# List of top-scoring protein chains for T0321.t04-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 1vpdA 299 9.50e-01 2gf2A 296 2.24e+00 1flcB 175 2.49e+00 1flcB h.3.1.1 45716 1dliA 402 4.48e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1piwA 360 6.03e+00 b.35.1.2,c.2.1.1 104156,104157 1dljA 402 6.07e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1cfzA 162 6.23e+00 1cfzA c.56.1.1 33754 1lybB 241 6.36e+00 1smrA 1qcrB 423 6.62e+00 1be3B d.185.1.1,d.185.1.1 59027,59028 1ppjB 439 6.80e+00 d.185.1.1,d.185.1.1 104254,104255 1sqbB 453 6.87e+00 d.185.1.1,d.185.1.1 105892,105893 1lsuA 147 7.40e+00 c.2.1.9 74250 2cdcA 366 7.84e+00 2cd9A 366 8.09e+00 1rcuA 195 8.14e+00 c.129.1.1 97295 1u0uA 397 8.26e+00 1xesA 413 8.39e+00 1v8kA 410 8.45e+00 c.37.1.9 100510 1hv8A 367 8.77e+00 1hv8A c.37.1.19,c.37.1.19 32405,32406 1l7rA 574 9.29e+00 b.18.1.13,c.69.1.21 77793,77794 1ju3A 583 9.58e+00 b.18.1.13,c.69.1.21 67300,67301 1l7qA 574 9.85e+00 b.18.1.13,c.69.1.21 77791,77792 1dzlA 505 1.03e+01 1dzlA b.121.6.1 23586 1mejA 223 1.51e+01 c.65.1.1 79029 1yqzA 438 1.55e+01 1mv8A 436 1.56e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1i1dA 161 1.63e+01 1i21A d.108.1.1 61526 1i12A 160 1.65e+01 1i21A d.108.1.1 61515 1i21A 159 1.69e+01 1i21A d.108.1.1 61549 1zlyA 203 1.72e+01 1meoA 209 1.73e+01 c.65.1.1 79035 2dfdA 342 1.76e+01 1qrpE 326 1.76e+01 1smrA b.50.1.2 26850 2ffjA 300 1.78e+01 1slm 255 1.81e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1flhA 326 1.84e+01 b.50.1.2 65031 1wy6A 172 1.86e+01 1te5A 257 1.95e+01 d.153.1.1 106795 1oy5A 257 2.01e+01 c.116.1.4 93718 1v8bA 479 2.07e+01 1djlA 207 2.14e+01 1d4oA c.31.1.4 31746 7fabH 217 2.15e+01 1igtB b.1.1.1,b.1.1.2 19777,20887 1pk8A 422 2.16e+01 c.30.1.5,d.142.1.3 94807,94808 1ukrA 184 2.26e+01 1axkA b.29.1.11 24336 1pmi 440 2.28e+01 1pmi b.82.1.3 28114 1bccB 422 2.29e+01 1be3B d.185.1.1,d.185.1.1 58948,58949 1xkrA 206 2.32e+01 1wu2A 396 2.33e+01 1g8aA 227 2.35e+01 c.66.1.3 90506 1s7zA 117 2.49e+01 a.159.3.1 98715 1tp5A 119 2.51e+01 1z1eA 390 2.54e+01 1ps9A 671 2.58e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1w5eA 364 2.61e+01 2b4wA 315 2.66e+01 1fsz 372 2.70e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1lfwA 470 2.75e+01 c.56.5.4,d.58.19.1 77942,77943 1wiwA 290 2.75e+01 1gg4A 452 2.89e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1id3B 102 2.89e+01 a.22.1.1 66113 1xi8A 403 2.94e+01 1p3iB 102 2.99e+01 a.22.1.1 94015 1gc0A 398 3.04e+01 c.67.1.3 70168 1w5bA 364 3.12e+01 1t6gC 184 3.16e+01 b.29.1.11 106569 1ni7A 155 3.33e+01 d.224.1.1 85738 2akhC 111 3.34e+01 1aoiB 87 3.35e+01 1aoiB a.22.1.1 16470 1jxmA 301 3.38e+01 b.34.2.1,c.37.1.1 67420,67421 2c4nA 250 3.54e+01 1yoeA 322 3.57e+01 1fh9A 312 3.59e+01 1taxA c.1.8.3 28913 1x0oA 119 3.68e+01 2ashA 381 3.78e+01 1yfzA 205 3.81e+01 1ku1A 230 3.83e+01 a.118.3.1 72996 1mdaL 121 3.83e+01 2bbkL g.21.1.1 44885 2sas 185 3.85e+01 2sas a.39.1.5 17258 1mrzA 293 3.88e+01 b.43.5.1,c.26.1.3 91452,91453 1kjwA 295 3.88e+01 b.34.2.1,c.37.1.1 68643,68644 1j71A 334 3.93e+01 1eagA b.50.1.2 62669 1b5fA 239 3.93e+01 1smrA b.50.1.2 26836 1kx5B 102 4.00e+01 a.22.1.1 77594 1pryA 227 4.00e+01 c.66.1.3 95063 1i2aA 219 4.03e+01 e.24.1.1 90660 1tzyD 103 4.05e+01 a.22.1.1 107533 1ml4A 308 4.05e+01 c.78.1.1,c.78.1.1 79255,79256 2avwA 311 4.06e+01 2fx0A 201 4.08e+01 2au1A 292 4.10e+01 2hioD 103 4.10e+01 1aoiB a.22.1.1 16468 1a9nA 176 4.11e+01 1a9nA c.10.2.4 30875 1esc 306 4.23e+01 1esc c.23.10.1 31334 1be9A 119 4.25e+01 1pdr b.36.1.1 24774 1y08A 323 4.34e+01 2c46A 241 4.36e+01 1wf6A 132 4.39e+01 1ufrA 181 4.43e+01 c.61.1.1 99354 1wilA 89 4.49e+01 1zroA 602 4.49e+01 1dctA 324 4.61e+01 6mhtA c.66.1.26 34244 1ulhA 390 4.69e+01 c.26.1.1 99557 1h4rA 314 4.73e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 2bgkA 278 4.83e+01 1p3pB 102 4.96e+01 a.22.1.1 94058 2his 312 4.98e+01 1taxA c.1.8.3 28918 1o5tA 378 5.08e+01 c.26.1.1 103891 1p3fB 102 5.12e+01 a.22.1.1 93999 1v43A 372 5.19e+01 1vciA 373 5.21e+01 1s9iA 354 5.23e+01 1osnA 341 5.59e+01 c.37.1.1 87387 1o5iA 249 5.63e+01 c.2.1.2 92499 1vqoJ 145 5.64e+01 1yr0A 175 5.76e+01 1smrA 335 5.80e+01 1smrA b.50.1.2 26878 2fz5A 137 5.83e+01 1oo3A 111 5.99e+01 d.93.1.1 87184 1d1dA 262 6.24e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1i9zA 347 6.26e+01 1i9yA d.151.1.2 62102 1wufA 393 6.29e+01 1p3bB 102 6.30e+01 a.22.1.1 93989 1ru3A 732 6.40e+01 e.26.1.3 97835 1auvA 311 6.47e+01 1auvA c.30.1.5,d.142.1.3 31723,41558 1qknA 255 6.61e+01 3erdA a.123.1.1 19310 1x4qA 92 6.62e+01 1pv4A 419 6.63e+01 a.140.3.1,b.40.4.5,c.37.1.11 88295,88296,88297 1s9jA 341 6.66e+01 1npdA 288 6.72e+01 c.2.1.7,c.58.1.5 80681,80682 1ko6A 187 6.85e+01 b.119.1.1 77471 2bdwA 362 6.92e+01 1sjdA 368 7.02e+01 c.1.11.2,d.54.1.1 105632,105633 1vi2A 300 7.03e+01 c.2.1.7,c.58.1.5 100726,100727 2a6cA 83 7.10e+01 1e6wA 260 7.20e+01 1e6wA c.2.1.2 59326 1e3sA 261 7.21e+01 1e6wA c.2.1.2 59201 2ghoD 1233 7.23e+01 1skyE 473 7.26e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 2a6hD 1524 7.32e+01 1xm7A 195 7.35e+01 1xtmA 175 7.48e+01 1vr7A 142 7.53e+01 1e3wA 261 7.55e+01 1e6wA c.2.1.2 59207 1j7gA 144 7.65e+01 c.110.1.1 84130 1xhcA 367 7.75e+01 1y9aA 360 7.76e+01 1huuA 90 7.90e+01 1huuA a.55.1.1 17897 1o50A 157 7.97e+01 d.37.1.1,d.37.1.1 92478,92479 2ganA 190 8.10e+01 1ynjD 1524 8.19e+01 1i9sA 210 8.27e+01 1i9sA c.45.1.1 62099 1tluA 130 8.43e+01 d.156.1.2 107139 1p3gB 102 8.45e+01 a.22.1.1 94007 1qr0A 228 8.52e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1isnA 323 8.71e+01 a.11.2.1,b.55.1.5,d.15.1.4 71400,71401,71402 1jl5A 454 8.85e+01 c.10.2.6 66830 1nvjA 140 8.91e+01 d.41.5.1 86243 1u8vA 490 8.93e+01 1fm0E 150 8.94e+01 1fmaE d.41.5.1 38629