# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1mzeA 351 2.52e-15 b.82.2.6 79694 1h2kA 349 2.74e-15 b.82.2.6 76572 2arcB 164 1.72e-02 2arcA b.82.4.1 28149 2aacA 177 1.84e-02 2arcA b.82.4.1 28150 2arcA 164 1.88e-02 2arcA b.82.4.1 28148 1j58A 385 2.54e-02 b.82.1.2 71531 1plzA 189 4.16e-02 b.82.1.7 88160 1qxrA 189 4.42e-02 1fi2A 201 8.54e-02 1fi2A b.82.1.2 59845 1cauB 184 1.20e-01 1caxB b.82.1.2 28103 2cavA 445 1.66e-01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1caxB 184 1.72e-01 1caxB b.82.1.2 28105 1cawB 184 1.78e-01 1caxB b.82.1.2 28113 1od5A 492 3.53e-01 b.82.1.2 86832 b.82.1.2 86833 1lr5A 163 6.97e-01 b.82.1.2 74215 1e5rA 290 7.68e-01 1e5rA b.82.2.4 59276 1qwrA 319 9.57e-01 1fnmA 691 1.05e+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 1ofnA 205 1.51e+00 1oi6A 205 1.51e+00 1nxmA 197 3.44e+00 b.82.1.1 86385 1rm8A 169 3.58e+00 1mrzA 293 3.95e+00 1a16 440 4.28e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1az9 457 4.35e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1nnt 328 4.55e+00 1nnt c.94.1.2 35884 2phlA 397 4.67e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1dar 691 5.40e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1fxzA 476 6.67e+00 b.82.1.2 65059 b.82.1.2 65060 1o4tA 133 6.94e+00 b.82.1.9 86622 1rl2A 137 9.13e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 1iejA 332 9.29e+00 1nnt c.94.1.2 62328 1nftA 329 1.10e+01 1nnt c.94.1.2 35881 1tfaA 329 1.12e+01 1nnt c.94.1.2 35880 1dgrC 178 1.13e+01 1dgwA b.82.1.2 28100 1oaoA 674 1.13e+01 e.26.1.2 86744 1dgwA 178 1.20e+01 1dgwA b.82.1.2 28090 1cauA 181 1.28e+01 1dgwA b.82.1.2 28102 4ts1A 319 1.37e+01 2ts1 c.26.1.1 31565 1ft9A 222 1.78e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1n62C 288 1.97e+01 d.87.2.1 80094 d.145.1.3 80095 1oltA 457 2.19e+01 1ni9A 338 2.21e+01 e.7.1.2 85739 1ep0A 185 2.24e+01 1dzrA b.82.1.1 28080 1ha3A 405 2.36e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1aipE 405 2.37e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1exmA 405 2.39e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1dgrM 93 2.45e+01 1caxB b.82.1.2 28101 1dgrW 93 2.46e+01 1caxB 1q15A 503 2.53e+01 1ifqA 138 2.57e+01 1ifqA d.110.4.1 62350 1pbuA 162 2.61e+01 d.58.46.1 88030 1o7jA 327 2.64e+01 c.88.1.1 81140 1jslA 327 2.66e+01 c.88.1.1 67233 1jsrA 327 2.69e+01 c.88.1.1 67237 1shwA 138 2.71e+01 1qwgA 251 2.73e+01 1n82A 331 2.81e+01 1hqsA 423 2.84e+01 1iso c.77.1.1 61154 1ns5A 155 2.93e+01 c.116.1.3 80705 1khbA 625 2.94e+01 c.91.1.1 68606 c.109.1.1 68607 3hmgA 328 3.09e+01 1hgeA b.19.1.2 23825 1agx 331 3.14e+01 4pgaA c.88.1.1 35564 1jztA 246 3.18e+01 c.104.1.1 63319 2ts1 419 3.19e+01 2ts1 c.26.1.1 31564 1fmtB 314 3.21e+01 1fmtA b.46.1.1 25759 c.65.1.1 34175 1hgeA 328 3.24e+01 1hgeA b.19.1.2 23816 1qj2C 285 3.39e+01 1qj2C 1smd 496 3.41e+01 1smd b.71.1.1 27768 c.1.8.1 28755 2viuA 328 3.46e+01 1hgeA b.19.1.2 23797 1uumA 372 3.54e+01 1ivnA 190 3.58e+01 c.23.10.5 83719 1f2rI 100 3.61e+01 1c9fA d.15.2.1 37641 1elt 236 3.65e+01 5ptp b.47.1.2 26281 1dgwY 93 3.70e+01 1caxB 1nzjA 298 3.75e+01 2rslA 140 3.96e+01 2rslA c.53.1.1 33345