 116305 1aoa 275 4.55e+01 1aoa 1nxuA 333 4.56e+01 c.122.1.1 86389 2nn6B 249 4.58e+01 d.14.1.4,d.101.1.1 148297,148298 3hadA 308 4.61e+01 2hdhA a.100.1.3,c.2.1.6 18799,30203 1r03A 182 4.62e+01 a.25.1.1 104675 1hkqA 132 4.66e+01 a.4.5.10 83555 2novA 496 4.68e+01 1y0hA 105 4.75e+01 d.58.4.11 116303 1bjaA 95 4.78e+01 1bjaA a.4.5.9 16122 2a8kA 108 4.85e+01 d.243.1.2 126404 1dxrH 258 4.88e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1xq8A 140 4.92e+01 h.7.1.1 115834 1ni3A 392 4.94e+01 c.37.1.8,d.15.10.2 80531,80532 2r1iA 172 4.95e+01 2wkbA 125 4.99e+01 2k02A 87 5.00e+01 3dorA 583 5.06e+01 3d5kA 474 5.14e+01 3k2yA 109 5.18e+01 1e08D 88 5.20e+01 i.4.1.1 45915 2bjoA 136 5.21e+01 1cll 148 5.22e+01 1cll 3cqbA 107 5.22e+01 1qx2A 76 5.22e+01 a.39.1.1 104622 2oa6A 320 5.23e+01 3h0gD 135 5.24e+01 2gykB 134 5.29e+01 d.4.1.1 135857 3kvpA 72 5.32e+01 1whtB 153 5.34e+01 1whtB 1vl5A 260 5.35e+01 c.66.1.41 108720 3pyp 125 5.35e+01 3pyp 2dp5A 332 5.39e+01 b.108.1.5 146552 2wjnH 258 5.40e+01 1m0dA 138 5.44e+01 c.52.1.17 74354 1f56A 91 5.47e+01 2cbp b.6.1.1 22896 3b42A 135 5.51e+01 1woyA 500 5.58e+01 a.27.1.1,c.26.1.1 121130,121131 1xk7A 408 5.59e+01 c.123.1.1 122071 3k67A 159 5.60e+01 2i49A 429 5.64e+01 2fkiA 126 5.65e+01 d.198.3.1 133657 3fncA 163 5.66e+01 2extA 77 5.68e+01 b.82.5.1 132563 1qhhA 167 5.70e+01 1pjr c.37.1.19 32393 2vqeM 126 5.72e+01 a.156.1.1 153437 1fipA 98 5.76e+01 1fipA a.4.1.12 18980 1jx4A 352 5.78e+01 d.240.1.1,e.8.1.7 90378,90379 3mhsE 96 5.79e+01 3jv1A 182 5.80e+01 1a49A 530 5.81e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 2aplA 157 5.89e+01 a.258.1.1 127132 1s3jA 155 5.89e+01 a.4.5.28 98437 7ceiB 206 5.97e+01 1bxiB d.4.1.1 37134 1konA 249 6.00e+01 e.39.1.1 72823 1nrzA 164 6.04e+01 c.38.1.1 86131 1owfB 94 6.06e+01 a.55.1.1 87488 3khrA 341 6.11e+01 2p1mA 163 6.14e+01 1m70A 190 6.15e+01 a.3.1.4,a.3.1.4 91200,91201 2cbpA 96 6.16e+01 b.6.1.1 22895 3bwgA 239 6.18e+01 a.4.5.6,d.190.1.2 155693,155694 2qibA 231 6.30e+01 2g50A 530 6.33e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 2ptmA 198 6.34e+01 3d55A 91 6.34e+01 2dbsA 90 6.43e+01 d.374.1.1 146483 1ig6A 107 6.44e+01 1ig6A a.4.3.1 62364 1c4zA 358 6.50e+01 1c4zA d.148.1.1 41766 1fzrA 138 6.50e+01 1fzrA c.52.1.17 33336 2f1rA 171 6.50e+01 1u8bA 133 6.57e+01 3dy0A 336 6.60e+01 1go4E 100 6.61e+01 h.1.22.1 70296 1vk8A 106 6.65e+01 d.58.48.1 108636 2cj4A 150 6.68e+01 a.29.6.1 130518 1grj 158 6.71e+01 1grj 1grjA 158 6.71e+01 a.2.1.1,d.26.1.2 15691,38433 3cs5A 59 6.72e+01 2jrfA 184 6.77e+01 3b33A 115 6.84e+01 3a0gA 141 6.86e+01 1a0dA 440 6.89e+01 1a0cA c.1.15.3 29533 1whsB 153 6.98e+01 1whtB 1jer 138 7.05e+01 2cbp 1jerA 138 7.05e+01 b.6.1.1 23022 3h0lC 94 7.11e+01 2vg2A 284 7.13e+01 2cyyA 151 7.17e+01 a.4.5.32,d.58.4.2 131028,131029 1dcnA 424 7.19e+01 1auwA a.127.1.1 19420 2hraA 209 7.23e+01 1bcsB 160 7.26e+01 1whtB 1rzhH 260 7.27e+01 b.41.1.1,f.23.10.1 98162,98163 3gg2A 450 7.28e+01 1nh2D 121 7.33e+01 a.32.1.1,b.56.1.1 91876,91877 3bh1A 507 7.39e+01 2dbbA 151 7.42e+01 2glwA 92 7.43e+01 2vlqB 134 7.47e+01 1whzA 70 7.53e+01 d.50.3.2 114656 1fs1B 141 7.57e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1ytfD 121 7.63e+01 1ytfD a.32.1.1,b.56.1.1 16998,27011 2gz4A 207 7.66e+01 a.211.1.1 147196 1aijH 260 7.83e+01 6prcH b.41.1.1,f.23.10.1 25466,43463 1sfuA 75 7.90e+01 a.4.5.19 105503 2jmpA 107 7.95e+01 1g0u1 266 7.96e+01