# List of top-scoring protein chains for t2k.100-30-stride-ebghtl 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.soe.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 2hbwA 235 6.77e-04 3h41A 311 2.28e-03 2evrA 246 4.19e-03 b.34.11.3 132440 d.3.1.16 132441 1n27A 96 5.23e-02 b.34.9.2 91549 3eaeA 93 7.99e-02 3gt2A 142 5.56e-01 3gg8A 511 6.26e-01 2p1gA 249 7.92e-01 1o54A 277 8.50e-01 c.66.1.13 92482 2bh8A 101 9.67e-01 1u1jA 765 3.31e+00 c.1.22.2 107590 c.1.22.2 107591 3ebqA 170 3.54e+00 2im9A 333 4.20e+00 d.3.1.13 137508 2xdvA 442 4.65e+00 2if6A 186 6.13e+00 d.3.1.21 147651 3gydA 187 6.34e+00 1z85A 234 7.39e+00 1vqoT 120 8.10e+00 b.34.5.1 120381 2px2A 269 8.40e+00 1yb3A 175 8.43e+00 d.296.1.2 122869 2nn6H 308 8.71e+00 b.40.4.5 148310 b.84.4.2 148311 d.51.1.1 148312 1iv0A 98 8.78e+00 c.55.3.8 90706 2do3A 69 9.39e+00 b.34.5.5 131596 1uzxA 169 9.40e+00 d.20.1.2 100238 1aqb 183 9.64e+00 1aqb 1jj2S 119 9.70e+00 1ffkQ b.34.5.1 63104 2gmsA 390 1.01e+01 1wf3A 301 1.12e+01 c.37.1.8 114574 d.52.3.1 114575 2uvfA 608 1.17e+01 1e5rA 290 1.19e+01 1e5rA b.82.2.4 59276 3mqzA 215 1.23e+01 1i7pA 274 1.26e+01 b.43.4.2 66048 c.25.1.1 66049 3b6nA 187 1.26e+01 2a6aA 218 1.27e+01 c.55.1.9 126231 c.55.1.9 126232 1xdnA 277 1.28e+01 d.142.2.4 115168 1ffkQ 119 1.34e+01 1ffkQ b.34.5.1 24605 2w1kA 252 1.36e+01 3fg1A 696 1.37e+01 1qx4A 274 1.37e+01 b.43.4.2 104624 c.25.1.1 104625 1kt6A 183 1.38e+01 b.60.1.1 84466 1umkA 275 1.40e+01 b.43.4.2 113312 c.25.1.1 113313 3l9aX 88 1.44e+01 2gu2A 312 1.46e+01 c.56.5.7 147177 1k8kD 300 1.58e+01 d.198.2.1 68309 d.198.2.1 68310 1w44A 331 1.59e+01 c.37.1.11 114147 1jcfA 344 1.59e+01 c.55.1.1 62878 c.55.1.1 62879 3a1sA 258 1.59e+01 1hbq 183 1.60e+01 1aqb 1ndh 272 1.64e+01 1ndh 1vpmA 169 1.80e+01 d.38.1.1 113967 2vhjA 331 1.86e+01 1y7mA 164 1.88e+01 b.160.1.1 122696 d.7.1.1 122697 3jyhA 469 1.93e+01 2aacA 177 1.95e+01 2arcA b.82.4.1 28150 1yrrA 382 2.00e+01 b.92.1.5 123935 c.1.9.10 123936 2arcA 164 2.02e+01 2arcA b.82.4.1 28148 2k3aA 155 2.05e+01 1yn8A 59 2.20e+01 3hidA 432 2.34e+01 3ie4A 107 2.37e+01 1vj0A 380 2.40e+01 b.35.1.2 100786 c.2.1.1 100787 2hhiA 204 2.40e+01 2z0tA 109 2.41e+01 2pr1A 163 2.41e+01 1kcxA 518 2.42e+01 b.92.1.3 90953 c.1.9.6 90954 3js6A 355 2.46e+01 1i58A 189 2.52e+01 1b3qA d.122.1.3 61773 2odtX 328 2.53e+01 2ijmA 281 2.53e+01 d.144.1.7 147714 2gjlA 328 2.62e+01 1wz3A 96 2.65e+01 d.15.1.7 121478 3fg4A 696 2.75e+01 2a28A 54 2.80e+01 2q4zA 312 2.81e+01 3b8xA 390 2.81e+01 2brjA 188 2.83e+01 b.159.1.1 146213 3fg3A 696 2.84e+01 1m5yA 408 3.00e+01 a.223.1.2 78664 d.26.1.1 78665 d.26.1.1 78666 2ztgA 739 3.11e+01 1fwcC 567 3.14e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1m5q1 130 3.16e+01 2wocA 299 3.17e+01 3gzxA 457 3.17e+01 1xjaA 178 3.18e+01 b.82.4.1 115382 3hpaA 479 3.18e+01 1kn9A 249 3.19e+01 b.87.1.2 68699 2dqaA 124 3.20e+01 1ejxC 567 3.22e+01 b.92.1.1 83184 c.1.9.2 83185 3hyqA 184 3.23e+01 1a5kC 566 3.33e+01 1ubpC b.92.1.1 28425 c.1.9.2 29047 1z8kA 193 3.44e+01 b.159.1.1 124703 2ausB 60 3.48e+01 3hq2A 501 3.50e+01 1a5mC 566 3.52e+01 1ubpC b.92.1.1 28423 c.1.9.2 29045 1iciA 256 3.54e+01 1iciA c.31.1.5 62266 2woeA 299 3.57e+01 2fnjA 226 3.58e+01 b.29.1.22 133818 1g5cA 170 3.58e+01 1g5cA c.53.2.1 60264 2rh0A 157 3.65e+01 1a5lC 566 3.69e+01 1ubpC b.92.1.1 28426 c.1.9.2 29048 1ejrC 567 3.72e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 3gn3A 182 3.73e+01 1gcqC 70 3.74e+01 1gcpA b.34.2.1 60436 1yliA 153 3.77e+01 d.38.1.1 123651 4ubpC 570 3.82e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1i2sA 282 3.86e+01 e.3.1.1 71104 1ie7C 570 3.87e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1t7lA 766 3.88e+01 2f6eA 127 3.89e+01 2klsA 164 3.91e+01 1adeA 431 3.97e+01 1adeA c.37.1.10 32213