# List of top-scoring protein chains for t2k-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 7.74e-04 b.85.1.1 88466 1c89A 134 1.17e-03 1msi b.85.1.1 28314 b.85.1.1 28315 1msi 70 2.90e-03 1msi b.85.1.1 28281 1hg7A 66 3.64e-03 1msi b.85.1.1 28280 1mjnA 179 2.03e-01 c.62.1.1 79210 1dgqA 188 2.75e-01 1ido c.62.1.1 34131 1lfaA 187 3.26e-01 1ido c.62.1.1 34122 1ml9A 302 5.34e-01 b.85.7.1 79282 1bg0 356 1.29e+00 1qh4A a.83.1.1 18476 d.128.1.2 41211 1oo0A 147 1.62e+00 d.232.1.1 87182 1m15A 357 1.73e+00 a.83.1.1 78368 d.128.1.2 78369 2sas 185 2.02e+00 2sas a.39.1.5 17258 1f4qA 165 2.55e+00 1alvA a.39.1.8 17360 1k94A 165 2.74e+00 a.39.1.8 68333 1cdp 109 2.89e+00 1a75A a.39.1.4 17197 1qhbA 596 3.01e+00 1qhbA a.111.1.2 19055 1spa 396 3.24e+00 1ajsA c.67.1.1 34291 1js8A 394 3.77e+00 a.86.1.1 67219 b.112.1.1 67220 1fcjA 322 3.78e+00 1oasA c.79.1.1 35289 1qisA 396 4.06e+00 1ajsA c.67.1.1 34284 4cpv 109 4.19e+00 1a75A a.39.1.4 17198 1ars 396 4.22e+00 1ajsA c.67.1.1 34287 1yprA 125 4.24e+00 3nul d.110.1.1 40888 1mwwA 128 4.61e+00 unknown_sccs -10451 1c3yA 108 4.66e+00 1c3yA a.39.2.1 17387 1lizA 136 4.79e+00 1art 396 4.80e+00 1ajsA c.67.1.1 34285 1ahxA 396 4.94e+00 1ajsA c.67.1.1 34293 1mf7A 194 4.95e+00 c.62.1.1 84937 1jlm 192 5.57e+00 1ido c.62.1.1 34140 1gkxA 388 5.64e+00 a.29.5.1 65266 d.122.1.4 65267 1o5hA 214 6.32e+00 unknown_sccs -1078 1ido 192 6.33e+00 1ido c.62.1.1 34139 2aat 396 6.60e+00 1ajsA c.67.1.1 34348 1bxiB 134 7.06e+00 1bxiB d.4.1.1 37136 1gkzA 388 7.09e+00 a.29.5.1 65268 d.122.1.4 65269 7odcA 424 7.32e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1q4rA 112 7.44e+00 d.58.4.4 -9943 1up8A 598 7.63e+00 a.111.1.2 -1480 1kfuS 184 7.72e+00 a.39.1.8 68574 1alvA 173 8.41e+00 1alvA a.39.1.8 17370 1k4wA 252 8.60e+00 a.123.1.1 72068 1ozjA 144 8.63e+00 d.164.1.1 -11537 1nq7A 244 8.96e+00 a.123.1.1 -1682 1io2A 213 9.25e+00 1ekeA c.55.3.1 62612 1mhdA 132 9.44e+00 1mhdA d.164.1.1 42175 1k0hA 117 1.03e+01 b.106.1.2 71975 1frvB 536 1.08e+01 1h2rL e.18.1.1 43296 1in0A 163 1.09e+01 d.58.49.1 83694 d.58.49.1 83695 1mznA 240 1.11e+01 a.123.1.1 79704 1mvcA 240 1.11e+01 a.123.1.1 79499 1n3jA 119 1.14e+01 b.85.7.2 79963 1um8A 376 1.17e+01 c.37.1.20 -7251 1btmA 252 1.17e+01 1amk c.1.1.1 28513 1d8iA 311 1.25e+01 1d8iA d.63.1.1 39541 1duvG 333 1.29e+01 1othA c.78.1.1 35228 c.78.1.1 35229 2pviA 157 1.32e+01 3pviA c.52.1.6 33302 1plq 258 1.37e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1hf2A 210 1.39e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1o0yA 260 1.41e+01 c.1.10.1 80756 1gr8A 412 1.44e+01 1ockA 412 1.45e+01 c.117.1.1 86802 1qzpA 68 1.49e+01 a.14.1.1 -460 1ithA 141 1.62e+01 1ithA a.1.1.2 15623 1oasA 322 1.68e+01 1oasA c.79.1.1 35293 1avoB 140 1.70e+01 1avoB 2frvB 536 1.81e+01 1h2rL e.18.1.1 43291 1fjeB 175 1.82e+01 1fj7A d.58.7.1 39210 d.58.7.1 39211 1lbd 282 1.83e+01 1lbd a.123.1.1 19279 1d8hA 311 1.92e+01 1d8iA d.63.1.1 39544 2pvbA 107 2.06e+01 1a75A a.39.1.4 17205 1ten 90 2.09e+01 1ten b.1.2.1 21990 1fr2B 134 2.11e+01 d.4.1.1 83257 1s4qA 228 2.11e+01 c.37.1.1 -6975 1cpt 412 2.13e+01 1cpt a.104.1.1 18968 2ran 316 2.13e+01 1avc a.65.1.1 18170 2sak 121 2.14e+01 2sak d.15.5.1 37711 1emvB 134 2.20e+01 1bxiB d.4.1.1 37135 1exzA 141 2.21e+01 1exzA a.26.1.2 16877 1vi9A 299 2.22e+01 c.72.1.5 -8393 1innA 166 2.25e+01 1j98A d.185.1.2 62608 1g5yA 238 2.25e+01 1lbd a.123.1.1 60294 1twdA 256 2.30e+01 1plr 258 2.30e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1eazA 125 2.34e+01 b.55.1.1 70113 1devC 196 2.36e+01 1ygs b.26.1.1 23915 1jr1A 514 2.40e+01 c.1.5.1 63241 d.37.1.1 63242 d.37.1.1 63243 1bag 425 2.41e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1oyb 400 2.41e+01 1oyc c.1.4.1 28602 1pal 108 2.44e+01 1a75A a.39.1.4 17209 1ex7A 186 2.48e+01 1gky c.37.1.1 59537 1c76A 136 2.49e+01 2sak d.15.5.1 37718 1gky 187 2.49e+01 1gky c.37.1.1 31839 1lhpA 312 2.51e+01 c.72.1.5 77960 1ivnA 190 2.51e+01 c.23.10.5 83719 1seiA 130 2.54e+01 1seiA d.140.1.1 41463 1a8a 318 2.56e+01 1avc a.65.1.1 18169 1c0pA 363 2.65e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1fjcA 96 2.69e+01 1fjcA d.58.7.1 39212 1akhB 83 2.69e+01 1akhB a.4.1.1 15985 1vjeA 166 2.70e+01 d.185.1.2 -10261 1o5oA 221 2.75e+01 c.61.1.1 -7954 1jj2U 70 2.77e+01 1ffkS a.2.2.1 63106 1vpi 122 2.78e+01 1poa a.133.1.2 19559 1s72V 71 2.79e+01 1scfA 273 2.85e+01 1exzA a.26.1.2 16873 3pviA 157 2.89e+01 3pviA c.52.1.6 33300 1fwrA 213 2.89e+01 1fwrA c.1.10.1 29164 1nzoA 363 2.94e+01 b.105.1.1 -2933 e.3.1.1 -11784 1mwvA 714 2.98e+01 a.93.1.3 85161 a.93.1.3 85162 1ee8A 266 3.00e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1f6vA 91 3.03e+01 1f6vA a.49.1.1 17791 1pvuA 154 3.12e+01 3pviA c.52.1.6 33306 1r26A 125 3.14e+01 c.47.1.1 -7389 1nu4A 97 3.20e+01 d.58.7.1 80731 1kay 381 3.23e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1uurA 473 3.23e+01 a.47.1.1 -968 b.2.5.5 -2904 d.93.1.1 -10632 1auuA 55 3.25e+01 1auuA b.35.2.1 24769 1cuk 203 3.27e+01 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1jltA 122 3.27e+01 a.133.1.2 66867 1yrnB 83 3.34e+01 1akhB a.4.1.1 15986 1oya 400 3.37e+01 1oyc c.1.4.1 28604 1fq0A 213 3.40e+01 1fwrA c.1.10.1 29161 1eriA 276 3.44e+01 1ckqA c.52.1.1 33231 1htmB 138 3.45e+01 1htmB h.3.1.1 45677 1dpgA 485 3.48e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1bupA 386 3.49e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1gjxA 81 3.50e+01 b.84.1.1 65222 1v6sA 390 3.63e+01 c.86.1.1 -8567 1q53A 112 3.66e+01 d.58.4.4 -9944 1r5iD 216 3.70e+01 unknown_sccs -1272 1xwl 580 3.72e+01 1xwl c.55.3.5 33708 e.8.1.1 43001 1fiuA 286 3.73e+01 1fiuA c.52.1.10 33317 1jsxA 207 3.73e+01 c.66.1.20 71846 1b5tA 275 3.73e+01 1b5tA c.1.23.1 29676 1euaA 213 3.76e+01 1fwrA c.1.10.1 29155 1lqtA 456 3.77e+01 c.3.1.1 74198 c.4.1.1 74199 1n7kA 234 3.79e+01 c.1.10.1 85374 1r89A 437 3.91e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1f5qB 252 3.92e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1k30A 368 3.98e+01 c.112.1.1 68067