# 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 1tzbA 302 1.02e-08 1j5xA 342 2.24e-01 c.80.1.1 71591 1moq 368 4.74e-01 1moq c.80.1.1 35302 1aa6 715 4.94e-01 2napA b.52.2.2 26916 c.81.1.1 35324 1rqlA 267 6.88e-01 c.108.1.3 -6814 1fdo 715 7.39e-01 2napA b.52.2.2 26917 c.81.1.1 35325 1fdi 715 8.46e-01 2napA b.52.2.2 26918 c.81.1.1 35326 1orvA 728 9.03e-01 b.70.3.1 87354 c.69.1.24 87355 1fezA 256 1.10e+00 1fezA c.108.1.3 43343 1c7qA 445 1.20e+00 2pgi c.80.1.2 35307 1b0zA 445 1.21e+00 2pgi c.80.1.2 35309 2pgi 445 1.21e+00 2pgi c.80.1.2 35308 1vi6A 208 1.68e+00 c.23.15.1 -6489 1i2aA 219 2.00e+00 e.24.1.1 -12012 1su8A 636 2.14e+00 e.26.1.2 -12015 1cjsA 219 2.59e+00 1cjsA e.24.1.1 43354 1jjyA 636 3.20e+00 1jjyA 1kzyC 259 3.24e+00 c.15.1.4 73383 c.15.1.4 73384 1g0hA 252 3.75e+00 1dk4A e.7.1.1 60171 3csuA 310 4.27e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1m6jA 261 5.54e+00 c.1.1.1 78693 1poxA 585 5.71e+00 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1ujpA 271 5.82e+00 c.1.2.4 -5177 1n1mA 728 5.91e+00 b.70.3.1 79815 c.69.1.24 79816 1eswA 500 6.10e+00 1cwyA c.1.8.1 59500 1hl8A 449 6.20e+00 unknown_sccs -4690 unknown_sccs -5361 1uxoA 192 6.23e+00 1f0kA 364 7.02e+00 1f0kA c.87.1.2 35465 1t35A 191 7.30e+00 unknown_sccs -7285 1at1A 310 7.91e+00 3csuA c.78.1.1 35168 c.78.1.1 35169 1d3uB 201 8.27e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1qczA 169 8.46e+00 1qczA c.23.8.1 31276 1iqrA 420 9.04e+00 a.99.1.1 66275 c.28.1.1 66276 1avqA 228 9.45e+00 1avqA c.52.1.13 33326 1vimA 200 9.47e+00 c.80.1.3 -8532 1cwyA 500 9.60e+00 1cwyA c.1.8.1 28789 1duvG 333 1.03e+01 1othA c.78.1.1 35228 c.78.1.1 35229 1e1oA 504 1.05e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1ja1A 622 1.07e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1hl9A 449 1.07e+01 unknown_sccs -4694 unknown_sccs -5365 1jztA 246 1.10e+01 c.104.1.1 63319 1id1A 153 1.11e+01 1id1A c.2.1.9 62286 1r8sE 203 1.13e+01 a.118.3.1 -1579 1ufoA 238 1.21e+01 unknown_sccs -8303 1efdN 266 1.26e+01 1efdN c.92.2.1 35597 1kxu 333 1.28e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 2ahjB 212 1.37e+01 2ahjB b.34.4.4 24599 1n57A 291 1.37e+01 c.23.16.2 85328 1v5xA 203 1.38e+01 c.1.2.4 -5169 1nytA 271 1.39e+01 c.2.1.7 86417 c.58.1.5 86418 1jayA 212 1.40e+01 c.2.1.6 66478 1itkA 731 1.53e+01 a.93.1.3 71417 a.93.1.3 71418 1j4nA 271 1.53e+01 f.19.1.1 71510 1jgjA 217 1.59e+01 1c3wA f.13.1.1 62952 1dk4A 252 1.60e+01 1dk4A e.7.1.1 42970 1b1cA 181 1.63e+01 1amoA c.23.5.2 31212 1jkw 323 1.70e+01 1jkw a.74.1.1 18356 a.74.1.1 18357 1jaxA 212 1.71e+01 c.2.1.6 66476 1auoA 218 1.74e+01 1auoA c.69.1.14 34716 1l6rA 227 1.79e+01 c.108.1.10 77768 1djnA 729 1.88e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1c3oB 382 1.99e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1teaA 299 2.15e+01 1ky3A 182 2.16e+01 c.37.1.8 73193 1pmy 123 2.18e+01 1bqk b.6.1.1 22888 1h2sA 225 2.20e+01 f.13.1.1 76578 2tmdA 729 2.23e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1amoA 615 2.32e+01 1amoA b.43.4.1 25669 c.23.5.2 31210 c.25.1.4 31557 1mkaA 171 2.40e+01 1mkaA d.38.1.2 38543 1nxzA 246 2.47e+01 b.122.1.2 86391 c.116.1.5 86392 1umwA 237 2.56e+01 unknown_sccs -9455 unknown_sccs -9456 1ejhA 190 2.57e+01 1ejhA d.86.1.1 40147 1vhyA 257 2.58e+01 b.122.1.2 -5129 c.116.1.5 -6705 1o94A 729 2.62e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1ohuA 175 2.67e+01 f.1.4.1 -12058 1ohtA 215 2.73e+01 d.118.1.1 87036 1ml4A 308 2.73e+01 c.78.1.1 79255 c.78.1.1 79256 1cs0B 382 2.77e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1no1A 126 2.81e+01 a.179.1.1 85913 1ahjB 212 2.83e+01 2ahjB b.34.4.4 24601 1aurA 218 2.95e+01 1auoA c.69.1.14 34718 1ursA 402 3.00e+01 c.94.1.1 -8651 1aisB 200 3.10e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1m22A 503 3.16e+01 c.117.1.1 78464 1rwyA 109 3.24e+01 a.39.1.4 -825 1pbv 195 3.27e+01 1pbv a.118.3.1 19179 1ghpA 258 3.58e+01 1btl e.3.1.1 60520 1m2oB 190 3.61e+01 c.37.1.8 78485 1zin 217 3.63e+01 1zin c.37.1.1 31915 g.41.2.1 45178 1q8iA 783 3.67e+01 c.55.3.5 -7635 e.8.1.1 -11885 1ckv 141 3.68e+01 1ckv d.137.1.1 41452 1pqsA 77 3.72e+01 d.15.2.2 88277 1w1kA 560 3.87e+01 1nijA 318 3.98e+01 c.37.1.10 85741 d.237.1.1 85742