# List of top-scoring protein chains for 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 1dhn 121 5.15e-26 1dhn d.96.1.3 40663 1b9lA 120 3.12e-21 1b9lA d.96.1.3 40665 1g3uA 214 1.35e+00 c.37.1.1 65132 1gtvA 214 1.35e+00 1b2uD 90 1.79e+00 1ay7B c.9.1.1 30843 1lkxA 697 2.46e+00 1eqrA 590 2.57e+00 1c0aA b.40.4.1 25247 d.74.4.1 39732 d.104.1.1 40768 1i7qA 519 2.66e+00 1qdlA d.161.1.1 61901 1d9zA 657 2.70e+00 1d2mA c.37.1.13 32421 c.37.1.13 32422 1qfuH 223 2.71e+00 1igtB b.1.1.1 20293 b.1.1.2 21285 1c0aA 585 2.75e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1d9xA 658 2.95e+00 1d2mA c.37.1.13 32419 c.37.1.13 32420 1dkfB 235 3.30e+00 2lbd a.123.1.1 19281 1stmA 157 3.41e+00 1stmA b.10.1.2 23281 1a6q 382 3.55e+00 1a6q d.158.1.1 42063 1dusA 194 3.69e+00 1dusA c.66.1.4 34182 1jjiA 311 4.20e+00 c.69.1.2 66766 1b87A 181 4.49e+00 1b87A d.108.1.1 40797 1myo 118 6.35e+00 2myo a.118.2.1 19174 2myo 118 6.35e+00 2myo a.118.2.1 19175 1bcfA 158 6.88e+00 1bcfA a.25.1.1 16648 2frvB 536 7.19e+00 1h2rL e.18.1.1 43291 1frvB 536 7.58e+00 1h2rL e.18.1.1 43296 1b43A 340 7.81e+00 1a76 a.60.7.1 18092 c.53.1.2 33362 1bucA 383 1.10e+01 3mdeA a.29.3.1 16590 e.6.1.1 42851 1fhuA 320 1.36e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1fhvA 323 1.37e+01 1fhuA c.1.11.2 29235 d.54.1.1 38879 1evqA 310 1.38e+01 1jkmA c.69.1.2 34635 1cpzA 68 1.39e+01 1aw0 d.58.17.1 39351 1b2sD 90 1.51e+01 1ay7B c.9.1.1 30837 1ezwA 349 1.56e+01 1ezwA c.1.16.3 29558 1b3sD 90 1.77e+01 1ay7B c.9.1.1 30846 1dfmA 223 1.84e+01 1d2iA c.52.1.5 33295 1d2iA 223 1.84e+01 1d2iA c.52.1.5 33297 1ay7B 89 1.86e+01 1ay7B c.9.1.1 30836 1d2fA 390 1.94e+01 1d2fA c.67.1.3 34411 1e4iA 447 1.94e+01 1e70M c.1.8.4 59225 1egjL 215 1.98e+01 32c2A b.1.1.1 20500 b.1.1.2 21456 1qkiH 514 2.06e+01 1dpgA c.2.1.3 30087 d.81.1.5 40002 1a19A 90 2.10e+01 1ay7B c.9.1.1 30831 1k23C 309 2.14e+01 c.107.1.1 68031 1clh 166 2.21e+01 2cpl b.62.1.1 27512 1tr1A 447 2.22e+01 1e70M c.1.8.4 28957 1bgaA 447 2.22e+01 1e70M c.1.8.4 28961 1bggA 448 2.22e+01 1e70M c.1.8.4 28953 1g3gA 164 2.30e+01 1g6gA b.26.1.2 23918 1f9cB 372 2.31e+01 1mucA c.1.11.2 59730 d.54.1.1 59731 1a0dA 440 2.37e+01 1a0cA c.1.15.3 29533 1b4jH 220 2.46e+01 1igtB b.1.1.1 20309 b.1.1.2 21301 1c3aA 135 2.47e+01 1ixxB d.169.1.1 42343 1iapA 211 2.84e+01 a.91.1.1 62119 1mat 264 2.85e+01 1c24A d.127.1.1 41152 1c24A 263 2.88e+01 1c24A d.127.1.1 41148 2matA 264 2.88e+01 1c24A d.127.1.1 41146 3matA 265 2.89e+01 1c24A d.127.1.1 41149 1jb9A 316 2.90e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 4matA 278 2.92e+01 1c24A d.127.1.1 41150 1brsD 89 3.26e+01 1ay7B c.9.1.1 30825 1b27D 90 3.27e+01 1ay7B c.9.1.1 30840 1cr6B 554 3.27e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1ek1A 554 3.27e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1cqzA 554 3.27e+01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1bkhC 359 3.36e+01 1mucA c.1.11.2 29240 d.54.1.1 38884 1bkhA 358 3.36e+01 1mucA c.1.11.2 29238 d.54.1.1 38882 1bkhB 361 3.46e+01 1mucA c.1.11.2 29239 d.54.1.1 38883 3mucA 369 3.46e+01 1mucA c.1.11.2 29243 d.54.1.1 38887 1mucA 373 3.50e+01 1mucA c.1.11.2 29236 d.54.1.1 38880 2mucB 373 3.51e+01 c.1.11.2 29242 d.54.1.1 38886 2gnkA 112 3.75e+01 2pii d.58.5.1 39075 1dgqA 188 3.81e+01 1ido c.62.1.1 34131 1c7qA 445 3.88e+01 2pgi c.80.1.2 35307 2pgi 445 3.88e+01 2pgi c.80.1.2 35308 1g3nC 257 3.96e+01 1bu2A a.74.1.1 18366 a.74.1.1 18367 1aquA 297 3.97e+01 1aquA c.37.1.5 31942