# 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 1ni7A 155 4.10e-01 d.224.1.1 85738 2gwrA 238 5.24e+00 1gadO 330 7.25e+00 1dssG c.2.1.3,d.81.1.1 29950,39865 1s7cA 331 7.26e+00 c.2.1.3,d.81.1.1 105346,105347 1gaeO 330 7.28e+00 1dssG c.2.1.3,d.81.1.1 29954,39869 1hyeA 313 8.64e+00 2cmd c.2.1.5,d.162.1.1 61400,61401 1xi8A 403 8.66e+00 7fabH 217 8.90e+00 1igtB b.1.1.1,b.1.1.2 19777,20887 1gsoA 431 9.58e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1bjx 110 1.04e+01 1bjx c.47.1.2 32774 1yrlA 491 1.07e+01 2dfdA 342 1.08e+01 1wu2A 396 1.08e+01 1x5xA 109 1.09e+01 1pv1A 299 1.14e+01 1x62A 79 1.16e+01 2avnA 260 1.25e+01 1yxbA 98 1.50e+01 1quqB 121 1.60e+01 1quqB b.40.4.3 25305 1z5nA 242 1.79e+01 4ecaA 326 1.86e+01 4pgaA c.88.1.1 35550 1u2zA 433 1.95e+01 c.66.1.31 107626 1kqzA 273 1.98e+01 c.1.8.5 68844 1kr1A 273 2.00e+01 c.1.8.5 68846 1wsaA 330 2.02e+01 4pgaA c.88.1.1 35558 1yvuA 706 2.04e+01 1dzlA 505 2.07e+01 1dzlA b.121.6.1 23586 1pswA 348 2.11e+01 c.87.1.7 88287 1usgA 346 2.23e+01 c.93.1.1 99864 1jazA 326 2.23e+01 c.88.1.1 90883 1nnsA 326 2.30e+01 c.88.1.1 85910 1mqsA 671 2.30e+01 e.25.1.1 79414 1uepA 103 2.32e+01 b.36.1.1 99270 1ho3A 326 2.35e+01 4pgaA c.88.1.1 61101 2bz6H 254 2.39e+01 1z5oA 242 2.39e+01 1azl 147 2.43e+01 5nul c.23.5.1 31154 1t3lA 337 2.43e+01 b.34.2.1,c.37.1.1 106358,106359 1jysA 242 2.44e+01 c.56.2.1 77216 1yxyA 234 2.52e+01 1xefA 241 2.57e+01 1mt0A 241 2.58e+01 c.37.1.12 85096 1j71A 334 2.62e+01 1eagA b.50.1.2 62669 1xhcA 367 2.65e+01 1gpwA 253 2.71e+01 c.1.2.1 65460 1rcuA 195 2.72e+01 c.129.1.1 97295 1thfD 253 2.76e+01 1thfD c.1.2.1 28535 1vh7A 265 2.82e+01 c.1.2.1 100646 2a0nA 265 2.82e+01 1vizA 240 2.88e+01 c.1.4.1 100784 1kdoA 227 3.23e+01 c.37.1.1 68478 1vddA 228 3.30e+01 e.49.1.1 108519 2c35A 152 3.31e+01 1ckeA 227 3.43e+01 1ckeA c.37.1.1 31846 1l7qA 574 3.48e+01 b.18.1.13,c.69.1.21 77791,77792 1l7rA 574 3.51e+01 b.18.1.13,c.69.1.21 77793,77794 1ju3A 583 3.59e+01 b.18.1.13,c.69.1.21 67300,67301 1zctA 290 3.62e+01 1wlqC 201 3.63e+01 a.4.5.52 109400 2eshA 118 4.07e+01 1klyA 247 4.16e+01 c.1.2.3 72730 1p3iB 102 4.17e+01 a.22.1.1 94015 1d2nA 272 4.26e+01 1d2nA c.37.1.20 32428 1nsf 273 4.30e+01 1d2nA c.37.1.20 32429 1t5hX 504 4.37e+01 e.23.1.1 106449 2ffeA 311 4.37e+01 1zlyA 203 4.39e+01 2cs5A 119 4.57e+01 2fz5A 137 4.62e+01 1meoA 209 4.62e+01 c.65.1.1 79035 1mejA 223 4.68e+01 c.65.1.1 79029 1x70A 728 4.69e+01 2bgrA 738 4.69e+01 1tk3A 728 4.69e+01 b.70.3.1,c.69.1.24 107069,107070 1r9nA 739 4.69e+01 1pfqA 731 4.69e+01 b.70.3.1,c.69.1.24 88061,88062 1r9mA 733 4.69e+01 b.70.3.1,c.69.1.24 104870,104871 1wcyA 740 4.72e+01 1h59B 54 4.72e+01 g.3.9.1 70881 1u8eA 728 4.73e+01 b.70.3.1,c.69.1.24 107733,107734 1o6vA 466 4.73e+01 b.1.18.15,c.10.2.1 81099,81100 1pf5A 131 4.85e+01 d.79.1.1 94604 1akw 147 5.00e+01 5nul c.23.5.1 31153 1zcuA 353 5.03e+01 1zcyA 353 5.04e+01 1haxB 240 5.06e+01 5ptp b.47.1.2 60883 1mldA 314 5.08e+01 2cmd c.2.1.5,d.162.1.1 30122,42089 1yocA 147 5.14e+01 1jc2A 76 5.22e+01 a.39.1.5 62862 1akr 147 5.30e+01 1rcf c.23.5.1 31152 1h4jA 599 5.50e+01 4aahA b.70.1.1 60590 1h4iA 599 5.50e+01 4aahA b.70.1.1 60586 1w6sA 599 5.53e+01 1wckA 220 5.55e+01 1zcvA 353 5.57e+01 2lbp 346 5.68e+01 2liv c.93.1.1 35709 1ovxA 67 5.70e+01 g.39.1.11 93622 1ll2A 333 5.71e+01 c.68.1.14 74005 1ll0A 339 5.75e+01 c.68.1.14 73995 1orvA 728 5.78e+01 b.70.3.1,c.69.1.24 87354,87355 1y80A 210 5.90e+01 1p9mA 299 6.13e+01 b.1.2.1,b.1.2.1,b.1.2.1 87991,87992,87993 1e6bA 221 6.23e+01 1e6bA a.45.1.1,c.47.1.5 59294,59295 1h0pA 182 6.23e+01 b.62.1.1 76450 1xdwA 331 6.27e+01 1i1rA 303 6.36e+01 1bquA b.1.2.1,b.1.2.1,b.1.2.1 61545,61546,61547 1y8aA 332 6.38e+01 1slm 255 6.48e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1np3A 338 6.55e+01 a.100.1.2,c.2.1.6 85946,85947 1tnw 162 6.73e+01 1ncx a.39.1.5 17235 1kte 105 6.79e+01 1kte c.47.1.1 32771 1djpA 330 6.87e+01 4pgaA c.88.1.1 35567 4pgaA 337 6.94e+01 4pgaA c.88.1.1 35565 1kr0A 273 7.06e+01 c.1.8.5 68845 1yr1A 119 7.07e+01 1odoA 408 7.09e+01 a.104.1.1 92783 1g2hA 61 7.10e+01 1g2hA a.4.1.12 60224 1g5bA 221 7.12e+01 1g5bA d.159.1.3 60261 1vyuA 351 7.20e+01 b.34.2.1,c.37.1.1 108914,108915 1g291 372 7.21e+01 1g291 1ea7A 310 7.52e+01 c.41.1.1 70086 1f1oA 431 7.55e+01 1f1oA a.127.1.1 19433 2ashA 381 7.61e+01 1p2cB 218 7.72e+01 b.1.1.1,b.1.1.2 93917,93918 2hlpA 303 7.83e+01 1ceqA c.2.1.5,d.162.1.1 30141,42108 1d3aA 303 7.85e+01 1ceqA c.2.1.5,d.162.1.1 30143,42110 1o6zA 303 7.86e+01 c.2.1.5,d.162.1.1 81107,81108 1p3fB 102 7.96e+01 a.22.1.1 93999 1em9A 154 8.01e+01 1d1dA a.73.1.1 18333 1lrwA 600 8.07e+01 b.70.1.1 91111 2femA 227 8.08e+01 1nb9A 147 8.23e+01 b.43.5.1 85515 1cr6A 554 8.31e+01 1cr6B c.69.1.11,c.108.1.2 34687,43337 1j0jA 588 8.47e+01 b.1.18.2,b.71.1.1,c.1.8.1 77039,77040,77041 1j0hA 588 8.55e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1q9sA 149 8.60e+01 b.43.5.1 96309 1xq8A 140 8.84e+01 1agx 331 8.88e+01 4pgaA c.88.1.1 35564 1wkoA 180 8.93e+01