# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1ftrA 296 2.81e-01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1ap8 213 3.24e-01 1ap8 d.86.1.1 40151 1m5sA 297 5.16e-01 d.58.33.1 74511 d.58.33.1 74512 1q8bA 105 8.34e-01 unknown_sccs -9958 1vixA 420 2.30e+00 c.56.5.4 -7866 d.58.19.1 -10090 1f2tB 148 2.34e+00 1f2tB 1o12A 376 2.70e+00 b.92.1.5 80758 c.1.9.10 80759 1uuqA 440 3.05e+00 c.1.8.3 -5321 3bamA 213 3.42e+00 1bam c.52.1.3 33288 1hfc 169 3.42e+00 1hfc d.92.1.11 40335 1sk4A 163 3.68e+00 3bamB 213 3.87e+00 1bam c.52.1.3 33289 1k7yA 577 3.89e+00 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1fnoA 417 3.90e+00 c.56.5.4 75841 d.58.19.1 70145 1msk 331 4.02e+00 1msk d.173.1.1 42495 1kutA 230 5.01e+00 d.143.1.1 73017 1kao 167 6.32e+00 1ctqA c.37.1.8 32014 1vaoA 560 7.19e+00 1qltA d.58.32.1 39461 d.145.1.1 41724 1jx2B 315 9.84e+00 c.37.1.8 67404 1o5oA 221 9.98e+00 c.61.1.1 -7954 1uanA 227 1.06e+01 unknown_sccs -8129 1w1kA 560 1.09e+01 1jjiA 311 1.13e+01 c.69.1.2 66766 1souA 194 1.16e+01 1d2eA 397 1.26e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1ud0A 113 1.38e+01 unknown_sccs -450 1esgA 213 1.46e+01 1bam c.52.1.3 33286 1m6dA 214 1.52e+01 d.3.1.1 84849 1o6jA 150 1.56e+01 c.47.1.10 81089 1hufA 140 1.62e+01 1hufA d.195.1.1 61272 1ml4A 308 1.74e+01 c.78.1.1 79255 c.78.1.1 79256 1e8gA 560 1.77e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1i5gA 144 1.98e+01 1ewxA c.47.1.10 61784 1oc2A 348 2.03e+01 c.2.1.2 -5753 1oe4A 247 2.06e+01 c.18.1.3 86895 1a5r 103 2.11e+01 1a5r d.15.1.1 37597 1d1rA 116 2.20e+01 1d1rA d.64.1.1 39548 1uj2A 252 2.23e+01 c.37.1.6 -7061 1f2hA 169 2.53e+01 1f3vA d.58.22.1 59612 1nc5A 373 2.61e+01 a.102.1.6 85548 1fuiA 591 2.75e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1kepA 348 2.85e+01 c.2.1.2 68536 1rlr 761 2.87e+01 1rlr a.98.1.1 18753 c.7.1.2 30679 1pauA 147 2.87e+01 1pauA c.17.1.1 30994 1iicA 422 2.93e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1hi9A 274 2.94e+01 1hi9A c.99.1.1 61063 1jroB 777 3.02e+01 d.41.1.1 67141 d.133.1.1 67142 1nksA 194 3.26e+01 1nksA c.37.1.1 31886 1j5xA 342 3.29e+01 c.80.1.1 71591 1b8zA 90 3.47e+01 1huuA a.55.1.1 17902 1p65A 73 3.48e+01 unknown_sccs -10331 1rdqE 350 3.66e+01 d.144.1.7 -11336 1jmxA 494 3.68e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1cmkE 350 3.84e+01 1cdkA d.144.1.7 41623 1r89A 437 3.87e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1afi 72 3.92e+01 1aw0 d.58.17.1 39339 1e1dA 553 3.98e+01 1e1dA e.26.1.1 43363