# List of top-scoring protein chains for t2k-100-30-str 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 1g79A 218 5.06e-11 1ci0A b.45.1.1 25752 1dnlA 199 5.61e-11 1ci0A b.45.1.1 25753 1ci0A 228 1.64e-08 1ci0A b.45.1.1 25750 1egxA 115 9.77e-03 1evhA b.55.1.4 27000 1d8iA 311 5.86e-01 1d8iA d.63.1.1 39541 1d8hA 311 7.07e-01 1d8iA d.63.1.1 39544 1a65A 504 9.97e-01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 2ucz 165 1.27e+00 1u9aA d.20.1.1 38330 1f8gA 384 1.46e+00 1sayA c.2.1.4 59695 c.23.12.2 59696 1i7qA 519 1.61e+00 1qdlA d.161.1.1 61901 1aol 228 1.62e+00 1aol b.20.1.1 23840 1hfuA 503 1.63e+00 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1k6wA 426 2.11e+00 b.92.1.2 68236 c.1.9.5 68237 1gtfA 74 2.44e+00 1pysA 350 2.53e+00 1pysA d.104.1.1 40775 1qawF 74 2.59e+00 1wapA b.82.5.1 28202 1jbbA 153 2.73e+00 1u9aA d.20.1.1 62842 1jatA 155 2.84e+00 1u9aA d.20.1.1 62818 1evhA 112 3.16e+00 1evhA b.55.1.4 26997 3thiA 371 3.86e+00 2thiA c.94.1.1 35792 1b7yA 350 4.06e+00 1pysA d.104.1.1 40776 2thiA 379 5.34e+00 2thiA c.94.1.1 35794 1wapA 75 5.50e+00 1wapA b.82.5.1 28153 1tmcA 175 6.84e+00 1agdA d.19.1.1 38258 1gv4A 528 7.08e+00 1fl0A 171 8.06e+00 1eujA b.40.4.4 25315 1qfoA 119 8.64e+00 1qfoA b.1.1.1 19708 1gbg 214 8.87e+00 1axkA b.29.1.2 24171 1i4fA 275 8.93e+00 1agdA b.1.1.2 61687 d.19.1.1 61688 1duzA 275 9.20e+00 1agdA b.1.1.2 20670 d.19.1.1 38224 1ksgB 152 9.21e+00 1g9mG 321 9.25e+00 1gc1G d.172.1.1 42492 1qtsA 247 9.47e+00 1qtsA b.1.10.1 22313 d.105.1.1 40789 1b9kA 238 9.55e+00 1qtsA b.1.10.1 22315 d.105.1.1 40791 1f6bA 198 9.73e+00 c.37.1.8 64986 1kshB 152 9.81e+00 2mtaC 147 9.82e+00 2mtaC a.3.1.1 15908 2prd 174 1.05e+01 2prd b.40.5.1 25435 1kyfA 247 1.06e+01 1e8nA 710 1.07e+01 1qfmA b.69.7.1 27675 c.69.1.4 34643 1pnkB 557 1.08e+01 1ajqB 1ajqB 557 1.09e+01 1ajqB 1e3aB 560 1.12e+01 1ajqB 1b0uA 262 1.14e+01 1b0uA c.37.1.12 32370 1gm7B 557 1.16e+01 1gkfB 557 1.20e+01 1jhnA 424 1.21e+01 b.29.1.12 66720 b.29.1.12 66721 b.104.1.1 66722 1gm9B 557 1.21e+01 1gk9B 557 1.23e+01 1l1eA 287 1.23e+01 1j8uA 325 1.40e+01 1pah 308 1.42e+01 4pah d.178.1.1 42578 1ds1A 324 1.46e+01 1drtA b.82.2.2 28127 1if1A 113 1.46e+01 2irfG a.4.5.23 16183 1kyaA 499 1.53e+01 1gywA 128 1.54e+01 1qu0A 191 1.55e+01 1dykA b.29.1.4 24225 7ceiB 206 1.64e+01 1bxiB d.4.1.1 37134 1eujA 166 1.64e+01 1eujA b.40.4.4 25316 1jb7A 495 1.71e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1dmtA 696 1.74e+01 1dmtA d.92.1.4 40296 1tbgA 340 1.76e+01 1tbgA b.69.4.1 27649 7ahlA 293 1.79e+01 7ahlA f.6.1.1 43812 1fl9A 161 1.81e+01 1kq1A 77 1.83e+01 1dmwA 307 1.91e+01 4pah d.178.1.1 42580 1jdc 429 1.93e+01 1jdc b.71.1.1 27789 c.1.8.1 28776 1hsbA 270 1.93e+01 1agdA b.1.1.2 20736 d.19.1.1 38257 1qrjB 199 1.94e+01 1qrjB a.28.3.1 16952 4pah 308 2.03e+01 4pah d.178.1.1 42576 1iknA 286 2.03e+01 1a3qA b.1.1.5 21936 b.2.5.1 22449 1e7uA 961 2.10e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1qfoC 119 2.17e+01 1qfoA b.1.1.1 19710 1bunB 61 2.30e+01 1bpi g.8.1.1 44552 1gkpA 458 2.30e+01 1k8kA 418 2.34e+01 c.55.1.1 68305 c.55.1.1 68306 2bbkL 125 2.39e+01 2bbkL g.21.1.1 44882 1llwA 1520 2.47e+01 1dykA 394 2.50e+01 1dykA b.29.1.4 24223 b.29.1.4 24224 1gcyA 527 2.57e+01 1jdc b.71.1.1 27788 c.1.8.1 28775 1htwA 158 2.62e+01 1otcA 495 2.66e+01 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1fn9A 365 2.68e+01 1fn9A d.196.1.1 59894 1jlnA 297 2.68e+01 1pty c.45.1.2 63172 1b3qA 379 2.76e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1sacA 204 2.84e+01 1sacA b.29.1.5 24237 1gotB 340 2.84e+01 1tbgA b.69.4.1 27648 1b9wA 89 2.96e+01 1b9wA g.3.11.4 44334 g.3.11.4 44335 1bu6O 501 2.96e+01 1glcG c.55.1.4 33499 c.55.1.4 33500 1jj7A 260 2.97e+01 c.37.1.12 63114 1a81A 254 3.09e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1glcG 501 3.10e+01 1glcG c.55.1.4 33519 c.55.1.4 33520 1toh 343 3.17e+01 4pah d.178.1.1 42573 1qfmA 710 3.23e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1jj2E 177 3.29e+01 1ffk1 d.141.1.1 63089 d.141.1.1 63090 1jqgA 433 3.29e+01 1vkxA 273 3.32e+01 1a3qA b.1.1.5 21941 b.2.5.1 22454 1ef8A 261 3.46e+01 1ef8A c.14.1.3 30921 1ndh 272 3.56e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 2arcA 164 3.65e+01 2arcA b.82.4.1 28148 1dyqA 234 3.66e+01 3seb b.40.2.2 59140 d.15.6.1 59141 1kluD 239 3.66e+01 1e5uI 187 3.67e+01 1f00I b.1.14.1 22372 d.169.1.3 42441 1j7dA 145 3.73e+01 1jatB d.20.1.1 62680 1fts 295 3.82e+01 1ng1 a.24.13.1 16968 c.37.1.10 32279 1kopA 223 3.87e+01 2cba b.74.1.1 27966 2arcB 164 3.88e+01 2arcA b.82.4.1 28149 1h3nA 878 3.88e+01 2aaiB 262 3.90e+01 1abrB b.42.2.1 25561 b.42.2.1 25562