# List of top-scoring protein chains for T0321.t06-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 1.30e+00 1v8kA 410 1.57e+00 c.37.1.9 100510 2cdcA 366 1.64e+00 2cd9A 366 1.68e+00 1rcuA 195 3.69e+00 c.129.1.1 97295 2gf2A 296 4.34e+00 1piwA 360 5.43e+00 b.35.1.2,c.2.1.1 104156,104157 1v43A 372 5.67e+00 1vciA 373 5.68e+00 1yqzA 438 5.92e+00 1flcB 175 7.17e+00 1flcB h.3.1.1 45716 1u0uA 397 8.02e+00 1qcrB 423 8.44e+00 1be3B d.185.1.1,d.185.1.1 59027,59028 1xesA 413 8.72e+00 1ppjB 439 8.83e+00 d.185.1.1,d.185.1.1 104254,104255 1sqbB 453 8.94e+00 d.185.1.1,d.185.1.1 105892,105893 1mkdA 328 9.42e+00 a.211.1.2 84982 1lsuA 147 1.03e+01 c.2.1.9 74250 1dliA 402 1.04e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1zknA 334 1.05e+01 1tbbA 332 1.05e+01 a.211.1.2 106741 1y2kA 349 1.06e+01 1fl2A 310 1.10e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1dljA 402 1.15e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1oynA 360 1.22e+01 a.211.1.2 87609 2fm0A 361 1.23e+01 1ps9A 671 1.26e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1dzlA 505 1.30e+01 1dzlA b.121.6.1 23586 1ku1A 230 1.47e+01 a.118.3.1 72996 1l7rA 574 1.50e+01 b.18.1.13,c.69.1.21 77793,77794 1ju3A 583 1.51e+01 b.18.1.13,c.69.1.21 67300,67301 1lfwA 470 1.54e+01 c.56.5.4,d.58.19.1 77942,77943 1l7qA 574 1.60e+01 b.18.1.13,c.69.1.21 77791,77792 1losA 224 1.63e+01 c.1.2.3 74157 1g8aA 227 1.74e+01 c.66.1.3 90506 1wy6A 172 1.80e+01 1klzA 247 1.81e+01 c.1.2.3 72731 1djlA 207 1.85e+01 1d4oA c.31.1.4 31746 1qr0A 228 1.96e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1mv8A 436 1.97e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1km1A 247 2.01e+01 c.1.2.3 72736 1kyzA 365 2.02e+01 a.4.5.29,c.66.1.12 73312,73313 1i7dA 659 2.04e+01 1d6mA e.10.1.1 61886 1d6mA 653 2.06e+01 1d6mA e.10.1.1 43248 1km2A 247 2.06e+01 c.1.2.3 72738 1bccB 422 2.08e+01 1be3B d.185.1.1,d.185.1.1 58948,58949 1lybB 241 2.09e+01 1smrA 1wf6A 132 2.16e+01 1klyA 247 2.23e+01 c.1.2.3 72730 1ni7A 155 2.30e+01 d.224.1.1 85738 1i1dA 161 2.43e+01 1i21A d.108.1.1 61526 2ashA 381 2.50e+01 1wu2A 396 2.51e+01 1km0A 247 2.54e+01 c.1.2.3 72732 1i12A 160 2.55e+01 1i21A d.108.1.1 61515 1iseA 185 2.67e+01 d.67.3.1 90691 1i21A 159 2.67e+01 1i21A d.108.1.1 61549 1v8bA 479 2.68e+01 1lp6A 229 2.72e+01 c.1.2.3 74171 1qknA 255 2.74e+01 3erdA a.123.1.1 19310 1dv7A 227 2.75e+01 1dvjA c.1.2.3 28550 1loqA 228 2.76e+01 c.1.2.3 74155 1dvjA 246 2.80e+01 1dvjA c.1.2.3 28546 1x1zA 252 2.80e+01 7fabH 217 2.86e+01 1igtB b.1.1.1,b.1.1.2 19777,20887 1xi8A 403 2.94e+01 1km5A 247 3.02e+01 c.1.2.3 72741 1km6A 247 3.06e+01 c.1.2.3 72742 1wpgA 994 3.08e+01 1hyuA 521 3.09e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1pryA 227 3.09e+01 c.66.1.3 95063 1slm 255 3.13e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1xkrA 206 3.19e+01 1ukrA 184 3.29e+01 1axkA b.29.1.11 24336 1ek8A 185 3.30e+01 1ek8A d.67.3.1 59444 1qrpE 326 3.34e+01 1smrA b.50.1.2 26850 1p3iB 102 3.52e+01 a.22.1.1 94015 1i2aA 219 3.53e+01 e.24.1.1 90660 1flhA 326 3.55e+01 b.50.1.2 65031 1km3A 247 3.57e+01 c.1.2.3 72739 1hv8A 367 3.70e+01 1hv8A c.37.1.19,c.37.1.19 32405,32406 1id3B 102 3.85e+01 a.22.1.1 66113 1oo3A 111 3.92e+01 d.93.1.1 87184 1mo7A 213 4.02e+01 d.220.1.1 85028 1mejA 223 4.05e+01 c.65.1.1 79029 1gc0A 398 4.14e+01 c.67.1.3 70168 1zlyA 203 4.15e+01 1z1eA 390 4.16e+01 1meoA 209 4.21e+01 c.65.1.1 79035 1aoiB 87 4.22e+01 1aoiB a.22.1.1 16470 1km4A 247 4.25e+01 c.1.2.3 72740 1k8kA 418 4.28e+01 c.55.1.1,c.55.1.1 68305,68306 1mrzA 293 4.37e+01 b.43.5.1,c.26.1.3 91452,91453 1npdA 288 4.39e+01 c.2.1.7,c.58.1.5 80681,80682 1vi2A 300 4.57e+01 c.2.1.7,c.58.1.5 100726,100727 1t6gC 184 4.66e+01 b.29.1.11 106569 1ufrA 181 4.85e+01 c.61.1.1 99354 1kx5B 102 5.11e+01 a.22.1.1 77594 1x4qA 92 5.12e+01 1tzyD 103 5.17e+01 a.22.1.1 107533 1ulhA 390 5.24e+01 c.26.1.1 99557 2hioD 103 5.24e+01 1aoiB a.22.1.1 16468 1wthD 391 5.28e+01 1j71A 334 5.60e+01 1eagA b.50.1.2 62669 1wwkA 307 5.64e+01 1ru3A 732 5.68e+01 e.26.1.3 97835 1w5eA 364 5.81e+01 2bdwA 362 5.82e+01 1dgnA 89 5.84e+01 1dgnA a.77.1.3 18436 1pv4A 419 5.90e+01 a.140.3.1,b.40.4.5,c.37.1.11 88295,88296,88297 1o5tA 378 6.05e+01 c.26.1.1 103891 1dctA 324 6.08e+01 6mhtA c.66.1.26 34244 1fh9A 312 6.10e+01 1taxA c.1.8.3 28913 1te5A 257 6.11e+01 d.153.1.1 106795 1oy5A 257 6.13e+01 c.116.1.4 93718 1tb5A 381 6.19e+01 a.211.1.2 106735 1fsz 372 6.23e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1p3pB 102 6.23e+01 a.22.1.1 94058 1p3fB 102 6.24e+01 a.22.1.1 93999 1xm6A 398 6.28e+01 1cfzA 162 6.32e+01 1cfzA c.56.1.1 33754 2dfdA 342 6.35e+01 1fu5A 111 6.38e+01 1qadA d.93.1.1 40505 1tp5A 119 6.41e+01 1f0jA 377 6.47e+01 1f0jA a.211.1.2 19346 1rorA 378 6.50e+01 2a1fA 247 6.51e+01 1mdaL 121 6.68e+01 2bbkL g.21.1.1 44885 1ko6A 187 6.80e+01 b.119.1.1 77471 1m41A 380 6.88e+01 c.1.16.4 78595 1nqkA 381 6.88e+01 c.1.16.4 92050 1qe3A 489 6.91e+01 2bce c.69.1.1 34630 1ndeA 255 6.99e+01 a.123.1.1 80415 1l2jA 271 6.99e+01 a.123.1.1 73505 1xtmA 175 7.04e+01 1s7zA 117 7.07e+01 a.159.3.1 98715 1huuA 90 7.09e+01 1huuA a.55.1.1 17897 1w5bA 364 7.16e+01 1qkmA 255 7.29e+01 3erdA a.123.1.1 19309 1x76A 240 7.32e+01 1p3bB 102 7.34e+01 a.22.1.1 93989 1u3rA 241 7.35e+01 1h7xA 1025 7.38e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1gteA 1025 7.39e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1jxmA 301 7.46e+01 b.34.2.1,c.37.1.1 67420,67421 2his 312 7.52e+01 1taxA c.1.8.3 28918 2c4nA 250 7.54e+01 1c4xA 285 7.60e+01 1c4xA c.69.1.10 34684 2b4wA 315 7.71e+01 1kjwA 295 7.77e+01 b.34.2.1,c.37.1.1 68643,68644 1yjeA 264 7.98e+01 1yyeA 268 7.99e+01 1f89A 291 8.03e+01 d.160.1.1 64988 1zitA 121 8.07e+01 1klfA 205 8.07e+01 b.1.11.1,b.7.2.1 72682,72683 1lluA 342 8.10e+01 b.35.1.2,c.2.1.1 91064,91065 1vr7A 142 8.38e+01 1c7jA 489 8.42e+01 2bce c.69.1.1 34631 2bgkA 278 8.47e+01 1sjdA 368 8.53e+01 c.1.11.2,d.54.1.1 105632,105633 1xtlA 175 8.66e+01 1ze3C 205 8.67e+01 1vgpA 373 8.68e+01 1c7iA 489 8.70e+01 1thg c.69.1.1 34632 1skyE 473 8.74e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18314,26479,32359 1qunA 205 8.77e+01 b.1.11.1,b.7.2.1 22324,23206 1b5fA 239 8.78e+01 1smrA b.50.1.2 26836 2ew2A 316 8.78e+01 1pjtA 457 8.90e+01 c.2.1.11,c.90.1.1,e.37.1.1 94778,94779,94780