# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1ucsA 64 1.42e-04 b.85.1.1 88466 1hg7A 66 9.25e-04 1msi b.85.1.1 28280 1mjnA 179 1.66e-01 c.62.1.1 79210 1lfaA 187 3.12e-01 1ido c.62.1.1 34122 1ml9A 302 8.31e-01 b.85.7.1 79282 2sas 185 2.17e+00 2sas a.39.1.5 17258 1ten 90 2.74e+00 1ten b.1.2.1 21990 1mf7A 194 3.40e+00 c.62.1.1 84937 1uurA 473 4.10e+00 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1mwwA 128 4.24e+00 unknown_sccs -10451 1ido 192 4.68e+00 1ido c.62.1.1 34139 1alvA 173 4.74e+00 1alvA a.39.1.8 17370 1f4qA 165 4.88e+00 1alvA a.39.1.8 17360 1auuA 55 5.08e+00 1auuA b.35.2.1 24769 1k94A 165 5.16e+00 a.39.1.8 68333 1plq 258 5.63e+00 1plq d.131.1.2 41388 d.131.1.2 41389 1ks9A 291 6.36e+00 a.100.1.7 68857 c.2.1.6 68858 1q4rA 112 6.59e+00 d.58.4.4 -9943 1mgtA 174 6.62e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1oo0A 147 6.78e+00 d.232.1.1 87182 1js8A 394 6.93e+00 a.86.1.1 67219 b.112.1.1 67220 1bg0 356 7.60e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 2pviA 157 7.73e+00 3pviA c.52.1.6 33302 1m15A 357 8.04e+00 a.83.1.1 78368 d.128.1.2 78369 1cuk 203 8.06e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1vpi 122 8.34e+00 1poa a.133.1.2 19559 1gkzA 388 8.87e+00 a.29.5.1 65268 d.122.1.4 65269 1qisA 396 9.71e+00 1ajsA c.67.1.1 34284 1ars 396 9.77e+00 1ajsA c.67.1.1 34287 1n3jA 119 1.00e+01 b.85.7.2 79963 1up8A 598 1.01e+01 a.111.1.2 -1480 1jhgA 101 1.01e+01 1jhgA a.4.12.1 19009 1io2A 213 1.04e+01 1ekeA c.55.3.1 62612 7odcA 424 1.04e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1jltA 122 1.06e+01 a.133.1.2 66867 1yrgA 385 1.10e+01 1yrgA c.10.1.2 30854 2ran 316 1.12e+01 1avc a.65.1.1 18170 1ithA 141 1.16e+01 1ithA a.1.1.2 15623 1fcjA 322 1.16e+01 1oasA c.79.1.1 35289 1ahxA 396 1.17e+01 1ajsA c.67.1.1 34293 1innA 166 1.30e+01 1j98A d.185.1.2 62608 1i5nA 146 1.46e+01 1i5nA a.24.10.3 61805 1vjeA 166 1.48e+01 d.185.1.2 -10261 1qlaA 656 1.56e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1vi9A 299 1.60e+01 c.72.1.5 -8393 1rypD 241 1.62e+01 1rypD d.153.1.4 41935 1ji8A 111 1.68e+01 d.203.1.1 66733 1k0hA 117 1.69e+01 b.106.1.2 71975 1c3yA 108 1.70e+01 1c3yA a.39.2.1 17387 1gp1A 198 1.71e+01 1gp1A c.47.1.10 33059 1ockA 412 1.74e+01 c.117.1.1 86802 1f5qB 252 1.76e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 2sak 121 1.78e+01 2sak d.15.5.1 37711 1ab4 477 1.85e+01 1ab4 e.11.1.1 43251 1a8h 500 1.86e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1fjgM 126 1.93e+01 1fjfM a.156.1.1 16293 1twdA 256 1.96e+01 1jj2U 70 1.96e+01 1ffkS a.2.2.1 63106 1s72V 71 1.98e+01 1f46A 140 2.00e+01 1f46A d.129.4.1 59643 1q2wA 308 2.02e+01 b.47.1.4 88355 1gky 187 2.02e+01 1gky c.37.1.1 31839 1ppa 121 2.03e+01 1poa a.133.1.2 19550 1h61A 364 2.06e+01 1oyc c.1.4.1 60657 1gvoA 364 2.06e+01 c.1.4.1 76357 1vyrA 364 2.08e+01 1nq7A 244 2.10e+01 a.123.1.1 -1682 1lhpA 312 2.13e+01 c.72.1.5 77960 1s8iA 121 2.20e+01 a.133.1.2 -1968 3pviA 157 2.22e+01 3pviA c.52.1.6 33300 1o0yA 260 2.32e+01 c.1.10.1 80756 1in0A 163 2.36e+01 d.58.49.1 83694 d.58.49.1 83695 1ex7A 186 2.39e+01 1gky c.37.1.1 59537 1mwvA 714 2.40e+01 a.93.1.3 85161 a.93.1.3 85162 1b5tA 275 2.47e+01 1b5tA c.1.23.1 29676 1d8hA 311 2.48e+01 1d8iA d.63.1.1 39544 1hf2A 210 2.54e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1o20A 427 2.55e+01 c.82.1.1 86556 1ivnA 190 2.59e+01 c.23.10.5 83719 1iuhA 198 2.61e+01 d.61.1.2 83711 1r62A 160 2.72e+01 1neq 74 2.72e+01 1neq a.35.1.2 17063 4cpv 109 2.77e+01 1a75A a.39.1.4 17198 1nzoA 363 2.78e+01 b.105.1.1 -2933 e.3.1.1 -11784 1jsxA 207 2.84e+01 c.66.1.20 71846 1qwiA 143 2.88e+01 d.227.1.1 -11183 1fh9A 312 3.04e+01 1taxA c.1.8.3 28913 5nul 138 3.05e+01 5nul c.23.5.1 31191 1ogaD 215 3.07e+01 b.1.1.1 86990 b.1.1.2 86991 1fhdA 312 3.11e+01 1taxA c.1.8.3 28915 1dpgA 485 3.12e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1nigA 152 3.12e+01 a.25.2.1 85740 1ul7A 102 3.23e+01 unknown_sccs -11020 1zrn 232 3.25e+01 1qq5A c.108.1.1 43323 1bag 425 3.30e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1a8b 318 3.30e+01 1avc a.65.1.1 18171 1vypX 364 3.31e+01 1jndA 420 3.32e+01 c.1.8.5 71757 d.26.3.1 71758 1sctB 151 3.33e+01 3sdhA a.1.1.2 15003 1p2fA 220 3.36e+01 a.4.6.1 87720 c.23.1.1 87721 1kypA 237 3.54e+01 d.22.1.1 73280 1jae 471 3.58e+01 1smd b.71.1.1 27773 c.1.8.1 28760 2his 312 3.59e+01 1taxA c.1.8.3 28918 1v9dA 340 3.64e+01 unknown_sccs -1762 1ka2A 499 3.74e+01 d.92.1.5 77305 1onc 104 3.76e+01 1onc d.5.1.1 37278 1l7dA 384 3.82e+01 c.2.1.4 77774 c.23.12.2 77775