# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1h2kA 349 7.77e-27 b.82.2.6 76572 1fi2A 201 6.54e-03 1fi2A b.82.1.2 59845 1qwrA 319 1.70e-02 2arcA 164 4.47e-02 2arcA b.82.4.1 28148 1lr5A 163 4.73e-02 b.82.1.2 74215 1o4tA 133 7.20e-02 b.82.1.9 86622 1o1yA 239 1.19e-01 c.23.16.1 86554 1nrfA 262 1.27e-01 1dgwA 178 1.32e-01 1dgwA b.82.1.2 28090 1a8s 273 1.55e-01 1brt c.69.1.12 34710 1e5rA 290 2.07e-01 1e5rA b.82.2.4 59276 1plzA 189 2.41e-01 b.82.1.7 88160 1qxrA 189 2.84e-01 1qhoA 686 3.33e-01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1d3cA 686 4.74e-01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1j58A 385 5.65e-01 b.82.1.2 71531 1knwA 425 5.74e-01 1od5A 492 7.47e-01 b.82.1.2 86832 b.82.1.2 86833 1htqA 477 7.81e-01 d.15.9.1 71035 d.128.1.1 71036 1az9 457 1.07e+00 1az9 c.55.2.1 33547 d.127.1.1 41164 1nxmA 197 1.21e+00 b.82.1.1 86385 1pamA 686 1.29e+00 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 2phlA 397 1.33e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1ojxA 263 1.36e+00 1g291 372 1.39e+00 1g291 1avaA 403 1.42e+00 1jdc b.71.1.1 27797 c.1.8.1 28784 1d2eA 397 1.60e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1e7uA 961 2.08e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ptmA 329 2.43e+00 1j8fA 323 2.47e+00 1j8fA c.31.1.5 62738 1ihkA 174 2.62e+00 1bfg b.42.1.1 62384 1uok 558 3.10e+00 1uok b.71.1.1 27801 c.1.8.1 28788 1pjcA 361 3.16e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1mrzA 293 3.21e+00 1khbA 625 3.78e+00 c.91.1.1 68606 c.109.1.1 68607 1e8yA 966 4.11e+00 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1ht6A 405 4.25e+00 b.71.1.1 83629 c.1.8.1 83630 1o2dA 371 4.48e+00 e.22.1.2 86591 1fiy 883 4.74e+00 1fiy c.1.12.3 29307 1amy 403 5.82e+00 1jdc b.71.1.1 27799 c.1.8.1 28786 1mkeA 152 6.12e+00 b.55.1.4 79231 1gdeA 389 6.15e+00 c.67.1.1 60456 1cznA 169 6.48e+00 1rcf c.23.5.1 31181 1hl9A 449 6.57e+00 1uwvA 433 7.05e+00 1ab4 477 7.41e+00 1ab4 e.11.1.1 43251 1yacA 208 8.08e+00 1yacA c.33.1.2 31757 1bmv2 374 8.31e+00 1bmv2 1n6aA 259 9.19e+00 b.76.2.1 80121 b.85.7.1 80122 1vpt 348 9.63e+00 3mag c.66.1.25 34207 1ifqA 138 9.64e+00 1ifqA d.110.4.1 62350 1e8gA 560 1.01e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1ayl 541 1.06e+01 1ayl c.91.1.1 64718 c.109.1.1 64719 1oboA 169 1.06e+01 c.23.5.1 86776 1rcf 169 1.08e+01 1rcf c.23.5.1 31170 1mxgA 435 1.09e+01 b.71.1.1 85193 c.1.8.1 85194 1m7bA 184 1.10e+01 c.37.1.8 74572 1k8kD 300 1.19e+01 d.198.2.1 68309 d.198.2.1 68310 1d2fA 390 1.24e+01 1d2fA c.67.1.3 34411 1jqnA 883 1.27e+01 c.1.12.3 77159 1exmA 405 1.27e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1a53 247 1.29e+01 1a53 c.1.2.4 28564 1d3vA 323 1.31e+01 1d3vA c.42.1.1 32559 1rn5A 177 1.31e+01 1fbnA 230 1.32e+01 1fbnA c.66.1.3 34181 2sqcA 631 1.35e+01 2sqcA a.102.4.2 18854 a.102.4.2 18855 1g8sA 230 1.45e+01 1idk 359 1.46e+01 1qcxA b.80.1.2 28025 1kyqA 274 1.52e+01 c.2.1.11 73281 e.37.1.1 73282 1vp9 322 1.57e+01 3mag c.66.1.25 34210 1ju3A 583 1.63e+01 b.18.1.13 67300 c.69.1.21 67301 1eyzA 392 1.65e+01 1ez1A b.84.2.1 28246 c.30.1.1 31653 d.142.1.2 41498 1elqA 390 1.65e+01 1elqA c.67.1.3 34436 1eerB 227 1.73e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1ha3A 405 1.75e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1ptvA 321 1.75e+01 1pty c.45.1.2 32665 1j5sA 463 1.77e+01 c.1.9.8 71580 1jykA 254 1.78e+01 c.68.1.13 67458 1mdbA 539 1.79e+01 e.23.1.1 79008 1m2kA 249 1.80e+01 c.31.1.5 84754 2oatA 439 1.82e+01 2dkb c.67.1.4 34452 1ad2 228 1.83e+01 1ad2 e.24.1.1 43353 1b6rA 355 1.84e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1jixA 351 1.90e+01 1c3jA c.87.1.1 63081 1igs 248 1.92e+01 1a53 c.1.2.4 28565 1m6eX 359 1.96e+01 1ne9A 335 1.96e+01 1p9bA 442 1.97e+01 1ps9A 671 1.97e+01 1v39 322 1.97e+01 3mag c.66.1.25 34206 1su4A 994 2.02e+01 2aaa 484 2.09e+01 7taa b.71.1.1 27777 c.1.8.1 28764 1ohlA 342 2.09e+01 c.1.10.3 87035 1qjcA 158 2.13e+01 1b6tA c.26.1.3 63328 1uyrA 737 2.21e+01 1ly1A 181 2.29e+01 c.37.1.1 74334 1eluA 390 2.33e+01 1elqA c.67.1.3 34434 1e9rA 437 2.37e+01 c.37.1.11 64827 1gewA 356 2.42e+01 1gewA c.67.1.1 60470 1cb8A 678 2.43e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1nofA 383 2.45e+01 1oi6A 205 2.50e+01 1hlgA 371 2.58e+01 1hlgA c.69.1.6 34656 1dar 691 2.62e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1js8A 394 2.66e+01 a.86.1.1 67219 b.112.1.1 67220 1pa1A 310 2.67e+01 1mo9A 523 2.70e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1kjqA 391 2.83e+01 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1o91A 178 2.85e+01 1ofnA 205 2.87e+01 1m22A 503 2.91e+01 c.117.1.1 78464 1rypB 250 2.94e+01 1rypB d.153.1.4 41933 3mag 307 2.99e+01 3mag c.66.1.25 34205 1ngvA 534 3.01e+01 c.111.1.2 85698 1r6uA 437 3.01e+01 12asA 330 3.02e+01 12asA d.104.1.1 40783 1pii 452 3.07e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1gmxA 108 3.20e+01 c.46.1.3 65355 1n1tA 641 3.21e+01 b.29.1.15 79821 b.68.1.1 79822 1v5lA 103 3.28e+01 3thiA 371 3.31e+01 2thiA c.94.1.1 35792 1oatA 439 3.32e+01 2dkb c.67.1.4 34461 1oe4A 247 3.38e+01 c.18.1.3 86895 1h5uA 842 3.38e+01 1a8i c.87.1.4 60655 1ja1A 622 3.40e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1c3jA 351 3.43e+01 1c3jA c.87.1.1 35459 1nnfA 309 3.47e+01 c.94.1.1 85903 1i45A 248 3.53e+01 1amk c.1.1.1 61665 1ejdA 419 3.53e+01 1uae d.68.2.2 39576 1fsu 492 3.56e+01 1auk c.76.1.2 35032 1o17A 345 3.60e+01 a.46.2.1 80765 c.27.1.1 80766 1bia 321 3.64e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1hhsA 664 3.72e+01 1hi0P e.8.1.6 61045 1v7zA 260 3.77e+01 1h7nA 342 3.80e+01 1b4kA c.1.10.3 60726 1qa7A 217 3.92e+01 1havA b.47.1.4 26425 2kinA 238 3.95e+01 1bg2 c.37.1.9 32190 1byqA 228 3.95e+01 1yer d.122.1.1 41100