# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1iyhA 198 4.85e-04 a.45.1.1 83790 c.47.1.5 83791 1gumA 222 4.99e-04 1pgtA a.45.1.1 17683 c.47.1.5 32977 1gulA 222 7.47e-04 1pgtA a.45.1.1 17675 c.47.1.5 32969 1pd21 199 1.87e-03 1pd21 1oktA 211 2.91e-03 a.45.1.1 -942 c.47.1.5 -7467 1f3aA 222 2.81e-02 1pgtA a.45.1.1 17701 c.47.1.5 32995 6gsvA 217 4.08e-02 1b8xA a.45.1.1 17633 c.47.1.5 32925 1k3lA 221 5.21e-02 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 5.21e-02 a.45.1.1 77245 c.47.1.5 77246 1oe8A 211 5.45e-02 a.45.1.1 86905 c.47.1.5 86906 1gseA 221 8.92e-02 1pgtA a.45.1.1 17667 c.47.1.5 32961 1pgtA 210 1.07e-01 1pgtA a.45.1.1 17515 c.47.1.5 32809 2gsq 202 1.88e-01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1b4pA 217 3.96e-01 a.45.1.1 83158 c.47.1.5 83159 1b8xA 280 3.97e-01 1b8xA a.45.1.1 17739 c.47.1.5 33033 1dugA 234 5.66e-01 1b8xA a.45.1.1 17718 c.47.1.5 33012 1l2lA 457 7.37e-01 c.72.1.3 77656 1ezfA 340 1.79e+00 1ezfA a.128.1.2 19440 1r2rA 248 1.90e+00 c.1.1.1 -5147 1augA 215 3.32e+00 1a2zA c.56.4.1 33798 1kid 203 3.45e+00 1derA c.8.5.1 30771 1e6bA 221 3.67e+00 1e6bA a.45.1.1 59294 c.47.1.5 59295 1f46A 140 3.92e+00 1f46A d.129.4.1 59643 1cot 129 4.76e+00 1ycc a.3.1.1 15899 1f47B 144 5.41e+00 1f46A d.129.4.1 59645 1ozhA 566 5.91e+00 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1f7wA 144 6.16e+00 1f46A d.129.4.1 59679 1aw9 216 6.83e+00 1gnwA a.45.1.1 17736 c.47.1.5 33030 1eu8A 409 6.85e+00 1eu8A c.94.1.1 59502 1m0uA 249 6.93e+00 a.45.1.1 78359 c.47.1.5 78360 1fpxA 352 7.01e+00 1fpxA a.4.5.29 59950 c.66.1.12 59951 1fp2A 352 8.50e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1nhyA 219 9.16e+00 a.45.1.1 80520 c.47.1.5 80521 1o6zA 303 9.40e+00 c.2.1.5 81107 d.162.1.1 81108 1kzhA 555 9.53e+00 c.89.1.1 73361 1bo1A 416 1.14e+01 1bo1A d.143.1.2 41591 1gikA 261 1.14e+01 d.165.1.1 -11545 1bp3A 191 1.18e+01 1huw a.26.1.1 16838 1q9iA 571 1.26e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607 1j1qA 261 1.28e+01 d.165.1.1 -11546 1uocA 289 1.32e+01 unknown_sccs -7671 1brt 277 1.34e+01 1brt c.69.1.12 34699 1iu8A 206 1.53e+01 c.56.4.1 71436 1gnd 447 1.53e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1qciA 262 1.57e+01 1qi7A d.165.1.1 42201 1jkmB 361 1.71e+01 1jkmA c.69.1.2 34634 1m64A 571 1.76e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1e39A 571 1.79e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1eh2 106 1.82e+01 1eh2 a.39.1.6 17339 1jlvA 209 1.87e+01 a.45.1.1 71729 c.47.1.5 71730 1ky9B 448 1.92e+01 b.36.1.4 73200 b.36.1.4 73201 b.47.1.1 73202 1qq2A 199 1.94e+01 1qq2A c.47.1.10 33064 1d5tA 433 1.97e+01 1gnd c.3.1.3 30422 d.16.1.6 37986 1qjdA 571 1.98e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1uf2A 1019 2.00e+01 unknown_sccs -12036 1amk 251 2.04e+01 1amk c.1.1.1 28503 1n55A 251 2.04e+01 c.1.1.1 80007 1izoA 417 2.12e+01 a.104.1.1 83851 1ql3A 99 2.15e+01 1ycc a.3.1.1 15822 1kssA 571 2.32e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1ky9A 448 2.42e+01 b.36.1.4 73198 b.47.1.1 73199 1broA 277 2.50e+01 1brt c.69.1.12 34700 1n82A 331 2.63e+01 c.1.8.3 -5306 1lj1A 571 2.63e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1dm5A 315 2.80e+01 1avc a.65.1.1 18186 1bjnA 360 2.88e+01 1bjnA c.67.1.4 34469 1bjoA 360 2.89e+01 1bjnA c.67.1.4 34471 1rt8A 513 2.93e+01 1ua4A 455 3.03e+01 c.72.1.3 -8416 1ig3A 263 3.17e+01 1ig3A b.82.6.1 62358 c.100.1.1 62359 1ivyA 452 3.32e+01 1ivyA c.69.1.5 34654 1g97A 459 3.41e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1d6aB 262 3.42e+01 1qi7A d.165.1.1 42198 1wdcC 156 3.56e+01 1wdcC a.39.1.5 17317 1gwcA 230 3.59e+01 a.45.1.1 70660 c.47.1.5 70661 1gc5A 467 3.71e+01 1gc5A c.72.1.3 60429 1qltA 560 3.78e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 2hhmA 276 3.94e+01 1imbA e.7.1.1 42955 1oatA 439 3.94e+01 2dkb c.67.1.4 34461 1ofcX 304 3.97e+01 a.4.1.3 -195 unknown_sccs -199 unknown_sccs -978