# 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 1s1dA 331 3.51e-01 unknown_sccs -4566 1yna 194 3.16e+00 1axkA b.29.1.11 24335 1lci 550 4.55e+00 1lci e.23.1.1 43349 1n9eA 787 4.88e+00 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1d2iA 223 5.78e+00 1d2iA c.52.1.5 33297 1iqaA 160 6.52e+00 b.22.1.1 71274 1dfmA 223 6.62e+00 1d2iA c.52.1.5 33295 1pvxA 194 6.67e+00 1axkA b.29.1.11 24341 1cklB 126 6.94e+00 1cklB g.18.1.1 44853 g.18.1.1 44854 1m6uA 272 7.81e+00 b.2.5.7 78706 1gefA 123 8.83e+00 1gefA c.52.1.18 60465 1r8oA 96 9.26e+00 1dy9A 187 1.01e+01 1jxpA b.47.1.3 26400 1ko3A 230 1.04e+01 d.157.1.1 -11454 1dorA 311 1.05e+01 2dorA c.1.4.1 28595 1luzA 88 1.06e+01 b.40.4.5 74271 1jubA 311 1.09e+01 c.1.4.1 -5188 2dorA 311 1.19e+01 2dorA c.1.4.1 28593 2gar 212 1.23e+01 2gar c.65.1.1 34161 2aacA 177 1.24e+01 2arcA b.82.4.1 28150 2arcA 164 1.25e+01 2arcA b.82.4.1 28148 2arcB 164 1.25e+01 2arcA b.82.4.1 28149 1bk1 184 1.36e+01 1axkA b.29.1.11 24340 1o12A 376 1.38e+01 b.92.1.5 80758 c.1.9.10 80759 1ipiA 123 1.39e+01 c.52.1.18 66255 1ohtA 215 1.45e+01 d.118.1.1 87036 1hh2P 344 1.45e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1cklA 126 1.50e+01 1cklB g.18.1.1 44851 g.18.1.1 44852 1xypA 190 1.55e+01 1axkA b.29.1.11 24327 1k6dA 220 1.55e+01 unknown_sccs 72082 1ii7A 333 1.62e+01 1ii7A d.159.1.4 62415 1xvaA 292 1.62e+01 1xvaA c.66.1.5 34183 1upiA 225 1.62e+01 b.82.1.1 -4823 1d2qA 173 1.63e+01 1d4vB b.22.1.1 23894 1enxA 190 1.68e+01 1axkA b.29.1.11 24325 1b4aA 149 1.73e+01 1b4aA a.4.5.3 16088 d.74.2.1 39721 1qmyA 167 1.74e+01 1qmyA d.3.1.2 37094 1m1hA 248 1.90e+01 b.114.1.1 78415 d.58.42.1 78416 1r9fA 136 1.96e+01 unknown_sccs -10736 1sefA 274 1.97e+01 1by2 119 2.06e+01 1by2 d.170.1.1 42452 1i50K 120 2.08e+01 d.74.3.2 61765 1k5cA 335 2.09e+01 b.80.1.3 72076 1viuA 203 2.13e+01 d.113.1.1 -10889 1bmlC 362 2.14e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1ka9H 200 2.17e+01 c.23.16.1 77308 1mejA 223 2.18e+01 c.65.1.1 79029 1mngA 203 2.22e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1kzkA 99 2.24e+01 b.50.1.1 73371 1l1nA 183 2.35e+01 b.47.1.4 73476 1ijtA 128 2.37e+01 1bfg b.42.1.1 62510 1ghj 79 2.40e+01 1ghj b.84.1.1 28232 1d5tA 433 2.41e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1ugmA 125 2.44e+01 1s5pA 235 2.46e+01 c.31.1.5 -6774 1d8cA 723 2.46e+01 1d8cA c.1.13.1 29325 1ud9A 245 2.50e+01 1a7tA 232 2.54e+01 1a7tA d.157.1.1 42041 1o6aA 96 2.58e+01 unknown_sccs -4101 1bncA 449 2.61e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1d4vB 163 2.73e+01 1d4vB b.22.1.1 23884 1kk6A 209 2.76e+01 b.81.1.3 68657 1mr7A 209 2.76e+01 b.81.1.3 -4798 1jj2S 119 2.77e+01 1ffkQ b.34.5.1 63104 1s72T 120 2.77e+01 1t0yA 122 2.81e+01 d.15.1.1 -9151 1rypB 250 2.82e+01 1rypB d.153.1.4 41933 1meoA 209 2.89e+01 c.65.1.1 79035 1pcl 355 2.97e+01 1pcl b.80.1.1 28021 1b8aA 438 3.03e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1pmy 123 3.13e+01 1bqk b.6.1.1 22888 1h4gA 207 3.14e+01 b.29.1.11 70863 1ae9A 179 3.19e+01 1ae9A d.163.1.1 42153 1g26A 31 3.23e+01 1g26A g.3.16.1 44381 1oeyA 83 3.25e+01 d.15.2.2 -9162 1m3iA 471 3.27e+01 f.9.1.1 -12374 1difA 99 3.29e+01 1fmb b.50.1.1 26503 1b6rA 355 3.29e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1jkxA 212 3.29e+01 c.65.1.1 66813 1qx2A 76 3.34e+01 1amuA 563 3.35e+01 1amuA e.23.1.1 43351 1m3jA 471 3.38e+01 f.9.1.1 -12372 1e5uI 187 3.38e+01 1f00I b.1.14.1 22372 d.169.1.3 42441 1nh0A 99 3.42e+01 b.50.1.1 -4299 1jl0A 334 3.45e+01 1jenA d.156.1.1 63155 1ukmB 128 3.50e+01 d.169.1.1 -11625 1uhvA 500 3.54e+01 b.71.1.2 -4683 c.1.8.3 -5354 1f8rA 498 3.55e+01 1f8rA c.3.1.2 30410 d.16.1.5 37974 1uxxX 133 3.57e+01 b.18.1.10 -3107 1jqpA 438 3.58e+01 b.61.5.1 77162 d.3.1.1 77163 1b6sA 355 3.65e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1bncB 449 3.69e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1jxpA 186 3.73e+01 1jxpA b.47.1.3 26402 1ip9A 85 3.74e+01 1ip9A d.15.2.2 62638 1dg6A 191 3.78e+01 1d4vB b.22.1.1 23883 1pfo 500 3.83e+01 1pfo f.9.1.1 43826 1d2gA 292 3.87e+01 1xvaA c.66.1.5 34187 1ne6A 283 3.96e+01 b.82.3.2 -4918 b.82.3.2 -4919