# 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 1yna 194 6.58e-01 1axkA b.29.1.11 24335 1s1dA 331 1.39e+00 unknown_sccs -4566 1pvxA 194 1.97e+00 1axkA b.29.1.11 24341 1o12A 376 2.36e+00 b.92.1.5 80758 c.1.9.10 80759 1enxA 190 2.57e+00 1axkA b.29.1.11 24325 1xypA 190 2.58e+00 1axkA b.29.1.11 24327 2aacA 177 3.01e+00 2arcA b.82.4.1 28150 2arcB 164 4.18e+00 2arcA b.82.4.1 28149 1amuA 563 5.99e+00 1amuA e.23.1.1 43351 2arcA 164 6.08e+00 2arcA b.82.4.1 28148 1lci 550 6.62e+00 1lci e.23.1.1 43349 1ohtA 215 7.98e+00 d.118.1.1 87036 1iqaA 160 8.62e+00 b.22.1.1 71274 1bk1 184 1.00e+01 1axkA b.29.1.11 24340 1aly 146 1.09e+01 1aly b.22.1.1 23856 1p42A 270 1.20e+01 d.14.1.7 87754 d.14.1.7 87755 1d4vB 163 1.24e+01 1d4vB b.22.1.1 23884 1luzA 88 1.25e+01 b.40.4.5 74271 1dg6A 191 1.51e+01 1d4vB b.22.1.1 23883 1b6sA 355 1.61e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1d2qA 173 1.69e+01 1d4vB b.22.1.1 23894 1s14A 194 1.72e+01 d.122.1.2 -10973 1ugmA 125 1.73e+01 2dorA 311 1.78e+01 2dorA c.1.4.1 28593 1uynX 308 1.82e+01 unknown_sccs -12360 2bb2 181 1.92e+01 2bb2 b.11.1.1 23604 b.11.1.1 23605 1mejA 223 1.95e+01 c.65.1.1 79029 1us8A 147 2.00e+01 c.37.1.12 -7194 1jubA 311 2.00e+01 c.1.4.1 -5188 1qmyA 167 2.02e+01 1qmyA d.3.1.2 37094 1bmlC 362 2.05e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1pmy 123 2.10e+01 1bqk b.6.1.1 22888 1dy9A 187 2.12e+01 1jxpA b.47.1.3 26400 1uxxX 133 2.14e+01 b.18.1.10 -3107 1h4gA 207 2.14e+01 b.29.1.11 70863 1b6rA 355 2.23e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1dorA 311 2.25e+01 2dorA c.1.4.1 28595 1k6dA 220 2.37e+01 unknown_sccs 72082 1k8hA 133 2.41e+01 b.111.1.1 72176 1rwhA 757 2.73e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1qh7A 207 2.74e+01 1axkA b.29.1.11 24317 1sefA 274 2.82e+01 1htqA 477 2.83e+01 d.15.9.1 71035 d.128.1.1 71036 1qy6A 274 2.96e+01 b.47.1.1 -4126 1gmmA 133 3.00e+01 b.18.1.10 65314 1ii7A 333 3.07e+01 1ii7A d.159.1.4 62415 1ne6A 283 3.11e+01 b.82.3.2 -4918 b.82.3.2 -4919 1hh2P 344 3.14e+01 b.40.4.5 65835 d.52.3.1 65836 d.52.3.1 65837 d.202.1.1 65838 2gar 212 3.15e+01 2gar c.65.1.1 34161 1htoA 477 3.28e+01 d.15.9.1 70987 d.128.1.1 70988 1hxs3 237 3.32e+01 1mngA 203 3.39e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1n9eA 787 3.44e+01 b.30.2.1 -3529 d.17.2.1 -9278 d.17.2.1 -9279 1kzkA 99 3.60e+01 b.50.1.1 73371 1garA 212 3.61e+01 2gar c.65.1.1 34162 1f2tA 149 3.64e+01 1f2tA c.37.1.12 32373 1q15A 503 3.65e+01 c.26.2.1 -6625 d.153.1.1 -11400 1m3iA 471 3.68e+01 f.9.1.1 -12374 1i50K 120 3.71e+01 d.74.3.2 61765 1m1hA 248 3.72e+01 b.114.1.1 78415 d.58.42.1 78416 1i58A 189 3.77e+01 1b3qA d.122.1.3 61773 1jl0A 334 3.78e+01 1jenA d.156.1.1 63155 1jenA 267 3.78e+01 1jenA 1smlA 269 3.80e+01 1smlA d.157.1.1 42053 1d2gA 292 3.83e+01 1xvaA c.66.1.5 34187 1l1nA 183 3.85e+01 b.47.1.4 73476 1meoA 209 3.91e+01 c.65.1.1 79035 1gm7B 557 3.97e+01