# List of top-scoring protein chains for T0276.t2k-w0.5 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 1souA 194 6.87e-26 1p77A 272 1.92e+00 c.2.1.7 -5965 c.58.1.5 -6371 1bnlA 178 2.40e+00 1koe d.169.1.5 42444 1wbfA 242 4.32e+00 1led b.29.1.1 24050 1wblA 241 4.37e+00 1led b.29.1.1 24052 1v3kA 686 4.47e+00 1uksA 686 4.57e+00 b.1.18.2 -2716 b.3.1.1 -2917 b.71.1.1 -4641 c.1.8.1 -5265 1v3jA 686 4.66e+00 1uktA 686 4.68e+00 b.1.18.2 -2718 b.3.1.1 -2919 b.71.1.1 -4643 c.1.8.1 -5267 1pamA 686 4.73e+00 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1d7fA 686 4.84e+00 1cxlA b.1.18.2 21848 b.3.1.1 22517 b.71.1.1 27755 c.1.8.1 28742 1sg1X 161 5.44e+00 1gdeA 389 6.09e+00 c.67.1.1 60456 1ehiA 377 6.22e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1djuA 388 6.22e+00 1bjwA c.67.1.1 59116 1ebdA 455 1.00e+01 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1aerB 201 1.02e+01 1aerA d.166.1.1 42250 1aerA 211 1.09e+01 1aerA d.166.1.1 42249 1dmaA 214 1.11e+01 1aerA d.166.1.1 42251 1hr6A 475 1.28e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165 1lwjA 441 1.29e+01 b.71.1.1 74303 c.1.8.1 74304 1o7dC 159 1.40e+01 b.30.5.6 86640 1dqaA 467 1.52e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1koe 172 1.58e+01 1koe d.169.1.5 42448 1dy1A 188 1.67e+01 1koe d.169.1.5 42450 1efvB 255 1.73e+01 1efvB c.26.2.3 31634 1eudA 311 1.82e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1j49A 333 1.90e+01 c.2.1.4 71498 c.23.12.1 71499 1uunA 184 2.02e+01 unknown_sccs -12370 1by8A 314 2.03e+01 1cs8A d.3.1.1 37083 1avu 181 2.04e+01 1wba b.42.4.1 25603 1avwB 177 2.13e+01 1wba b.42.4.1 25599 1j4aA 333 2.19e+01 c.2.1.4 71502 c.23.12.1 71503 1nd1A 202 2.29e+01 d.92.1.9 -10564 1mjhA 162 2.36e+01 1mjhA c.26.2.4 31639 1fdpA 235 2.43e+01 5ptp b.47.1.2 26322 1bio 228 2.51e+01 5ptp b.47.1.2 26314 1dhs 361 2.57e+01 1dhs c.31.1.1 31727 1rlzA 369 2.59e+01 2xat 212 2.74e+01 2xat b.81.1.3 28058 1giqA 413 2.77e+01 d.166.1.1 76224 d.166.1.1 76225 1dst 228 2.79e+01 1a7s b.47.1.2 26318 1gqrA 532 2.95e+01 c.69.1.1 70374 1eeaA 534 2.96e+01 2bce c.69.1.1 34609 2dfpA 534 2.96e+01 2bce c.69.1.1 34597 1acj 537 2.98e+01 2bce c.69.1.1 34588 1ea5A 537 2.99e+01 2bce c.69.1.1 34592 1e66A 543 3.08e+01 c.69.1.1 59291 1oz4A 806 3.08e+01 b.52.2.3 -4340 c.37.1.20 -7235 c.37.1.20 -7236 d.31.1.1 -9532 1r7rA 816 3.08e+01 b.52.2.3 -4343 c.37.1.20 -7241 c.37.1.20 -7242 d.31.1.1 -9535 1f97A 212 3.14e+01 1f97A b.1.1.1 19763 b.1.1.4 21764 1ufkA 254 3.31e+01 unknown_sccs -8103 1n9gB 386 3.35e+01 b.35.1.2 -3721 c.2.1.1 -5745 1kewA 361 3.42e+01 c.2.1.2 68544 1nbqA 209 3.43e+01 b.1.1.1 85532 b.1.1.4 85533 1ub1A 133 3.52e+01 d.10.1.3 -8969 1s5lA 344 3.53e+01 1qy9A 297 3.56e+01 1ka9H 200 3.58e+01 c.23.16.1 77308 1sdjA 310 3.59e+01 d.21.1.2 -9420 d.21.1.2 -9421 1qyaA 307 3.59e+01 1ab6A 125 3.67e+01 3chy c.23.1.1 31054 1izlA 360 3.67e+01 i.5.1.1 76994 1i2kA 269 3.83e+01 e.17.1.1 -11995 1kaeA 434 3.86e+01 c.82.1.2 72247 1kxjA 205 3.87e+01 c.23.16.1 73153 1eu8A 409 3.89e+01 1eu8A c.94.1.1 59502 1orfA 234 3.92e+01 b.47.1.2 87338 1fftA 663 3.93e+01 2occA f.24.1.1 43627 1op8A 234 3.94e+01 b.47.1.2 87224