# 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 1s1dA 331 8.98e-01 unknown_sccs -4566 1yna 194 1.63e+00 1axkA b.29.1.11 24335 2aacA 177 2.72e+00 2arcA b.82.4.1 28150 1o12A 376 2.99e+00 b.92.1.5 80758 c.1.9.10 80759 1luzA 88 3.37e+00 b.40.4.5 74271 2arcB 164 3.70e+00 2arcA b.82.4.1 28149 2arcA 164 5.37e+00 2arcA b.82.4.1 28148 1ohtA 215 6.87e+00 d.118.1.1 87036 1lci 550 7.92e+00 1lci e.23.1.1 43349 1pvxA 194 8.75e+00 1axkA b.29.1.11 24341 1iqaA 160 9.58e+00 b.22.1.1 71274 1k8hA 133 1.02e+01 b.111.1.1 72176 2dorA 311 1.05e+01 2dorA c.1.4.1 28593 1aly 146 1.08e+01 1aly b.22.1.1 23856 1d4vB 163 1.27e+01 1d4vB b.22.1.1 23884 1jubA 311 1.29e+01 c.1.4.1 -5188 1enxA 190 1.30e+01 1axkA b.29.1.11 24325 1bmlC 362 1.32e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1dorA 311 1.37e+01 2dorA c.1.4.1 28595 1dg6A 191 1.40e+01 1d4vB b.22.1.1 23883 1xypA 190 1.41e+01 1axkA b.29.1.11 24327 1l1nA 183 1.56e+01 b.47.1.4 73476 2bb2 181 1.59e+01 2bb2 b.11.1.1 23604 b.11.1.1 23605 1mxmA 254 1.60e+01 b.38.1.3 79647 d.58.43.1 79648 f.34.1.1 79649 1k6dA 220 1.66e+01 unknown_sccs 72082 1d2qA 173 1.67e+01 1d4vB b.22.1.1 23894 1sefA 274 1.71e+01 1qmyA 167 1.73e+01 1qmyA d.3.1.2 37094 1mejA 223 1.74e+01 c.65.1.1 79029 1m3iA 471 1.75e+01 f.9.1.1 -12374 1bk1 184 1.77e+01 1axkA b.29.1.11 24340 1uxxX 133 1.78e+01 b.18.1.10 -3107 1b8aA 438 1.80e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1by2 119 2.06e+01 1by2 d.170.1.1 42452 1hh2P 344 2.10e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 1dy9A 187 2.10e+01 1jxpA b.47.1.3 26400 1gefA 123 2.22e+01 1gefA c.52.1.18 60465 1pmy 123 2.28e+01 1bqk b.6.1.1 22888 1uynX 308 2.28e+01 unknown_sccs -12360 1kzkA 99 2.37e+01 b.50.1.1 73371 1h4gA 207 2.40e+01 b.29.1.11 70863 1htqA 477 2.48e+01 d.15.9.1 71035 d.128.1.1 71036 1ii7A 333 2.56e+01 1ii7A d.159.1.4 62415 1smlA 269 2.68e+01 1smlA d.157.1.1 42053 1gmmA 133 2.86e+01 b.18.1.10 65314 1ipiA 123 2.88e+01 c.52.1.18 66255 1m3jA 471 2.89e+01 f.9.1.1 -12372 1gm7B 557 2.92e+01 1ka9H 200 2.93e+01 c.23.16.1 77308 1o5nA 126 3.07e+01 1vj2A 126 3.07e+01 unknown_sccs -4850 1ajqB 557 3.09e+01 1ajqB 1qh7A 207 3.12e+01 1axkA b.29.1.11 24317 1htoA 477 3.18e+01 d.15.9.1 70987 d.128.1.1 70988 1bncA 449 3.24e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1m6eX 359 3.30e+01 unknown_sccs -8071 1i50K 120 3.35e+01 d.74.3.2 61765 1d2iA 223 3.35e+01 1d2iA c.52.1.5 33297 1bbt3 220 3.36e+01 1qqp3 1dfmA 223 3.37e+01 1d2iA c.52.1.5 33295 1ne6A 283 3.43e+01 b.82.3.2 -4918 b.82.3.2 -4919 1qqp3 220 3.59e+01 1qqp3 1jj2S 119 3.66e+01 1ffkQ b.34.5.1 63104 1m1hA 248 3.66e+01 b.114.1.1 78415 d.58.42.1 78416 1s72T 120 3.66e+01 1mngA 203 3.72e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1n9eA 787 3.76e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1ffkQ 119 3.78e+01 1ffkQ b.34.5.1 24605 1viuA 203 3.80e+01 d.113.1.1 -10889 1rybA 212 3.82e+01 c.56.3.1 -7858 1ugmA 125 4.00e+01