# List of top-scoring protein chains for T0321.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 1g8aA 227 5.95e-01 c.66.1.3 90506 1pryA 227 8.66e-01 c.66.1.3 95063 1ni7A 155 3.85e+00 d.224.1.1 85738 1mejA 223 3.95e+00 c.65.1.1 79029 1yrlA 491 4.89e+00 1zlyA 203 5.68e+00 1meoA 209 5.82e+00 c.65.1.1 79035 1gg4A 452 5.82e+00 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1djlA 207 6.76e+00 1d4oA c.31.1.4 31746 4ecaA 326 7.41e+00 4pgaA c.88.1.1 35550 1nnsA 326 8.11e+00 c.88.1.1 85910 1ho3A 326 8.22e+00 4pgaA c.88.1.1 61101 1jazA 326 1.01e+01 c.88.1.1 90883 1flcB 175 1.02e+01 1flcB h.3.1.1 45716 1oy5A 257 1.25e+01 c.116.1.4 93718 1m54A 363 1.35e+01 c.79.1.1 74463 1u2eA 289 1.36e+01 1j0hA 588 1.37e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1j0jA 588 1.38e+01 b.1.18.2,b.71.1.1,c.1.8.1 77039,77040,77041 1u2zA 433 1.39e+01 c.66.1.31 107626 1cuk 203 1.40e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1jjoC 261 1.41e+01 1jbqA 435 1.46e+01 1oasA c.79.1.1 62850 1hjp 203 1.59e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1bswA 197 1.62e+01 1atlA d.92.1.9 40329 1budA 197 1.63e+01 1atlA d.92.1.9 40328 2b4wA 315 1.69e+01 1jr9A 202 1.73e+01 a.2.11.1,d.44.1.1 71822,71823 2dfdA 342 1.78e+01 1t3lA 337 1.88e+01 b.34.2.1,c.37.1.1 106358,106359 1pyfA 312 1.90e+01 c.1.7.1 95334 1an7A 136 2.09e+01 1seiA d.140.1.1 41465 1fjgH 138 2.10e+01 1seiA d.140.1.1 41468 1dzlA 505 2.13e+01 1dzlA b.121.6.1 23586 2avnA 260 2.22e+01 1wsaA 330 2.26e+01 4pgaA c.88.1.1 35558 1bjx 110 2.51e+01 1bjx c.47.1.2 32774 1rcuA 195 2.59e+01 c.129.1.1 97295 1x5xA 109 2.71e+01 1hyeA 313 2.92e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1xi8A 403 2.93e+01 1d8lA 149 2.96e+01 1hjp a.60.2.1,b.40.4.2 17948,25267 1wlqC 201 3.02e+01 a.4.5.52 109400 2fz5A 137 3.28e+01 1xdwA 331 3.34e+01 1quqB 121 3.74e+01 1quqB b.40.4.3 25305 1bdg 451 3.75e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1pv1A 299 3.82e+01 1jb3A 131 3.85e+01 1jc7A b.40.3.2 62833 1jc7A 131 3.86e+01 1jc7A b.40.3.2 62873 1s7zA 117 3.88e+01 a.159.3.1 98715 1yvuA 706 3.93e+01 1tcwA 99 3.94e+01 1fmb b.50.1.1 26760 1pxuA 131 3.94e+01 b.40.3.2 104383 1k7cA 233 4.29e+01 c.23.10.4 68267 1i94H 138 4.32e+01 1seiA d.140.1.1 61999 1wkiA 141 4.37e+01 1x62A 79 4.54e+01 1v8bA 479 4.62e+01 2c27A 315 4.64e+01 1p0hA 318 4.65e+01 d.108.1.1 93866 2sam 99 4.66e+01 1fmb b.50.1.1 26755 1az5 99 4.73e+01 1hvc b.50.1.1 26747 1sip 99 4.82e+01 1fmb b.50.1.1 26757 2gwrA 238 4.84e+01 1d4oA 184 5.00e+01 1d4oA c.31.1.4 31748 1n71A 180 5.09e+01 d.108.1.1 85370 1b87A 181 5.10e+01 1b87A d.108.1.1 40797 2a4nA 182 5.13e+01 1paqA 189 5.35e+01 a.118.1.14 94413 1u8vA 490 5.36e+01 1snyA 267 5.60e+01 c.2.1.2 105833 1wu2A 396 5.66e+01 1djpA 330 5.75e+01 4pgaA c.88.1.1 35567 1sjdA 368 5.76e+01 c.1.11.2,d.54.1.1 105632,105633 1b5tA 275 5.77e+01 1b5tA c.1.23.1 29676 1def 147 5.81e+01 1bs4A d.167.1.1 42306 2def 147 5.84e+01 1bs4A d.167.1.1 42305 1g3oA 106 5.85e+01 1a6l d.58.1.2 38959 1tlfA 301 5.97e+01 1tlfA c.93.1.1 35687 1pd21 199 5.97e+01 1pd21 1dgnA 89 5.98e+01 1dgnA a.77.1.3 18436 4pgaA 337 6.00e+01 4pgaA c.88.1.1 35565 1g5cA 170 6.03e+01 1g5cA c.53.2.1 60264 1vjnA 220 6.09e+01 d.157.1.4 100825 1dff 164 6.29e+01 1bs4A d.167.1.1 42304 1efaA 333 6.30e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1jyfA 349 6.35e+01 c.93.1.1 67456 1a5z 319 6.37e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1pw4A 451 6.39e+01 f.38.1.1 95198 1xeoA 168 6.40e+01 1lbiA 360 6.41e+01 1tlfA c.93.1.1 35694 1jyeA 349 6.49e+01 c.93.1.1 67455 1rm1B 122 6.77e+01 1z3eB 73 7.14e+01 1ku1A 230 7.16e+01 a.118.3.1 72996 2fmnA 304 7.18e+01 2fug6 181 7.20e+01 1lmzA 187 7.22e+01 a.96.1.4 74037 1quaA 197 7.25e+01 1atlA d.92.1.9 40330 1zp4A 304 7.36e+01 1tp5A 119 7.41e+01 1zp3A 304 7.46e+01 1kdoA 227 7.56e+01 c.37.1.1 68478 1nh2D 121 7.58e+01 a.32.1.1,b.56.1.1 91876,91877 1ckeA 227 7.67e+01 1ckeA c.37.1.1 31846 1atlA 202 7.80e+01 1atlA d.92.1.9 40322 1dthA 203 7.83e+01 1atlA d.92.1.9 40324 1qr0A 228 8.41e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1np3A 338 8.66e+01 a.100.1.2,c.2.1.6 85946,85947 1qlaA 656 8.98e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1cv8 174 9.00e+01 1cv8 d.3.1.1 37089