# 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.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 1h2kA 349 3.43e-12 b.82.2.6 76572 1mzeA 351 5.73e-12 b.82.2.6 79694 2arcB 164 5.01e-02 2arcA b.82.4.1 28149 1fi2A 201 5.03e-02 1fi2A b.82.1.2 59845 2aacA 177 5.61e-02 2arcA b.82.4.1 28150 2cavA 445 6.21e-02 1dgwA b.82.1.2 28094 b.82.1.2 28095 1cawB 184 7.28e-02 1caxB b.82.1.2 28113 1cauB 184 8.00e-02 1caxB b.82.1.2 28103 2arcA 164 8.31e-02 2arcA b.82.4.1 28148 1j58A 385 1.44e-01 b.82.1.2 71531 1plzA 189 1.56e-01 b.82.1.7 88160 1qxrA 189 2.08e-01 1caxB 184 4.77e-01 1caxB b.82.1.2 28105 1fxzA 476 8.14e-01 b.82.1.2 65059 b.82.1.2 65060 1od5A 492 8.78e-01 b.82.1.2 86832 b.82.1.2 86833 1lr5A 163 1.13e+00 b.82.1.2 74215 1pbuA 162 1.46e+00 d.58.46.1 88030 1fnmA 691 1.46e+00 1dar b.43.3.1 25709 c.37.1.8 32144 d.14.1.1 37546 d.58.11.1 39302 d.58.11.1 39303 1qwrA 319 1.56e+00 1oi6A 205 2.18e+00 1ofnA 205 2.87e+00 2phlA 397 2.97e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1nxmA 197 3.63e+00 b.82.1.1 86385 1e5rA 290 3.65e+00 1e5rA b.82.2.4 59276 1rm8A 169 4.82e+00 1o4tA 133 7.33e+00 b.82.1.9 86622 1dar 691 7.87e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1nnt 328 8.39e+00 1nnt c.94.1.2 35884 1dctA 324 8.72e+00 6mhtA c.66.1.26 34244 1g55A 343 1.01e+01 1g55A c.66.1.26 34247 1fnd 314 1.33e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1fnc 314 1.37e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1nftA 329 1.40e+01 1nnt c.94.1.2 35881 1tfaA 329 1.42e+01 1nnt c.94.1.2 35880 1iejA 332 1.47e+01 1nnt c.94.1.2 62328 1qo7A 394 1.53e+01 1qo7A c.69.1.11 34697 1khbA 625 1.68e+01 c.91.1.1 68606 c.109.1.1 68607 1rl2A 137 1.70e+01 1rl2A b.34.5.3 24610 b.40.4.5 25342 1dgrC 178 1.75e+01 1dgwA b.82.1.2 28100 1qg0A 308 1.79e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1fnb 314 1.81e+01 1fnc b.43.4.2 25628 c.25.1.1 31518 1vddA 228 1.83e+01 1qlaA 656 1.84e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1dgwA 178 2.18e+01 1dgwA b.82.1.2 28090 1o04A 500 2.33e+01 c.82.1.1 86508 1cauA 181 2.37e+01 1dgwA b.82.1.2 28102 1e6qM 501 2.44e+01 1e70M c.1.8.4 28920 1mrzA 293 2.46e+01 1e70M 501 2.82e+01 1e70M c.1.8.4 28926 1q15A 503 2.84e+01 1hf2A 210 2.97e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1az9 457 3.06e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1a16 440 3.08e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1juhA 350 3.11e+01 b.82.1.5 71884 1shwA 138 3.29e+01 1v5lA 103 3.30e+01 1n62C 288 3.35e+01 d.87.2.1 80094 d.145.1.3 80095 1ifqA 138 3.36e+01 1ifqA d.110.4.1 62350 1b0jA 754 3.44e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1o7jA 327 3.49e+01 c.88.1.1 81140 3hmgA 328 3.56e+01 1hgeA b.19.1.2 23825 1ufoA 238 3.58e+01 1h1iC 350 3.63e+01 b.82.1.5 76471 4ts1A 319 3.65e+01 2ts1 c.26.1.1 31565 1ep0A 185 3.67e+01 1dzrA b.82.1.1 28080 1jztA 246 3.69e+01 c.104.1.1 63319 6acn 754 3.71e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1qj2C 285 3.78e+01 1qj2C 1c96A 753 3.80e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1gnuA 117 3.84e+01 d.15.1.3 65403 2viuA 328 3.95e+01 1hgeA b.19.1.2 23797