# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1vaoA 560 5.10e-01 1qltA d.58.32.1 39461 d.145.1.1 41724 1m5sA 297 9.15e-01 d.58.33.1 74511 d.58.33.1 74512 1w1kA 560 9.32e-01 1ftrA 296 9.61e-01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1q8bA 105 1.10e+00 unknown_sccs -9958 1hfc 169 1.11e+00 1hfc d.92.1.11 40335 1e8gA 560 1.19e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1ap8 213 1.19e+00 1ap8 d.86.1.1 40151 1vixA 420 1.23e+00 c.56.5.4 -7866 d.58.19.1 -10090 1d2eA 397 1.68e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1o12A 376 2.61e+00 b.92.1.5 80758 c.1.9.10 80759 1qltA 560 2.88e+00 1qltA d.58.32.1 39457 d.145.1.1 41720 1fnoA 417 3.74e+00 c.56.5.4 75841 d.58.19.1 70145 1b0pA 1231 5.36e+00 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1kekA 1231 6.32e+00 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1m55A 197 6.88e+00 d.89.1.3 74469 1sk4A 163 7.05e+00 1oe4A 247 8.39e+00 c.18.1.3 86895 1f2tB 148 9.04e+00 1f2tB 1e1dA 553 9.59e+00 1e1dA e.26.1.1 43363 1souA 194 1.07e+01 1dljA 402 1.09e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1ml4A 308 1.20e+01 c.78.1.1 79255 c.78.1.1 79256 1qu9A 128 1.21e+01 1qu9A d.79.1.1 39755 1qu9C 128 1.21e+01 1qu9A d.79.1.1 39757 1jk3A 158 1.23e+01 d.92.1.11 66790 1go2A 304 1.25e+01 b.43.4.2 76243 c.25.1.1 76244 1b2rA 304 1.25e+01 1fnc b.43.4.2 25648 c.25.1.1 31538 1j2iA 166 1.32e+01 1o3yA 166 1.32e+01 c.37.1.8 86618 1hi9A 274 1.33e+01 1hi9A c.99.1.1 61063 1jx2B 315 1.35e+01 c.37.1.8 67404 1tk9A 188 1.37e+01 1dliA 402 1.39e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1hufA 140 1.42e+01 1hufA d.195.1.1 61272 1ffkS 70 1.45e+01 1ffkS a.2.2.1 15692 1kutA 230 1.46e+01 d.143.1.1 73017 3bamB 213 1.48e+01 1bam c.52.1.3 33289 1uuqA 440 1.49e+01 c.1.8.3 -5321 1hurA 180 1.50e+01 1hurA c.37.1.8 32052 1qh0A 295 1.50e+01 b.43.4.2 68891 c.25.1.1 68892 1que 303 1.51e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 3bamA 213 1.54e+01 1bam c.52.1.3 33288 1s72V 71 1.59e+01 1gnlA 544 1.68e+01 e.26.1.1 70287 1jj2U 70 1.69e+01 1ffkS a.2.2.1 63106 1kao 167 1.73e+01 1ctqA c.37.1.8 32014 1uj2A 252 1.75e+01 c.37.1.6 -7061 1ogiA 303 1.80e+01 b.43.4.2 -4042 c.25.1.1 -6587 1esgA 213 1.93e+01 1bam c.52.1.3 33286 1j6wA 175 1.96e+01 1j98A d.185.1.2 62663 1kepA 348 1.99e+01 c.2.1.2 68536 2olbA 517 2.02e+01 1jevA c.94.1.1 35721 1oc2A 348 2.05e+01 c.2.1.2 -5753 1r8sA 164 2.05e+01 c.37.1.8 -7082 1msk 331 2.12e+01 1msk d.173.1.1 42495 1iqrA 420 2.13e+01 a.99.1.1 66275 c.28.1.1 66276 1p65A 73 2.19e+01 unknown_sccs -10331 1veaA 148 2.26e+01 1k7yA 577 2.36e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1o5kA 306 2.38e+01 c.1.10.1 -5482 1ii7A 333 2.40e+01 1ii7A d.159.1.4 62415 1o6jA 150 2.44e+01 c.47.1.10 81089 1oj4A 283 2.48e+01 d.14.1.5 -9088 d.58.26.5 -10133 1qs1A 462 2.54e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1rlr 761 2.60e+01 1rlr a.98.1.1 18753 c.7.1.2 30679 1fuiA 591 2.67e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1nbaA 264 2.71e+01 1nbaA unknown_sccs 31753 1f2hA 169 2.81e+01 1f3vA d.58.22.1 59612 1b4eA 323 2.90e+01 1b4kA c.1.10.3 29186 1o5oA 221 2.94e+01 c.61.1.1 -7954 1nslA 184 3.00e+01 d.108.1.1 86137 1i5gA 144 3.07e+01 1ewxA c.47.1.10 61784 1mmq 170 3.13e+01 1hfc d.92.1.11 40396 1jd1A 129 3.15e+01 1qu9A d.79.1.1 62890 1ud0A 113 3.20e+01 unknown_sccs -450 1jwyB 315 3.43e+01 c.37.1.8 67401 1qs2A 401 3.44e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1nykA 165 3.47e+01 b.33.1.1 86408 1hy7A 173 3.60e+01 d.92.1.11 65957 1m2oA 768 3.65e+01 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1ee8A 266 3.70e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1kvdB 77 3.70e+01 1kveB 1kveB 77 3.70e+01 1kveB 1ck7A 631 3.72e+01 1ck7A a.20.1.2 58969 b.66.1.1 27538 d.92.1.11 58970 g.14.1.2 44674 g.14.1.2 44675 g.14.1.2 44676 1ac5 483 3.72e+01 1ac5 c.69.1.5 34653 1eb0A 147 3.73e+01 b.107.1.1 64890 d.58.38.1 64891 1pqsA 77 3.74e+01 d.15.2.2 88277 1gg4A 452 3.79e+01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1m2oB 190 3.87e+01 c.37.1.8 78485 1j0lA 98 3.92e+01 unknown_sccs -9789 1lxnA 99 3.96e+01 d.58.48.1 84737 1r89A 437 3.98e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1hfs 160 4.00e+01 1hfc d.92.1.11 40370