# List of top-scoring protein chains for t06-100-30-str2-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 2b06A 155 1.01e-01 1dv1A 449 1.31e+00 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1np7A 489 1.78e+00 a.99.1.1,c.28.1.1 80677,80678 1m7vA 363 1.90e+00 d.174.1.1 78748 1om4A 422 2.17e+00 d.174.1.1 87067 1pbyB 337 2.18e+00 b.69.2.2 94422 1yspA 181 2.26e+00 1ofdA 1520 3.52e+00 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1vqoE 178 3.58e+00 1o50A 157 4.03e+00 d.37.1.1,d.37.1.1 92478,92479 1jmxB 349 4.33e+00 b.69.2.2 66906 1khtA 192 4.90e+00 c.37.1.1 84401 2bjvA 265 5.00e+00 1xg5A 279 5.31e+00 1w2yA 229 5.37e+00 a.204.1.1 109140 1ykiA 217 5.97e+00 2b0lA 102 8.47e+00 1zxxA 319 9.02e+00 1g6aA 271 9.35e+00 1btl e.3.1.1 42704 1sg6A 393 9.57e+00 e.22.1.1 105522 1jtvA 327 1.00e+01 c.2.1.2 84230 1tjyA 316 1.01e+01 c.93.1.1 107062 1amuA 563 1.05e+01 1amuA e.23.1.1 43351 1u69A 163 1.06e+01 d.32.1.7 107699 1ugpB 226 1.17e+01 b.34.4.4 107832 1xn5A 146 1.19e+01 1x38A 602 1.21e+01 1pj5A 830 1.29e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 2g8lA 299 1.29e+01 1dd9A 338 1.30e+01 1dd9A e.13.1.1 43254 1rkbA 173 1.32e+01 1zzmA 259 1.33e+01 1dpjA 329 1.41e+01 1smrA b.50.1.2 26828 2gsq 202 1.49e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1xneA 113 1.53e+01 1xffA 240 1.56e+01 d.153.1.1 109580 1i8kA 107 1.58e+01 b.1.1.1 71130 2afwA 329 1.61e+01 1iow 306 1.61e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1mrg 263 1.62e+01 1mrj d.165.1.1 42183 1z90A 469 1.69e+01 1fkmA 396 1.75e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 2f6rA 281 1.75e+01 1u9iA 519 1.77e+01 1h0hA 977 1.84e+01 b.52.2.2,c.81.1.1 76435,76436 1bbzA 58 1.88e+01 1bbzA b.34.2.1 24477 3cox 507 1.93e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 2cu3A 64 1.94e+01 1mkyA 439 1.98e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1b67A 68 2.05e+01 1a7w a.22.1.2 16474 1wr2A 238 2.05e+01 1wluA 136 2.05e+01 1msk 331 2.08e+01 1msk d.173.1.1 42495 1ma3A 253 2.13e+01 c.31.1.5 78883 1iqrA 420 2.14e+01 a.99.1.1,c.28.1.1 66275,66276 1e2wA 251 2.20e+01 1hcz b.2.6.1,b.84.2.2 22466,28252 1v8hA 107 2.22e+01 1lrzA 426 2.24e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1l3kA 196 2.26e+01 d.58.7.1,d.58.7.1 73539,73540 1yyqA 374 2.31e+01 1go3E 187 2.35e+01 b.40.4.5,d.230.1.1 83054,83055 1n9lA 109 2.36e+01 d.110.3.6 85468 1go4A 205 2.47e+01 d.135.1.1 70292 1a32 88 2.57e+01 1a32 a.16.1.2 16384 1xr4A 509 2.61e+01 1pkoA 139 2.69e+01 b.1.1.1 88147 1kveB 77 2.89e+01 1kveB 1mxgA 435 2.91e+01 b.71.1.1,c.1.8.1 85193,85194 1fxlA 167 2.97e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1qkrA 188 3.06e+01 1qkrA a.24.9.1 16628 2d37A 176 3.10e+01 1jmsA 381 3.12e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1j1yA 136 3.12e+01 d.38.1.5 90776 1molA 94 3.20e+01 1molA d.17.1.1 37988 1olmA 403 3.21e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1jv1A 505 3.25e+01 c.68.1.5 71892 1z41A 338 3.35e+01 1owfB 94 3.38e+01 a.55.1.1 87488 1n3kA 130 3.41e+01 a.77.1.4 79965 1luzA 88 3.44e+01 b.40.4.5 74271 1vjoA 393 3.48e+01 c.67.1.3 100827 1rfeA 162 3.51e+01 2fq4A 192 3.58e+01 1xu9A 286 3.62e+01 1zemA 262 3.62e+01 2g03A 194 3.69e+01 1tv8A 340 3.81e+01 c.1.28.3 107352 2au3A 407 3.90e+01 2a6hC 1119 3.96e+01 1lm4A 194 3.98e+01 d.167.1.1 84626 1ng6A 148 4.06e+01 a.182.1.1 85670 1p6oA 161 4.08e+01 c.97.1.2 94185 1sflA 238 4.17e+01 1vrmA 325 4.19e+01 2fkzA 155 4.19e+01 1yarH 217 4.40e+01 1l8aA 886 4.41e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1g0oA 283 4.46e+01 1ybvA c.2.1.2 60181 1n4wA 504 4.46e+01 c.3.1.2,d.16.1.1 91676,91677 1ub3A 220 4.50e+01 c.1.10.1 88395 1zo2A 129 4.51e+01 1vjpA 394 4.52e+01 c.2.1.3,d.81.1.3 100828,100829 2gq1A 332 4.53e+01 2fhzA 109 4.53e+01 1qq9A 284 4.55e+01 1xjo c.56.5.4 33841 1z8sA 146 4.56e+01 1pzgA 331 4.61e+01 c.2.1.5,d.162.1.1 95425,95426 1r9dA 787 4.71e+01 c.7.1.1 104865 2dkaA 544 4.71e+01 1z94A 147 4.74e+01 1gpc 218 4.81e+01 1gpc b.40.4.7 25393 1stzA 338 4.87e+01 a.4.5.51,d.110.2.3 106009,106010 1egwA 77 4.89e+01 1mnmA d.88.1.1 40234 1m8uA 173 4.90e+01 b.11.1.1,b.11.1.1 91233,91234 1awd 94 4.92e+01 1awd d.15.4.1 37673 1i1nA 226 4.94e+01 c.66.1.7 71102 1ev7A 317 4.95e+01 1ev7B c.52.1.9 33315 2gaiA 633 4.97e+01 1mhqA 148 5.06e+01 a.118.9.2 84973 1ws8A 109 5.06e+01 2fkiA 126 5.10e+01 1u7eB 154 5.13e+01 1ylnA 252 5.13e+01 1dkuA 317 5.16e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1wdjA 187 5.26e+01 2gw6A 123 5.27e+01 1uw4B 248 5.29e+01 a.118.1.14 100072 2cx1A 187 5.31e+01 1rz2A 254 5.36e+01 b.100.1.1 105130 1x6oA 174 5.37e+01 b.34.5.2,b.40.4.5 109493,109494 1k2xB 143 5.43e+01 1ooeA 236 5.50e+01 c.2.1.2 87196 1vmbA 140 5.50e+01 1z2uA 150 5.52e+01 2fq3A 104 5.53e+01 2a33A 215 5.61e+01 1o4tA 133 5.62e+01 b.82.1.9 86622 1a7w 69 5.64e+01 1a7w a.22.1.2 16477 1fm0D 81 5.72e+01 1fmaD d.15.3.1 37642 1xuvA 178 5.74e+01 1zlmA 58 5.75e+01 1rypC 244 5.92e+01 1rypC d.153.1.4 41934 1uwfA 158 5.97e+01 1s0yA 76 6.03e+01 d.80.1.1 98314 1ctj 89 6.03e+01 1ctj a.3.1.1 15798 1o0xA 262 6.06e+01 d.127.1.1 80755 1tkjA 284 6.06e+01 1ls9A 91 6.07e+01 a.3.1.1 78177 2bt6A 108 6.09e+01 1rypI 222 6.12e+01 d.153.1.4 41877 1ra6A 461 6.13e+01 e.8.1.4 104879 1ayaA 101 6.15e+01 1qadA d.93.1.1 40460 2bw4A 340 6.15e+01 1nz0A 118 6.19e+01 d.14.1.2 86433 2a9gA 418 6.20e+01 1qqfA 277 6.22e+01 1c3d a.102.4.4 18875 1f60B 94 6.23e+01 1b64 d.58.12.1 39307 2azwA 148 6.26e+01 2fo3A 125 6.30e+01 1z98A 281 6.37e+01 1rypH 205 6.39e+01 d.153.1.4 41876 1jb0D 138 6.41e+01 1jb0D d.187.1.1 62823 1a62 130 6.53e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 2a1kA 233 6.63e+01 1shuX 182 6.64e+01 c.62.1.1 98882 2gcuA 245 6.65e+01 1dmlB 36 6.65e+01 1dmlB 2calA 154 6.73e+01 1n0uA 842 6.75e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1y0hA 105 6.76e+01 2ddfA 257 6.89e+01 1wzvA 155 6.90e+01 2rhe 114 7.00e+01 8fabA b.1.1.1 20523 1cqmA 101 7.06e+01 1ris d.58.14.1 39321 1ykdA 398 7.08e+01 1vhrA 184 7.10e+01 1vhrA c.45.1.1 32651 1wmhB 86 7.14e+01 1o5hA 214 7.16e+01 a.191.1.1 92497 1io2A 213 7.17e+01 1ekeA c.55.3.1 62612 1yixA 265 7.21e+01 1xvsA 126 7.26e+01 1k1fA 72 7.28e+01 a.147.1.1 68007 1a34A 159 7.37e+01 1a34A b.121.7.1 23286 1u19A 349 7.38e+01 1vqoT 120 7.45e+01 1xc3A 302 7.52e+01 1q7hA 153 7.54e+01 b.122.1.1,d.17.6.2 96042,96043 1dvpA 220 7.54e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1sl4A 155 7.57e+01 d.169.1.1 105710 2dh4A 340 7.61e+01 1kqfA 1015 7.63e+01 b.52.2.2,c.81.1.1 72871,72872 1hn4A 131 7.66e+01 a.133.1.2 65893 1cojA 212 7.67e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1o6aA 96 7.70e+01 b.139.1.1 92562 2bu3A 254 7.71e+01 1guzA 310 7.73e+01 c.2.1.5,d.162.1.1 65586,65587 1t7lA 766 7.76e+01 1vcsA 102 7.77e+01 1nqkA 381 7.82e+01 c.1.16.4 92050 3tss 194 7.92e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1zud1 251 7.94e+01 1ayl 541 7.96e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1mngA 203 7.97e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1h6fA 193 8.00e+01 b.2.5.4 70901 1zhxA 438 8.00e+01 1nm2A 317 8.04e+01 c.19.1.1,d.58.23.1 80654,80655 2f6hX 419 8.13e+01 1ruwA 69 8.15e+01 1li5A 461 8.21e+01 a.27.1.1,c.26.1.1 73912,73913 2fckA 181 8.22e+01 1g31A 111 8.25e+01 1g31A b.35.1.1 24656 1rypK 198 8.26e+01 d.153.1.4 41879 1jg1A 235 8.28e+01 c.66.1.7 66661 1j8uA 325 8.32e+01 d.178.1.1 71611 1wguA 136 8.51e+01 1xeeA 91 8.56e+01 1kgcE 242 8.59e+01 b.1.1.1,b.1.1.2 77386,77387 1xrxA 50 8.60e+01 1qpcA 279 8.61e+01 1fgkA d.144.1.7 41685 1wn2A 121 8.62e+01 1sj1A 66 8.62e+01 d.58.1.4 105595 1yfnA 118 8.73e+01 1gpmA 525 8.77e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1lucA 355 8.79e+01 1lucA c.1.16.1 29547 1snrA 341 8.80e+01 b.6.1.3,b.6.1.3 105823,105824 2fhzB 108 8.87e+01 1nar 290 8.89e+01 1nar c.1.8.5 28988 1zud2 66 8.90e+01 1p32A 209 8.93e+01 1p32A d.25.1.1 38379 1nni1 174 8.97e+01