# List of top-scoring protein chains for t04-100-40-40-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.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 1lq9A 112 1.64e-05 d.58.4.3 78129 1iujA 106 2.34e-04 unknown_sccs -9953 1mp9A 198 6.16e-03 a.74.1.2 -1127 a.74.1.2 -1128 1aisA 182 1.82e-02 1ytbA d.129.1.1 41288 d.129.1.1 41289 1fxlA 167 1.11e-01 1b7fA d.58.7.1 39183 d.58.7.1 39184 1gxjA 186 1.27e-01 d.215.1.1 70707 1kqqA 139 2.07e-01 a.4.3.1 72885 1tvlA 454 2.37e-01 1cnt1 187 3.59e-01 1cnt3 1q4rA 112 4.61e-01 d.58.4.4 -9943 1budA 197 4.74e-01 1atlA d.92.1.9 40328 1fjgM 126 4.75e-01 1fjfM a.156.1.1 16293 1lzlA 323 8.09e-01 c.69.1.2 78306 1skoA 143 8.31e-01 1v84A 253 9.63e-01 1dxy 333 9.85e-01 1dxy c.2.1.4 30094 c.23.12.1 31354 1edt 271 1.02e+00 2ebn c.1.8.5 28993 1ekeA 230 1.12e+00 1ekeA c.55.3.1 33572 1mb3A 124 1.24e+00 c.23.1.1 78907 1l3kA 196 1.30e+00 d.58.7.1 73539 d.58.7.1 73540 1rlkA 117 1.30e+00 unknown_sccs -7526 1tidB 119 1.30e+00 1sdoA 203 1.83e+00 unknown_sccs -7558 1atiA 505 1.85e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1gsoA 431 1.89e+00 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1qmvA 197 2.11e+00 1qq2A c.47.1.10 33066 1l9vA 317 2.20e+00 d.13.2.1 73760 d.216.1.1 73761 1qysA 106 2.23e+00 unknown_sccs -13432 1o54A 277 2.27e+00 c.66.1.13 -8095 1sheA 103 2.29e+00 1ha1 184 2.34e+00 1ha1 d.58.7.1 39147 d.58.7.1 39148 1i58A 189 2.35e+00 1b3qA d.122.1.3 61773 1im8A 244 2.51e+00 c.66.1.14 66212 1nfjA 89 2.75e+00 d.68.6.1 -10285 1mwqA 101 2.75e+00 unknown_sccs -9962 1uc8A 280 2.80e+00 unknown_sccs -6718 unknown_sccs -11230 1kk1A 410 2.87e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1oz9A 150 2.93e+00 unknown_sccs -10588 1acc 735 3.00e+00 1acc f.11.1.1 43828 1in0A 163 3.03e+00 d.58.49.1 83694 d.58.49.1 83695 1q7sA 117 3.28e+00 unknown_sccs -7522 1sqeA 109 3.44e+00 1dz3A 130 3.83e+00 1dz3A c.23.1.1 31105 1fzrA 138 4.02e+00 1fzrA c.52.1.17 33336 1v9dA 340 4.21e+00 unknown_sccs -1762 1dzfA 215 4.35e+00 1dzfA c.52.3.1 33344 d.78.1.1 39753 1cqmA 101 4.51e+00 1ris d.58.14.1 39321 1nf2A 268 4.61e+00 c.108.1.10 -6842 1dptA 117 4.75e+00 1dptA d.80.1.3 39862 1p8xA 344 4.78e+00 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1lkdA 297 4.89e+00 d.32.1.3 78059 d.32.1.3 78060 1m0dA 138 5.01e+00 c.52.1.17 74354 1ntvA 152 5.02e+00 b.55.1.2 86168 1naqA 112 5.21e+00 d.58.5.2 -9984 1t1gA 364 5.32e+00 1rpa 342 5.59e+00 1cviA c.60.1.2 33983 1pujA 282 5.67e+00 c.37.1.8 88294 1gt91 357 5.70e+00 1han 297 5.79e+00 1han d.32.1.3 38506 d.32.1.3 38507 1t3lA 337 5.98e+00 1ro2A 216 6.02e+00 unknown_sccs -11391 1esgA 213 6.15e+00 1bam c.52.1.3 33286 1iibA 106 6.57e+00 1iibA c.44.2.1 32648 1kqfB 294 6.97e+00 d.58.1.5 75900 f.23.22.1 75901 1gd8A 118 6.99e+00 d.188.1.1 60445 1bd3A 243 7.07e+00 1bd3A c.61.1.1 34098 1skoB 130 7.11e+00 1neeA 138 7.23e+00 unknown_sccs -9002 g.59.1.1 -12824 1cxqA 162 7.41e+00 1cxqA c.55.3.2 33621 1pqzA 238 7.94e+00 1rz3A 201 8.05e+00 c.37.1.6 -7048 1ro0A 216 8.11e+00 unknown_sccs -11390 1vj7A 393 8.49e+00 unknown_sccs -1265 unknown_sccs -9814 1q7zA 566 8.76e+00 c.1.21.2 -5638 c.1.26.1 -5666 1g60A 260 8.82e+00 c.66.1.11 70151 1vetB 125 9.13e+00 1a4iA 301 9.32e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1b00A 127 9.63e+00 3chy c.23.1.1 31122 2igd 61 9.66e+00 2igd d.15.7.1 37821 1v58A 241 9.79e+00 1q8bA 105 9.89e+00 unknown_sccs -9958 3chy 128 1.00e+01 3chy c.23.1.1 31038 1miuA 738 1.01e+01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1gd0A 122 1.02e+01 1dptA d.80.1.3 39834 1ukuA 102 1.05e+01 d.58.5.2 -9992 1o7nB 194 1.05e+01 d.17.4.4 81164 1tluA 130 1.07e+01 1edzA 320 1.08e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1iatA 557 1.12e+01 1dqrA c.80.1.2 62123 1vsd 152 1.13e+01 1cxqA c.55.3.2 33625 1v7oA 165 1.14e+01 unknown_sccs -10249 1qhtA 775 1.15e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1tiqA 180 1.17e+01 1vcaA 202 1.18e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1o57A 291 1.19e+01 unknown_sccs -249 c.61.1.1 -7960 1eg9B 194 1.24e+01 1ndoB d.17.4.4 38120 1kafA 108 1.27e+01 d.199.1.1 68372 1gxuA 91 1.30e+01 d.58.10.1 76378 1dpgA 485 1.31e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1l0wA 580 1.33e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1b3tA 147 1.33e+01 1b3tA d.58.8.1 39228 2hpaA 342 1.33e+01 1cviA c.60.1.2 33985 1prxA 224 1.37e+01 1prxA c.47.1.10 33076 1oxkB 134 1.41e+01 c.23.1.1 -6411 1r5pA 108 1.42e+01 unknown_sccs -7487 1dg9A 157 1.54e+01 1dg9A c.44.1.1 32637 1jmtA 104 1.60e+01 d.58.7.3 63180 1u6bA 98 1.61e+01 1svy 114 1.63e+01 1svy d.109.1.1 40831 1sfsA 240 1.63e+01 c.1.8.8 -5407 1nhkL 144 1.67e+01 1npk d.58.6.1 39142 1pou 71 1.68e+01 1au7A a.35.1.1 17020 1squA 155 1.69e+01 unknown_sccs -10229 1jm6A 407 1.70e+01 a.29.5.1 66876 d.122.1.4 66877 1l3iA 192 1.70e+01 c.66.1.22 77676 1ly1A 181 1.70e+01 c.37.1.1 74334 1bob 320 1.71e+01 1bob d.108.1.1 40816 1gypA 358 1.73e+01 1dssG c.2.1.3 30004 d.81.1.1 39919 1ois 223 1.78e+01 1a36A e.15.1.1 43267 1uu1A 335 1.82e+01 c.67.1.1 -8146 1sek 378 1.88e+01 1sek e.1.1.1 42675 1fnoA 417 1.91e+01 c.56.5.4 75841 d.58.19.1 70145 1jj2L 194 1.94e+01 1ffkI d.12.1.2 63097 1bgc 174 1.94e+01 1bgc a.26.1.1 16822 1s3zA 165 1.98e+01 1k4nA 192 2.02e+01 d.32.1.5 72059 1c0eA 157 2.02e+01 1dg9A c.44.1.1 32638 1n2zA 245 2.03e+01 c.92.2.2 79865 3c2c 112 2.05e+01 1ycc a.3.1.1 15885 1urnA 97 2.06e+01 1urnA d.58.7.1 39153 1e44B 96 2.10e+01 1e44B b.101.1.1 59220 1riqA 465 2.21e+01 unknown_sccs -1295 d.104.1.1 -10769 1b25A 619 2.23e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1oshA 232 2.25e+01 a.123.1.1 -1697 1mwpA 96 2.28e+01 1mwpA d.170.2.1 42453 1g24A 211 2.31e+01 1g24A d.166.1.1 42270 1jc4A 148 2.31e+01 1jc4A d.32.1.4 62863 1f1xA 322 2.38e+01 d.32.1.3 83208 d.32.1.3 83209 1hfoA 113 2.46e+01 d.80.1.3 61006 1jbeA 128 2.49e+01 3chy c.23.1.1 62845 1f1mA 164 2.49e+01 1ggqA a.24.12.1 59598 1q7lA 198 2.49e+01 c.56.5.4 -7886 1kr4A 125 2.49e+01 d.58.5.2 72889 1knzA 164 2.51e+01 e.34.1.1 68709 1v2yA 105 2.53e+01 d.15.1.1 -9148 1unnC 115 2.55e+01 unknown_sccs -10216 1vrtA 560 2.57e+01 1rthA c.55.3.1 33574 e.8.1.2 43023 1k8kD 300 2.63e+01 d.198.2.1 68309 d.198.2.1 68310 1dnlA 199 2.64e+01 1ci0A b.45.1.1 25753 3bamA 213 2.64e+01 1bam c.52.1.3 33288 1b0pA 1231 2.65e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1cot 129 2.68e+01 1ycc a.3.1.1 15899 1o6uA 403 2.73e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1h54A 754 2.75e+01 a.102.1.4 60634 b.30.5.3 60635 1ev0A 58 2.78e+01 1ev0A d.71.1.1 39594 1vhsA 175 2.79e+01 d.108.1.1 -10794 1jqeA 292 2.80e+01 c.66.1.19 71789 1r1mA 164 2.94e+01 unknown_sccs -10431 1fe0A 68 2.95e+01 1cc8A d.58.17.1 39345 1b67A 68 3.00e+01 1a7w a.22.1.2 16474 1p0hA 318 3.04e+01 d.108.1.1 -10802 1qnaA 200 3.07e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1mvoA 136 3.17e+01 c.23.1.1 79513 1adoA 363 3.19e+01 1fbaA c.1.10.1 29124 1j4aA 333 3.20e+01 c.2.1.4 71502 c.23.12.1 71503 1ryp1 222 3.26e+01 1ryp1 1q5fA 156 3.27e+01 1vg8A 207 3.37e+01 1di0A 158 3.39e+01 1di0A c.16.1.1 30957 1rtxA 123 3.39e+01 a.1.1.1 -3 1bm9A 122 3.39e+01 1bm9A a.4.5.7 16116 1k0rA 366 3.41e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1od6A 160 3.46e+01 c.26.1.3 86836 1s0uA 408 3.47e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1hx6A 394 3.52e+01 1cjdA b.121.2.1 58995 b.121.2.1 58996 1vetA 124 3.58e+01 1jmvA 141 3.58e+01 c.26.2.4 66897 2bidA 197 3.62e+01 2bidA f.1.4.1 43398 1jnyA 435 3.62e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1g0cA 364 3.71e+01 7a3hA c.1.8.3 60165 1smvA 260 3.72e+01 1smvA b.121.4.7 23288 1hpcA 131 3.74e+01 1htp b.84.1.1 28221 1ppjD 241 3.75e+01 1nu4A 97 3.75e+01 d.58.7.1 80731 1rgxA 114 3.79e+01 1b5tA 275 3.82e+01 1b5tA c.1.23.1 29676 1i1dA 161 3.90e+01 1i21A d.108.1.1 61526