# List of top-scoring protein chains for t2k-100-30-bys 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 1fvgA 199 1.95e-01 1fvaA d.58.28.1 39408 1fvaA 217 3.38e-01 1fvaA d.58.28.1 39409 1khqA 212 4.82e-01 d.3.1.1 -8868 1ppn 212 9.78e-01 1cs8A d.3.1.1 37004 9pap 212 1.03e+00 1cs8A d.3.1.1 37006 1m6dA 214 1.13e+00 d.3.1.1 84849 1plzA 189 1.22e+00 b.82.1.7 88160 1qxrA 189 1.23e+00 b.82.1.7 -4834 1ny6A 267 1.53e+00 c.37.1.20 -7221 1g8lA 411 2.14e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1r72A 211 2.35e+00 unknown_sccs -215 unknown_sccs -5981 1bg6 359 3.73e+00 1bg6 a.100.1.5 18810 c.2.1.6 30214 2act 220 3.99e+00 1cs8A d.3.1.1 37002 1gmyA 261 4.27e+00 d.3.1.1 76236 1jj2L 194 4.48e+00 1ffkI d.12.1.2 63097 1deuA 277 4.54e+00 1theB d.3.1.1 37085 8pchA 220 4.64e+00 1cs8A 1theA 260 4.73e+00 1theB d.3.1.1 37056 1theB 260 5.06e+00 1theB d.3.1.1 37057 1csbB 205 5.45e+00 1theB 1gio 125 5.76e+00 7rsa d.5.1.1 37304 1pauA 147 6.13e+00 1pauA c.17.1.1 30994 1nmeA 146 6.38e+00 c.17.1.1 85874 1k4nA 192 6.58e+00 d.32.1.5 72059 1yal 218 6.66e+00 1cs8A d.3.1.1 37025 1agi 125 6.71e+00 7rsa d.5.1.1 37303 1me3A 215 6.91e+00 d.3.1.1 79022 1mo9A 523 6.93e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1rkd 309 7.26e+00 1rkd c.72.1.1 34928 1me4A 215 7.41e+00 d.3.1.1 79023 1aim 215 7.49e+00 1cs8A d.3.1.1 37044 1fviA 297 7.73e+00 1fviA b.40.4.6 25364 d.142.2.1 41578 1st9A 143 7.94e+00 c.47.1.10 -7503 1ta3A 274 7.99e+00 1nbwB 117 8.08e+00 c.51.3.2 80396 1jepA 222 8.22e+00 d.36.1.1 66612 1qtwA 285 8.27e+00 1qumA c.1.15.1 29392 4eugA 229 8.34e+00 3eugA c.18.1.1 31019 1eyqA 222 8.69e+00 1eypA d.36.1.1 38534 1to6A 371 8.89e+00 1s1qA 145 9.11e+00 d.20.1.2 -9405 1om0A 274 9.20e+00 c.1.8.5 87058 1f2aA 215 9.22e+00 1cs8A d.3.1.1 37040 1fcjA 322 9.30e+00 1oasA c.79.1.1 35289 1rl6A 177 9.68e+00 1rl6A d.141.1.1 41473 d.141.1.1 41474 1um0A 365 9.78e+00 1v1rB 342 9.94e+00 1kqpA 271 9.95e+00 c.26.2.1 72883 1olsB 342 9.95e+00 c.36.1.7 -6919 c.48.1.2 -7529 1oasA 322 1.01e+01 1oasA c.79.1.1 35293 2cavA 445 1.04e+01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1dgrV 79 1.06e+01 1caxB b.82.1.2 28099 1pmmA 466 1.09e+01 c.67.1.6 -8159 1cp3A 277 1.09e+01 1pauA c.17.1.1 30992 1o5uA 101 1.09e+01 b.82.1.8 -4845 1dtwB 342 1.09e+01 1qs0B c.36.1.7 31828 c.48.1.2 33102 1qumA 285 1.09e+01 1qumA c.1.15.1 29393 1bjoA 360 1.12e+01 1bjnA c.67.1.4 34471 1qw9A 502 1.13e+01 b.71.1.2 -4677 c.1.8.3 -5348 1eypA 222 1.17e+01 1eypA d.36.1.1 38536 1fr1A 361 1.21e+01 1gceA e.3.1.1 42734 1lyqA 104 1.24e+01 b.1.18.17 78302 1dl5A 317 1.31e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1broA 277 1.34e+01 1brt c.69.1.12 34700 1twdA 256 1.41e+01 1m4tA 392 1.46e+01 c.95.1.1 78617 c.95.1.1 78618 1fe8A 196 1.47e+01 1atzA c.62.1.1 59783 1s72M 194 1.54e+01 3eugA 229 1.59e+01 3eugA c.18.1.1 31018 1m3kA 392 1.60e+01 c.95.1.1 78565 c.95.1.1 78566 1ih7A 903 1.61e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1mzjA 339 1.72e+01 c.95.1.1 79700 c.95.1.1 79701 1uj6A 227 1.73e+01 1dgwX 79 1.84e+01 1caxB b.82.1.2 28091 1pjcA 361 1.84e+01 1sayA c.2.1.4 30101 c.23.12.2 31361 1w2wB 191 1.87e+01 1dgrN 79 1.88e+01 1caxB 1o7dE 126 1.90e+01 1sayA 361 1.98e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 1iwdA 215 1.99e+01 d.3.1.1 83756 1dabA 539 2.01e+01 1dabA b.80.1.7 28049 1cauB 184 2.01e+01 1caxB b.82.1.2 28103 1vkfA 188 2.02e+01 1ih8A 271 2.03e+01 2nsyA c.26.2.1 62377 1pjbA 361 2.04e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1gmiA 136 2.05e+01 b.7.1.1 65309 1r6dA 337 2.05e+01 c.2.1.2 -5757 1ii7A 333 2.05e+01 1ii7A d.159.1.4 62415 1aohA 147 2.06e+01 1aohA b.2.2.2 22401 1nsyA 271 2.07e+01 2nsyA c.26.2.1 31614 2nsyA 271 2.10e+01 2nsyA c.26.2.1 31612 1brt 277 2.10e+01 1brt c.69.1.12 34699 1foaA 348 2.14e+01 1foaA c.68.1.10 59929 1rgyA 360 2.17e+01 e.3.1.1 -11768 1aohB 147 2.18e+01 1aohA b.2.2.2 22402 1s72B 338 2.22e+01 1kvlA 358 2.36e+01 e.3.1.1 73062 1l0gA 358 2.38e+01 e.3.1.1 73400 1mdc 133 2.39e+01 1hmt b.60.1.2 27198 1pi4A 358 2.44e+01 e.3.1.1 -11774 1qb5D 99 2.49e+01 b.40.2.1 88357 1vjw 60 2.50e+01 1fxd d.58.1.4 38991 1akz 223 2.50e+01 3eugA c.18.1.1 31007 1bjnA 360 2.53e+01 1bjnA c.67.1.4 34469 1jj2B 337 2.55e+01 1ffkB b.43.3.2 63086 1svb 395 2.71e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1e9lA 377 2.72e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 1fsyA 358 2.72e+01 1gceA e.3.1.1 60016 1n25A 368 2.74e+01 c.37.1.20 85264 1sspE 223 2.74e+01 3eugA c.18.1.1 31009 1o5oA 221 2.79e+01 c.61.1.1 -7954 1qflA 389 2.80e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1kyhA 276 2.80e+01 c.72.1.4 73222 1exkA 79 2.82e+01 1exkA g.54.1.1 45384 1ecpA 238 2.85e+01 1ecpA c.56.2.1 33775 1i7pA 274 2.87e+01 b.43.4.2 66048 c.25.1.1 66049 1fo8A 343 2.87e+01 1foaA c.68.1.10 59927 1j6oA 268 3.08e+01 c.1.9.12 77088 1cawB 184 3.10e+01 1caxB b.82.1.2 28113 1qgvA 142 3.19e+01 1qgvA c.47.1.8 33056 2fnbA 95 3.23e+01 2fnbA b.1.2.1 21979 1pqnA 127 3.25e+01 c.47.1.8 -7479 2thiA 379 3.28e+01 2thiA c.94.1.1 35794 1k9sA 237 3.29e+01 c.56.2.1 68359 1f8vA 355 3.31e+01 2bbvA b.121.4.4 23329 1imoA 88 3.37e+01 1imoA c.15.1.2 62590 1ixh 321 3.40e+01 1ixh c.94.1.1 35761 1caxB 184 3.44e+01 1caxB b.82.1.2 28105 2cxbA 124 3.56e+01 1ycc a.3.1.1 15891 1nytA 271 3.64e+01 c.2.1.7 86417 c.58.1.5 86418 1cjdA 394 3.75e+01 1cjdA b.121.2.1 58963 b.121.2.1 58964 1q1gA 276 3.78e+01 c.56.2.1 -7846 1vixA 420 3.79e+01 c.56.5.4 -7866 d.58.19.1 -10090 1qhxA 178 3.80e+01 1qhsA c.37.1.3 31936 1k7cA 233 3.86e+01 c.23.10.4 68267 1n1xA 124 3.90e+01 d.5.1.1 -8923 1qj4A 257 3.93e+01 1qj4A c.69.1.20 34796 1b8jA 449 3.94e+01 1b8jA c.76.1.1 34992 1v74B 87 4.00e+01 unknown_sccs -643