# List of top-scoring protein chains for t2k-100-30-bys 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 1.17e-17 b.82.2.6 76572 1mzeA 351 1.83e-17 b.82.2.6 79694 1qxrA 189 4.58e-04 b.82.1.7 -4834 1plzA 189 4.75e-04 b.82.1.7 88160 1fi2A 201 7.99e-04 1fi2A b.82.1.2 59845 1j58A 385 1.77e-03 b.82.1.2 71531 2arcA 164 3.97e-03 2arcA b.82.4.1 28148 2arcB 164 4.33e-03 2arcA b.82.4.1 28149 2aacA 177 4.60e-03 2arcA b.82.4.1 28150 1od5A 492 2.26e-02 b.82.1.2 86832 b.82.1.2 86833 1oi6A 205 6.19e-02 1ofnA 205 7.23e-02 b.82.1.1 -4830 1lr5A 163 8.08e-02 b.82.1.2 74215 1qwrA 319 1.12e-01 b.82.1.3 -4880 1cauB 184 1.13e-01 1caxB b.82.1.2 28103 1caxB 184 1.35e-01 1caxB b.82.1.2 28105 2cavA 445 1.44e-01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1cawB 184 2.24e-01 1caxB b.82.1.2 28113 1o4tA 133 3.49e-01 b.82.1.9 86622 1nxmA 197 5.71e-01 b.82.1.1 86385 1oaoA 674 6.34e-01 e.26.1.2 86744 1e5rA 290 7.41e-01 1e5rA b.82.2.4 59276 1dgrW 93 9.38e-01 1caxB 1dgrM 93 9.56e-01 1caxB b.82.1.2 28101 1fxzA 476 1.21e+00 b.82.1.2 65059 b.82.1.2 65060 1dgwY 93 1.25e+00 1caxB 1fnmA 691 1.96e+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 1nftA 329 2.02e+00 1nnt c.94.1.2 35881 1juhA 350 2.05e+00 b.82.1.5 71884 1nzjA 298 2.14e+00 c.26.1.1 -6600 1iejA 332 2.30e+00 1nnt c.94.1.2 62328 1uw6A 211 2.34e+00 b.96.1.1 -3077 1dryA 324 2.46e+00 1drtA b.82.2.2 28128 1oltA 457 2.53e+00 unknown_sccs -5688 1i9bA 217 2.80e+00 1i9bA b.96.1.1 62084 1dupA 152 2.87e+00 1dupA b.85.4.1 28351 1jhdA 396 2.89e+00 b.122.1.3 66712 c.26.1.5 66713 1tfaA 329 2.91e+00 1nnt c.94.1.2 35880 1nnt 328 2.99e+00 1nnt c.94.1.2 35884 1h1iB 350 3.11e+00 b.82.1.5 76470 1drtA 324 3.11e+00 1drtA b.82.2.2 28130 1h1iC 350 3.15e+00 b.82.1.5 76471 1h1iD 350 3.16e+00 b.82.1.5 76472 1jcfA 344 3.20e+00 c.55.1.1 62878 c.55.1.1 62879 1euwA 152 3.23e+00 1dupA b.85.4.1 28349 1uu1A 335 3.45e+00 c.67.1.1 -8146 1o5uA 101 3.57e+00 b.82.1.8 -4845 1jceA 344 3.74e+00 c.55.1.1 62876 c.55.1.1 62877 1ds1A 324 4.26e+00 1drtA b.82.2.2 28127 1ep0A 185 4.54e+00 1dzrA b.82.1.1 28080 4ts1A 319 4.81e+00 2ts1 c.26.1.1 31565 1lj2A 110 5.28e+00 h.1.13.2 73926 1jb9A 316 5.46e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 1id2A 106 5.67e+00 1aac b.6.1.1 62288 1mrzA 293 6.04e+00 b.43.5.1 -4048 c.26.1.3 -6616 1dzrA 183 6.09e+00 1dzrA b.82.1.1 28076 1exmA 405 6.22e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1j31A 262 6.34e+00 d.160.1.2 -11473 1lgpA 116 7.41e+00 b.26.1.2 73890 1ko3A 230 7.50e+00 d.157.1.1 -11454 1j8yF 297 7.81e+00 1ng1 a.24.13.1 62747 c.37.1.10 62748 1ha3A 405 7.88e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1rl2A 137 8.46e+00 1rl2A b.34.5.3 24610 b.40.4.5 25342 1r6dA 337 9.00e+00 c.2.1.2 -5757 2phlA 397 9.12e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1n5dA 288 9.60e+00 c.2.1.2 80030 1i5pA 633 9.61e+00 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1dgwA 178 1.03e+01 1dgwA b.82.1.2 28090 2viuA 328 1.06e+01 1hgeA b.19.1.2 23797 1bxkA 355 1.10e+01 1bxkA c.2.1.2 29803 1hu4A 288 1.10e+01 1hu4A 1mat 264 1.11e+01 1c24A d.127.1.1 41152 1j8mF 297 1.13e+01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1hgeA 328 1.14e+01 1hgeA b.19.1.2 23816 1div 149 1.17e+01 1div d.99.1.1 40692 d.100.1.1 40693 1pmy 123 1.17e+01 1bqk b.6.1.1 22888 1paz 123 1.20e+01 1bqk b.6.1.1 22878 1dgrC 178 1.20e+01 1dgwA b.82.1.2 28100 1pysA 350 1.22e+01 1pysA d.104.1.1 40775 1ji8A 111 1.28e+01 d.203.1.1 66733 1cauA 181 1.34e+01 1dgwA b.82.1.2 28102 1bf6A 291 1.36e+01 1pscA c.1.9.3 29065 3hmgA 328 1.37e+01 1hgeA b.19.1.2 23825 1dbuA 158 1.49e+01 1dbuA d.116.1.1 40930 1o5nA 126 1.51e+01 1vj2A 126 1.51e+01 unknown_sccs -4850 1dgmA 363 1.51e+01 1bx4A c.72.1.1 34936 1lct 333 1.55e+01 1cb6A c.94.1.2 35836 1sr9A 644 1.56e+01 1ajsA 412 1.56e+01 1ajsA c.67.1.1 34276 1liiA 363 1.60e+01 c.72.1.1 73921 2ay1A 394 1.66e+01 1ajsA c.67.1.1 34357 1gr3A 160 1.67e+01 b.22.1.1 65476 1v1rA 400 1.69e+01 1bqk 124 1.79e+01 1bqk b.6.1.1 22889 1aipE 405 1.80e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1dar 691 1.81e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1d2fA 390 1.83e+01 1d2fA c.67.1.3 34411 1cd1A 315 1.87e+01 1cd1A b.1.1.2 21579 d.19.1.1 38155 1hdcA 253 1.88e+01 1e6wA c.2.1.2 29862 1hqsA 423 1.90e+01 1iso c.77.1.1 61154 1jsxA 207 1.93e+01 c.66.1.20 71846 1kyqA 274 1.97e+01 c.2.1.11 73281 e.37.1.1 73282 2hsdA 253 1.99e+01 1e6wA c.2.1.2 29866 1d02A 202 1.99e+01 1d02A c.52.1.8 33313 1gcpA 70 2.00e+01 1gcpA b.34.2.1 60430 1ixmA 192 2.09e+01 1ixmA d.123.1.1 41114 1innA 166 2.09e+01 1j98A d.185.1.2 62608 1cb6A 691 2.13e+01 1cb6A c.94.1.2 35840 c.94.1.2 35841 1f2rI 100 2.13e+01 1c9fA d.15.2.1 37641 1uiuA 502 2.16e+01 c.94.1.1 -8674 1b7yA 350 2.24e+01 1pysA d.104.1.1 40776 1jpnA 296 2.26e+01 a.24.13.1 67039 c.37.1.10 67040 1ni9A 338 2.27e+01 e.7.1.2 85739 1qwlA 505 2.31e+01 e.5.1.1 -11823 1ddgA 374 2.32e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 2ng1 293 2.33e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1o04A 500 2.35e+01 c.82.1.1 86508 1lv7A 257 2.38e+01 c.37.1.20 78232 1dqyA 283 2.42e+01 1dqyA c.69.1.3 34640 1az9 457 2.45e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1dgrV 79 2.45e+01 1caxB b.82.1.2 28099 1ugmA 125 2.48e+01 1hdoA 206 2.48e+01 1he2A c.2.1.2 60965 1ls1A 295 2.52e+01 a.24.13.1 78170 c.37.1.10 78171 1dgrN 79 2.56e+01 1caxB 1vjeA 166 2.58e+01 d.185.1.2 -10261 1gkxA 388 2.59e+01 a.29.5.1 65266 d.122.1.4 65267 1hfoA 113 2.61e+01 d.80.1.3 61006 1m12A 84 2.69e+01 a.64.1.1 84745 1msc 129 2.70e+01 1msc d.85.1.1 40039 1dqzA 280 2.75e+01 1dqyA c.69.1.3 34638 1ng1 294 2.75e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1c24A 263 2.76e+01 1c24A d.127.1.1 41148 1pcfA 66 2.80e+01 1pcfA d.18.1.1 38142 1fioA 196 2.81e+01 1fioA a.47.2.1 17773 1pv9A 348 2.85e+01 c.55.2.1 -7610 d.127.1.1 -11000 1k6dA 220 2.85e+01 unknown_sccs 72082 1puoA 170 2.90e+01 a.101.1.1 -1318 a.101.1.1 -1322 1qqp1 213 2.92e+01 1qqp1 1uk5A 111 2.94e+01 a.7.7.1 -395 1he2A 206 2.99e+01 1he2A c.2.1.2 60966 1n62C 288 2.99e+01 d.87.2.1 80094 d.145.1.3 80095 1q87A 221 2.99e+01 unknown_sccs -12028 1gmjC 84 3.05e+01 h.4.8.1 65312 2ms2A 129 3.06e+01 1msc d.85.1.1 40049 1qj2C 285 3.15e+01 1qj2C 1gkzA 388 3.16e+01 a.29.5.1 65268 d.122.1.4 65269 7aatA 401 3.24e+01 1ajsA c.67.1.1 34250 4matA 278 3.28e+01 1c24A d.127.1.1 41150 2rslA 140 3.28e+01 2rslA c.53.1.1 33345 1v5lA 103 3.29e+01 1olsA 400 3.37e+01 c.36.1.11 -6959 1dfoA 417 3.38e+01 1bj4A c.67.1.4 34480 1k82A 268 3.41e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1hqcA 324 3.43e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1i50F 155 3.44e+01 d.78.1.2 61760 1ut7A 171 3.44e+01 unknown_sccs -4724 1n8vA 112 3.46e+01 unknown_sccs 85457 1kwhA 492 3.49e+01 c.94.1.1 68876 1i8oA 114 3.56e+01 1ycc a.3.1.1 61979 1htoA 477 3.60e+01 d.15.9.1 70987 d.128.1.1 70988 1j7nA 776 3.62e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1rtxA 123 3.64e+01 a.1.1.1 -3 1j1nA 492 3.67e+01 c.94.1.1 83978 2ts1 419 3.68e+01 2ts1 c.26.1.1 31564 1st9A 143 3.70e+01 c.47.1.10 -7503 1ntcA 91 3.71e+01 1ntcA unknown_sccs 19004 1hf8A 289 3.71e+01 1hg5A unknown_sccs -399 unknown_sccs -1628 1hg5A 289 3.73e+01 1hg5A unknown_sccs -400 unknown_sccs -1629 1fmcA 255 3.73e+01 1cydA c.2.1.2 29856 1hg2A 289 3.74e+01 1hg5A unknown_sccs -401 unknown_sccs -1630 1gcqC 70 3.74e+01 1gcpA b.34.2.1 60436 1a16 440 3.78e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1ixmB 192 3.87e+01 1ixmA d.123.1.1 41115 1ie7C 570 3.88e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 1kx9A 112 3.91e+01 unknown_sccs 77602 1bbt1 213 3.94e+01 1qqp1 1ep3A 311 3.94e+01 2dorA c.1.4.1 28597 1rvkA 382 3.95e+01 c.1.11.2 -5568 d.54.1.1 -9826 1e3hA 757 3.99e+01 1e3hA a.4.9.1 16257 d.14.1.4 37572 d.14.1.4 37573 d.52.3.1 38810 d.101.1.1 40695 d.101.1.1 40696 1kktA 511 4.00e+01 a.102.2.1 68687