# 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 1dabA 539 4.69e-01 1dabA b.80.1.7 28049 1ny6A 267 1.32e+00 c.37.1.20 -7221 1twdA 256 2.50e+00 1o7dE 126 2.79e+00 1gio 125 3.36e+00 7rsa d.5.1.1 37304 1fvgA 199 3.42e+00 1fvaA d.58.28.1 39408 1vjw 60 3.62e+00 1fxd d.58.1.4 38991 1khqA 212 3.71e+00 d.3.1.1 -8868 2snv 151 4.40e+00 1svpA b.47.1.3 26394 1ppn 212 4.69e+00 1cs8A d.3.1.1 37004 1m6dA 214 4.76e+00 d.3.1.1 84849 1deuA 277 4.83e+00 1theB d.3.1.1 37085 1qumA 285 5.15e+00 1qumA c.1.15.1 29393 9pap 212 5.29e+00 1cs8A d.3.1.1 37006 1rl6A 177 5.55e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 2kauA 100 5.77e+00 1ubpA d.8.1.1 37335 1svpA 161 6.07e+00 1svpA b.47.1.3 26384 1qtwA 285 6.16e+00 1qumA c.1.15.1 29392 1fwcA 100 6.47e+00 1ubpA d.8.1.1 37331 1fvaA 217 6.78e+00 1fvaA d.58.28.1 39409 1uz5A 402 7.35e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1ii7A 333 7.49e+00 1ii7A d.159.1.4 62415 1o6yA 299 7.60e+00 d.144.1.7 81106 1agi 125 7.80e+00 7rsa d.5.1.1 37303 1ejxA 100 8.69e+00 d.8.1.1 83182 1o5uA 101 8.91e+00 b.82.1.8 -4845 1wkt 88 1.00e+01 1wkt b.11.1.2 23630 1dlwA 116 1.01e+01 1dlyA a.1.1.1 14982 1jj2L 194 1.11e+01 1ffkI d.12.1.2 63097 1cjtA 217 1.13e+01 1azsA d.58.29.1 39419 1e9lA 377 1.15e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1iae 200 1.34e+01 1iae d.92.1.8 40311 1g8lA 411 1.35e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1culA 217 1.38e+01 1azsA d.58.29.1 39417 1yal 218 1.44e+01 1cs8A d.3.1.1 37025 1ast 200 1.52e+01 1iae d.92.1.8 40310 1csbB 205 1.54e+01 1theB 1pylA 97 1.68e+01 1iab 200 1.72e+01 1iae d.92.1.8 40312 1nmeA 146 1.79e+01 c.17.1.1 85874 8pchA 220 1.89e+01 1cs8A 1ihcA 188 2.07e+01 1di6A c.57.1.1 62379 1jljA 189 2.09e+01 c.57.1.1 63169 1azsA 220 2.11e+01 1azsA d.58.29.1 39416 1i4uA 181 2.20e+01 b.60.1.1 61732 4ubpA 101 2.22e+01 1ubpA d.8.1.1 37352 1f9zA 135 2.26e+01 1qipA d.32.1.1 38484 1fa8A 135 2.28e+01 1qipA d.32.1.1 38486 1gmyA 261 2.34e+01 d.3.1.1 76236 1clqA 903 2.38e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1bev1 281 2.38e+01 1aym1 1ih7A 903 2.41e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1u13A 455 2.43e+01 1j27A 102 2.56e+01 unknown_sccs -10116 1poiA 317 2.56e+01 1poiA unknown_sccs 34153 1lliA 92 2.63e+01 1lmb3 a.35.1.2 17025 1ubpA 101 2.64e+01 1ubpA d.8.1.1 37353 1nfjA 89 2.66e+01 d.68.6.1 -10285 1pauA 147 2.74e+01 1pauA c.17.1.1 30994 9ldtA 332 2.77e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1nbwB 117 2.78e+01 c.51.3.2 80396 1qxrA 189 2.88e+01 b.82.1.7 -4834 1ld4A 264 3.05e+01 i.6.1.1 77886 1h5zA 455 3.06e+01 a.104.1.1 -1456 1uf3A 228 3.10e+01 unknown_sccs -11463 1exmA 405 3.20e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ru8A 232 3.25e+01 c.26.2.1 -6635 1s72M 194 3.30e+01 4eugA 229 3.39e+01 3eugA c.18.1.1 31019 1g55A 343 3.40e+01 1g55A c.66.1.26 34247 1diiC 80 3.48e+01 1diiC a.3.1.1 15925 3eugA 229 3.49e+01 3eugA c.18.1.1 31018 1caxB 184 3.49e+01 1caxB b.82.1.2 28105 1plzA 189 3.51e+01 b.82.1.7 88160 1cp3A 277 3.61e+01 1pauA c.17.1.1 30992 1e66A 543 3.63e+01 c.69.1.1 59291 1e9xA 455 3.66e+01 1ea1A a.104.1.1 18969 1vxrA 537 3.70e+01 2bce c.69.1.1 34595 1iuhA 198 3.78e+01 d.61.1.2 83711 1pvuA 154 3.79e+01 3pviA c.52.1.6 33306 1ha3A 405 3.80e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871