# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 7.35e-08 1j5xA 342 2.68e-01 c.80.1.1 71591 1dk4A 252 3.69e-01 1dk4A e.7.1.1 42970 1su8A 636 7.80e-01 e.26.1.2 -12015 1orvA 728 1.12e+00 b.70.3.1 87354 c.69.1.24 87355 1b0zA 445 1.27e+00 2pgi c.80.1.2 35309 2pgi 445 1.27e+00 2pgi c.80.1.2 35308 1moq 368 1.32e+00 1moq c.80.1.1 35302 3csuA 310 2.12e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1aa6 715 2.18e+00 2napA b.52.2.2 26916 c.81.1.1 35324 1at1A 310 2.69e+00 3csuA c.78.1.1 35168 c.78.1.1 35169 1poxA 585 3.28e+00 1poxA c.31.1.3 31731 c.36.1.5 31793 c.36.1.9 31794 1fdo 715 3.33e+00 2napA b.52.2.2 26917 c.81.1.1 35325 1c7qA 445 3.91e+00 2pgi c.80.1.2 35307 1g0hA 252 3.99e+00 1dk4A e.7.1.1 60171 1f0kA 364 4.86e+00 1f0kA c.87.1.2 35465 1i2aA 219 5.08e+00 e.24.1.1 -12012 1fdi 715 5.26e+00 2napA b.52.2.2 26918 c.81.1.1 35326 1ekxA 311 5.39e+00 3csuA c.78.1.1 35088 c.78.1.1 35089 1ujpA 271 5.41e+00 c.1.2.4 -5177 1jztA 246 5.55e+00 c.104.1.1 63319 1duvG 333 5.73e+00 1othA c.78.1.1 35228 c.78.1.1 35229 1umwA 237 5.94e+00 unknown_sccs -9455 unknown_sccs -9456 1vi6A 208 6.01e+00 c.23.15.1 -6489 1rqlA 267 6.33e+00 c.108.1.3 -6814 1n57A 291 6.55e+00 c.23.16.2 85328 1vimA 200 6.75e+00 c.80.1.3 -8532 1fezA 256 7.12e+00 1fezA c.108.1.3 43343 1hl8A 449 7.14e+00 unknown_sccs -4690 unknown_sccs -5361 1jjyA 636 7.95e+00 1jjyA 1a16 440 8.02e+00 1az9 c.55.2.1 33548 d.127.1.1 41165 1ahjB 212 8.22e+00 2ahjB b.34.4.4 24601 1rwyA 109 8.28e+00 a.39.1.4 -825 1a4yA 460 8.43e+00 1a4yA c.10.1.1 30852 2ahjB 212 8.48e+00 2ahjB b.34.4.4 24599 1ufoA 238 8.86e+00 unknown_sccs -8303 1az9 457 8.88e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1d3uB 201 9.07e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1m7vA 363 9.23e+00 d.174.1.1 78748 1a26 361 9.43e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1cs0B 382 1.01e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1n1mA 728 1.01e+01 b.70.3.1 79815 c.69.1.24 79816 1c3oB 382 1.03e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1hl9A 449 1.07e+01 unknown_sccs -4694 unknown_sccs -5365 1vhyA 257 1.12e+01 b.122.1.2 -5129 c.116.1.5 -6705 1nxzA 246 1.16e+01 b.122.1.2 86391 c.116.1.5 86392 1h2sA 225 1.16e+01 f.13.1.1 76578 1ohuA 175 1.19e+01 f.1.4.1 -12058 1t35A 191 1.23e+01 unknown_sccs -7285 1f4tA 368 1.24e+01 1f4tA a.104.1.1 18973 1cjsA 219 1.27e+01 1cjsA e.24.1.1 43354 1ky3A 182 1.30e+01 c.37.1.8 73193 1efyA 350 1.34e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1buuA 168 1.39e+01 1rtm1 d.169.1.1 42366 h.1.1.1 45388 1a9xB 379 1.42e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1kzyC 259 1.57e+01 c.15.1.4 73383 c.15.1.4 73384 1m22A 503 1.72e+01 c.117.1.1 78464 1jgjA 217 1.76e+01 1c3wA f.13.1.1 62952 1jaxA 212 1.80e+01 c.2.1.6 66476 1i3dA 146 1.84e+01 a.1.1.2 61587 1uxoA 192 1.86e+01 1jayA 212 1.97e+01 c.2.1.6 66478 1nijA 318 1.98e+01 c.37.1.10 85741 d.237.1.1 85742 1m3sA 186 2.10e+01 c.80.1.3 78573 1apyA 162 2.10e+01 1apyA d.153.1.5 42004 1eswA 500 2.12e+01 1cwyA c.1.8.1 59500 1l9vA 317 2.14e+01 d.13.2.1 73760 d.216.1.1 73761 1volA 204 2.20e+01 1tfb a.74.1.2 18370 a.74.1.2 18371 1w1kA 560 2.30e+01 1mjgM 729 2.37e+01 e.26.1.3 79204 1quvA 578 2.39e+01 1quvA e.8.1.4 43119 5pal 109 2.41e+01 1a75A a.39.1.4 17215 1cwyA 500 2.41e+01 1cwyA c.1.8.1 28789 1keaA 221 2.42e+01 a.96.1.2 68491 2msbA 115 2.45e+01 1rtm1 d.169.1.1 42355 1aisB 200 2.52e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1teaA 299 2.59e+01 1ejhA 190 2.63e+01 1ejhA d.86.1.1 40147 1mkaA 171 2.75e+01 1mkaA d.38.1.2 38543 2bnh 457 2.76e+01 1a4yA c.10.1.1 30850 1j4nA 271 2.78e+01 f.19.1.1 71510 1me8A 503 2.80e+01 c.1.5.1 79028 1szqA 483 2.83e+01 unknown_sccs -11791 1p5sA 203 2.84e+01 a.40.1.1 -900 1o22A 170 2.86e+01 d.238.1.1 86557 1oaoC 729 2.96e+01 e.26.1.3 86746 1ak5 503 3.01e+01 1ak5 c.1.5.1 28639 1v5xA 203 3.05e+01 c.1.2.4 -5169 1p2xA 159 3.13e+01 1iyhA 198 3.21e+01 a.45.1.1 83790 c.47.1.5 83791 1o4wA 147 3.24e+01 c.120.1.1 86629 1ohtA 215 3.32e+01 d.118.1.1 87036 1pu6A 218 3.39e+01 unknown_sccs -1282 1oaoA 674 3.41e+01 e.26.1.2 86744 1avmA 201 3.48e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 2tmdA 729 3.51e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1pqsA 77 3.52e+01 d.15.2.2 88277 1l6rA 227 3.54e+01 c.108.1.10 77768 2sxl 88 3.57e+01 1b7fA d.58.7.1 39179 1gq2A 555 3.70e+01 c.2.1.7 70308 c.58.1.3 70309 2msbB 115 3.79e+01 1rtm1 d.169.1.1 42356 1mat 264 3.87e+01 1c24A d.127.1.1 41152 1r8sE 203 3.89e+01 a.118.3.1 -1579 1a41 234 3.90e+01 1a41 d.163.1.2 42174 1avqA 228 3.91e+01 1avqA c.52.1.13 33326 1m6jA 261 3.94e+01 c.1.1.1 78693 1i1gA 141 3.96e+01 a.4.5.32 65982 d.58.4.2 65983 1bq0 103 3.96e+01 1bqz a.2.3.1 15698 1oqvA 192 3.97e+01 d.24.1.2 87320 1h68A 239 3.99e+01 f.13.1.1 60664