# List of top-scoring protein chains for T0327.t2k-w0.5 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 1tbxA 99 1.53e-01 a.4.5.48 106748 1yyvA 131 1.79e-01 1i1gA 141 2.81e-01 a.4.5.32,d.58.4.2 65982,65983 1xmaA 145 6.06e-01 1an7A 136 6.10e-01 1seiA d.140.1.1 41465 1fjgH 138 6.19e-01 1seiA d.140.1.1 41468 1i94H 138 8.81e-01 1seiA d.140.1.1 61999 4rubS 123 1.03e+00 1rboC d.73.1.1 39621 3rubS 123 1.12e+00 1rboC d.73.1.1 39616 1hw1A 239 1.17e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1e2xA 243 1.18e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 1xdmA 365 1.20e+00 1ub9A 100 1.37e+00 a.4.5.28 99159 2b8tA 223 1.41e+00 1fdjA 363 1.50e+00 1fbaA c.1.10.1 59772 1qo5A 363 1.50e+00 1fbaA c.1.10.1 29102 1xmrA 243 1.53e+00 2g7uA 257 1.64e+00 1ln4A 104 2.07e+00 d.68.4.1 74043 1xfbA 365 2.45e+00 1fjrA 195 2.61e+00 1fjrA b.102.1.1 59855 2cucA 70 2.90e+00 2fswA 107 3.20e+00 1q1hA 110 3.41e+00 a.4.5.41 95580 1k61A 60 3.91e+00 a.4.1.1 77270 1v4rA 102 3.93e+00 1s1fA 406 4.16e+00 1se6A 406 4.16e+00 2d0eA 407 4.18e+00 1t93A 406 4.26e+00 2d09A 407 4.30e+00 1mnmC 87 4.75e+00 1akhB a.4.1.1 15983 1seiA 130 5.16e+00 1seiA d.140.1.1 41463 1bxnI 139 5.33e+00 1rboC d.73.1.1 39666 1fbaA 361 5.36e+00 1fbaA c.1.10.1 29120 1x6bA 79 5.37e+00 1ku9A 152 6.00e+00 a.4.5.36 77544 1le8B 83 6.02e+00 a.4.1.1 73868 1akhB 83 6.27e+00 1akhB a.4.1.1 15985 1sjpA 504 6.59e+00 1s1hH 129 6.80e+00 i.1.1.1 105160 1i6uA 130 7.09e+00 d.140.1.1 61850 1jgsA 138 7.77e+00 a.4.5.28 66683 2b0tA 738 9.40e+00 1s03G 129 9.55e+00 d.140.1.1 105144 1lluA 342 9.71e+00 b.35.1.2,c.2.1.1 91064,91065 2fbiA 142 9.99e+00 1uzdC 134 1.04e+01 1l7pA 211 1.05e+01 c.108.1.4 73670 1j97A 211 1.05e+01 1f5sA c.108.1.4 62753 1l7mA 211 1.05e+01 c.108.1.4 73664 1rduA 116 1.07e+01 c.55.5.1 104890 1wj5A 120 1.16e+01 1t71A 281 1.16e+01 1nyrA 645 1.21e+01 c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 92354,92355,92356,92357 1mxhA 276 1.22e+01 c.2.1.2 91490 1ur4A 399 1.23e+01 2ct3A 70 1.24e+01 1uzhC 122 1.24e+01 1c9wA 315 1.35e+01 1frb c.1.7.1 28699 1k78A 149 1.54e+01 a.4.1.5,a.4.1.5 68255,68256 1itwA 741 1.64e+01 c.77.1.2 76793 1gs5A 258 1.71e+01 c.73.1.2 70395 1avyA 74 1.75e+01 1avyB h.1.17.1 45656 1sxrA 183 1.99e+01 d.118.1.1 106101 2c5uA 375 2.00e+01 1s2jA 209 2.20e+01 d.118.1.1 105227 1q61A 350 2.25e+01 d.144.1.7 95955 1wdvA 152 2.36e+01 1ju2A 536 2.37e+01 c.3.1.2,d.16.1.1 77169,77170 2clqA 295 2.40e+01 1bouB 302 2.43e+01 1bouB c.56.6.1 33859 1xqaA 113 2.45e+01 1jzoA 216 2.48e+01 c.47.1.9,d.17.3.1 84267,84268 1jzdA 220 2.51e+01 c.47.1.9,d.17.3.1 84257,84258 1lddA 74 2.63e+01 a.4.5.34 73841 1xh9A 350 2.64e+01 1eejA 216 2.68e+01 1eejA c.47.1.9,d.17.3.1 33057,38071 1pdnC 128 2.69e+01 6paxA a.4.1.5 16047 1jalA 363 2.74e+01 c.37.1.8,d.15.10.2 84138,84139 1wi5A 119 2.78e+01 1vb2A 203 2.81e+01 1b8aA 438 2.94e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1z7uA 112 3.11e+01 1gmlA 178 3.14e+01 c.8.5.2 70273 1sb2B 129 3.24e+01 1h1yA 228 3.24e+01 c.1.2.2 76506 2b0lA 102 3.32e+01 1vakA 203 3.34e+01 1ir1S 123 3.43e+01 d.73.1.1 71290 1lrzA 426 3.43e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 2fbhA 146 3.50e+01 8rucI 123 3.50e+01 1rboC d.73.1.1 39629 1vb4A 232 3.68e+01 1x36A 237 3.71e+01 2aw4T 100 3.72e+01 1gsa 316 3.82e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1x35A 268 3.94e+01 2c71A 216 3.95e+01 1x33A 268 3.96e+01 1r9gA 216 3.99e+01 c.23.16.1 97258 1re0B 221 4.03e+01 a.118.3.1 97318 1iomA 377 4.09e+01 a.103.1.1 83698 2agaA 190 4.10e+01 2gnjA 350 4.13e+01 1xviA 275 4.17e+01 1yzbA 182 4.18e+01 2gngA 350 4.19e+01 1zuoA 186 4.35e+01 1npdA 288 4.42e+01 c.2.1.7,c.58.1.5 80681,80682 2cg4A 152 4.42e+01 2bb2 181 4.53e+01 2bb2 b.11.1.1,b.11.1.1 23604,23605 1zbfA 142 4.55e+01 1i0rA 169 4.60e+01 1i0rA b.45.1.2 61489 1vi2A 300 4.61e+01 c.2.1.7,c.58.1.5 100726,100727 2bleA 367 4.62e+01 1f3hA 142 4.92e+01 1f3hA g.52.1.1 45381 2acu 315 5.03e+01 1frb c.1.7.1 28676 1abn 315 5.05e+01 1frb c.1.7.1 28683 1xgdA 315 5.12e+01 2agtA 319 5.12e+01 1ads 315 5.13e+01 1frb c.1.7.1 28671 1zblA 139 5.14e+01 1blbC 204 5.14e+01 2bb2 b.11.1.1,b.11.1.1 23610,23611 1el3A 316 5.15e+01 1frb c.1.7.1 28672 1us0A 316 5.16e+01 c.1.7.1 99850 1blbA 204 5.16e+01 2bb2 b.11.1.1,b.11.1.1 23606,23607 1z3nA 319 5.22e+01 2g8fA 142 5.23e+01 2g8iA 142 5.23e+01 1az1 315 5.25e+01 1frb c.1.7.1 28677 1xkuA 330 5.36e+01 1xecA 329 5.36e+01 1r71A 178 5.39e+01 a.4.14.1 104823 1zl9A 207 5.41e+01 1jpaA 312 5.41e+01 d.144.1.7 67011 1aa0 113 5.52e+01 1aa0 h.1.17.1 45659 1q62A 350 5.52e+01 d.144.1.7 95956 1bg1A 596 5.53e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1dlaA 314 5.57e+01 1frb c.1.7.1 28690 1ah4 315 5.58e+01 1frb c.1.7.1 28684 1ah0 316 5.58e+01 1frb c.1.7.1 28685 2dkaA 544 5.74e+01 1wa3A 205 5.78e+01 1ytqA 204 6.04e+01 1dpuA 99 6.04e+01 1dpuA a.4.5.16 16150 2f2eA 146 6.08e+01 1eaxA 241 6.19e+01 b.47.1.2 64889 1hgxA 183 6.19e+01 1tc1A c.61.1.1 34027 1z1dA 103 6.21e+01 1jlnA 297 6.25e+01 1pty c.45.1.2 63172 1ir21 140 6.34e+01 1k7jA 206 6.35e+01 d.115.1.1 72103 1kk9A 221 6.41e+01 d.115.1.1 77432 1iyxA 432 6.44e+01 c.1.11.1,d.54.1.1 83815,83816 1smhA 350 6.47e+01 d.144.1.7 105757 1glv 303 6.55e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 1aipC 196 6.56e+01 1tfe a.5.2.2,d.43.1.1 58930,58931 1x4zA 121 6.64e+01 2alr 324 6.71e+01 1frb c.1.7.1 28679 1rgrA 99 6.84e+01 b.36.1.1 104931 1lj9A 144 6.96e+01 a.4.5.28 78035 1bd7A 176 7.07e+01 1amm b.11.1.1 23618 1u7eA 350 7.07e+01 1yj5A 383 7.16e+01 1q8dA 108 7.16e+01 a.228.1.1 104554 1h4pA 408 7.17e+01 c.1.8.3 90617 1zokA 93 7.35e+01 1a1nA 276 7.56e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1znvA 93 7.70e+01 1a1oA 276 7.81e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1a1mA 278 7.85e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1vlwA 217 7.97e+01 c.1.10.1 108868 1e28A 276 8.00e+01 1agdA b.1.1.2,d.19.1.1 20765,38272 1ft9A 222 8.06e+01 1ft9A a.4.5.4,b.82.3.1 16107,28131 1sfuA 75 8.08e+01 a.4.5.19 105503 1rniA 216 8.10e+01 d.264.1.2 97663 1t68X 180 8.10e+01 1fq3A 227 8.12e+01 5ptp b.47.1.2 26376 2cfxA 144 8.17e+01 2a61A 145 8.21e+01 1iruB 233 8.25e+01 d.153.1.4 71353 1iauA 227 8.34e+01 5ptp b.47.1.2 62124 1u2bA 138 8.41e+01 1cglA 169 8.44e+01 1hfc d.92.1.11 40341 1miqA 375 8.46e+01 b.50.1.2 79151 1ro2A 216 8.47e+01 d.264.1.2 97665 2dfkA 402 8.53e+01 1ydpA 275 8.59e+01 1n1aA 140 8.60e+01 d.26.1.1 79797 1pm1X 180 8.66e+01 b.60.1.1 104189 1uw9C 140 8.73e+01 1ffvA 163 8.75e+01 1qj2A a.56.1.1,d.15.4.2 17915,37700 1zybA 232 8.78e+01 1gk8I 140 8.82e+01 d.73.1.1 65242 1ue8A 367 8.84e+01 a.104.1.1 107781 1hqtA 326 8.84e+01 1frb c.1.7.1 61156 1fhwA 129 8.86e+01 1faoA b.55.1.1 26977 1pe9A 361 8.91e+01 b.80.1.1 94595 1jtaA 361 8.96e+01 b.80.1.1 71859