# 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 1efvB 255 4.07e-33 1efvB c.26.2.3 31634 1efpB 252 5.88e-33 1efvB c.26.2.3 31636 1o97C 264 1.31e-28 c.26.2.3 81232 1o97D 320 5.25e-07 c.26.2.3 81233 c.31.1.2 81234 1efvA 315 1.49e-03 1efvA c.26.2.3 31633 c.31.1.2 31728 1efpA 307 1.49e-01 1efvA c.26.2.3 31635 c.31.1.2 31729 1qo8A 566 7.68e-01 1qjdA a.138.1.3 19696 c.3.1.4 30433 d.168.1.1 42316 1augA 215 2.27e+00 1a2zA c.56.4.1 33798 1avu 181 2.59e+00 1wba b.42.4.1 25603 1avwB 177 2.65e+00 1wba b.42.4.1 25599 1qhbA 596 2.68e+00 1qhbA a.111.1.2 19055 1ad1A 266 2.83e+00 1aj2 c.1.21.1 29668 1b09A 206 2.86e+00 1sacA b.29.1.5 24247 1l2lA 457 3.90e+00 c.72.1.3 77656 1i69A 219 4.20e+00 c.94.1.1 61825 1odxA 99 5.46e+00 1fmb b.50.1.1 26577 1hvsA 99 5.70e+00 1fmb b.50.1.1 26597 1dgiR 302 5.73e+00 i.6.1.1 45953 1nvmA 345 5.96e+00 1fvqA 72 6.18e+00 1aw0 d.58.17.1 60046 1dljA 402 6.38e+00 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1mt7A 99 7.93e+00 b.50.1.1 79448 1jmvA 141 7.94e+00 c.26.2.4 66897 1o7dE 126 8.58e+00 1i6aA 219 1.05e+01 c.94.1.1 61827 1cl1A 395 1.05e+01 1cl2A c.67.1.3 34395 1g0dA 695 1.06e+01 1f13A b.1.18.9 60166 b.1.5.1 60167 b.1.5.1 60168 d.3.1.4 60169 1a8s 273 1.08e+01 1brt c.69.1.12 34710 1dcfA 136 1.11e+01 1dcfA c.23.1.2 31124 1ql0A 241 1.11e+01 1qaeA d.4.1.2 37139 1dliA 402 1.13e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1g8tA 245 1.14e+01 1qaeA d.4.1.2 37137 1necA 216 1.15e+01 1vfrA d.90.1.1 40249 1kqbA 217 1.15e+01 d.90.1.1 68798 1j0aA 325 1.15e+01 1qgnA 445 1.36e+01 1ibjA c.67.1.3 34403 1ujpA 271 1.50e+01 1g16A 170 1.57e+01 1ctqA c.37.1.8 32022 1cs1A 386 1.70e+01 1ibjA c.67.1.3 34399 1jk7A 323 1.76e+01 1auiA d.159.1.3 63144 1eudB 396 1.77e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1gzdA 557 1.81e+01 c.80.1.2 70804 1lnsA 763 1.85e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 2a0b 125 1.87e+01 2a0b a.24.10.1 16630 1i2mB 402 1.91e+01 1a12A b.69.5.1 61569 1a12A 413 1.94e+01 1a12A b.69.5.1 27663 1b1yA 500 1.94e+01 1byb c.1.8.1 28796 1icrA 217 2.05e+01 1vfrA d.90.1.1 62274 1yfpA 224 2.29e+01 1ema d.22.1.1 38362 1f0bA 235 2.31e+01 1ema d.22.1.1 38347 1h4vB 421 2.35e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1cot 129 2.36e+01 1ycc a.3.1.1 15899 2yfpA 235 2.40e+01 1ema d.22.1.1 38364 1h6rA 235 2.44e+01 d.22.1.1 65683 1a04A 215 2.44e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1bykA 255 2.48e+01 1bykA c.93.1.1 35706 1gbnA 402 2.48e+01 2dkb c.67.1.4 34455 2oatA 439 2.48e+01 2dkb c.67.1.4 34452 1hefE 99 2.50e+01 1fmb b.50.1.1 26637 1mc3A 296 2.56e+01 c.68.1.6 78943 1i36A 264 2.60e+01 a.100.1.8 71108 c.2.1.6 71109 1mywA 238 2.62e+01 d.22.1.1 79678 1iwpA 555 2.62e+01 c.1.19.3 76884 1n8tA 557 2.67e+01 1kojA 557 2.70e+01 c.80.1.2 72821 1hm5A 558 2.70e+01 c.80.1.2 76717 1ddbA 195 2.72e+01 1ddbA f.1.4.1 43399 1ag9A 175 2.90e+01 1rcf c.23.5.1 31178 1kq3A 376 3.04e+01 e.22.1.2 68790 1gt6A 269 3.04e+01 c.69.1.17 76342 1jiqA 558 3.05e+01 c.80.1.2 71689 1jlhA 558 3.05e+01 c.80.1.2 77131 1aop 497 3.05e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1iatA 557 3.05e+01 1dqrA c.80.1.2 62123 1korA 400 3.11e+01 c.26.2.1 72824 d.210.1.1 72825 1o0lA 188 3.28e+01 1mjfA 281 3.38e+01 c.66.1.17 79198 1tib 269 3.42e+01 3tgl c.69.1.17 34738 1lg7A 182 3.47e+01 d.213.1.1 73888 1l1qA 186 3.51e+01 c.61.1.1 77653 1mra 359 3.58e+01 2mnr c.1.11.2 29250 d.54.1.1 38894 1kp5A 245 3.59e+01 d.22.1.1 72842 1dmuA 299 3.61e+01 1dmuA c.52.1.4 33294 1mslA 109 3.62e+01 1mslA f.16.1.1 43660 1i52A 236 3.65e+01 1i52A c.68.1.13 61767 1m1fA 110 3.75e+01 b.34.6.2 78401 1proA 99 3.81e+01 1fmb b.50.1.1 26509 1h3mA 235 3.84e+01 1mkaA 171 3.85e+01 1mkaA d.38.1.2 38543 1ktnA 250 4.00e+01 c.1.10.1 72988