# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 2fhqA 141 2.08e-18 1dnlA 199 1.93e-15 1ci0A b.45.1.1 25753 1g79A 218 2.56e-15 1ci0A b.45.1.1 25752 1nrgA 261 3.58e-11 b.45.1.1 80694 1rfeA 162 3.09e-10 2fg9A 178 8.30e-10 1t9mA 214 9.73e-09 1ty9A 222 9.87e-08 2asfA 137 1.05e-06 1ci0A 228 2.02e-06 1ci0A b.45.1.1 25750 1vl7A 157 7.79e-05 b.45.1.1 108732 1w9aA 147 8.11e-05 2aq6A 147 9.06e-05 1xxoA 147 1.09e-04 1flmA 122 2.30e-04 1axj b.45.1.1 25747 1axj 122 2.48e-04 1axj b.45.1.1 25749 2furA 209 1.29e-03 1ejeA 192 1.39e-03 1ejeA b.45.1.2 25757 1w3oA 216 7.49e-03 2bgiA 272 1.87e-01 2fauA 341 7.36e-01 1xhnA 184 7.68e-01 1j58A 385 8.23e-01 b.82.1.2 71531 1vmeA 410 8.32e-01 c.23.5.1,d.157.1.3 108893,108894 2etvA 346 2.18e+00 2d93A 134 2.71e+00 2fcjA 119 2.83e+00 1ye8A 178 3.68e+00 2bw3A 534 4.40e+00 1rf8B 100 7.67e+00 a.210.1.1 97371 2arzA 247 8.26e+00 2f62A 161 8.83e+00 2f2tA 161 8.92e+00 2dcnA 311 9.00e+00 1zzkA 82 9.54e+00 1jdpA 441 9.65e+00 c.93.1.1 62906 1ad3A 452 1.01e+01 1ad3A c.82.1.1 35335 2a0kA 161 1.02e+01 2fivA 116 1.04e+01 1fmb b.50.1.1 26766 1nftA 329 1.04e+01 1nnt c.94.1.2 35881 1fivA 113 1.14e+01 1fmb b.50.1.1 26764 1wj9A 211 1.16e+01 2bk9A 153 1.19e+01 1oo0A 147 1.20e+01 d.232.1.1 87182 1rq2A 382 1.22e+01 c.32.1.1,d.79.2.1 105048,105049 1lvoA 302 1.22e+01 b.47.1.4 74284 3fivA 116 1.27e+01 1fmb b.50.1.1 26768 1p9uA 302 1.29e+01 b.47.1.4 88001 1o5uA 101 1.30e+01 b.82.1.8 92518 1syxB 86 1.31e+01 1efuA 385 1.32e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 5reqA 727 1.33e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 1xfkA 336 1.34e+01 4fiv 113 1.41e+01 1fmb b.50.1.1 26762 2cblA 305 1.44e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1auz 116 1.45e+01 1auz c.13.2.1 30883 2ampA 304 1.49e+01 1nvpB 57 1.50e+01 a.32.1.1 92211 1xv5A 401 1.56e+01 7reqA 727 1.58e+01 1reqA c.1.19.1,c.23.6.1 29616,31243 1scjB 71 1.64e+01 1scjB d.58.3.2 39069 2b4yA 271 1.77e+01 1vc1A 110 1.79e+01 c.13.2.1 108493 2ay1A 394 1.79e+01 1ajsA c.67.1.1 34357 1j5kA 89 1.86e+01 d.51.1.1 71565 1tfaA 329 1.89e+01 1nnt c.94.1.2 35880 1nnt 328 1.95e+01 1nnt c.94.1.2 35884 1z4rA 168 1.97e+01 1yvhA 329 2.00e+01 1oxxK 353 2.05e+01 b.40.6.3,c.37.1.12 93715,93716 1pvtA 238 2.06e+01 c.74.1.1 95189 1b47A 304 2.07e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17381,17775,40529 1ofuA 320 2.11e+01 c.32.1.1,d.79.2.1 86972,86973 1reqA 727 2.19e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1z3iX 644 2.20e+01 2b0jA 358 2.28e+01 1ujqA 305 2.32e+01 c.1.12.7 99463 1iciA 256 2.41e+01 1iciA c.31.1.5 62266 2a4vA 159 2.44e+01 1gyfA 62 2.45e+01 1gyfA d.76.1.1 39749 1v8qA 85 2.46e+01 b.84.4.1 108428 1ehaA 558 2.49e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21859,27786,28773 2aebA 322 2.55e+01 2f46A 156 2.55e+01 1r2rA 248 2.58e+01 c.1.1.1 96875 1t1jA 125 2.80e+01 c.137.1.1 106249 1efcA 393 2.80e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1ecl 597 2.85e+01 1ecl e.10.1.1 43238 1sxgA 280 2.89e+01 1i24A 404 2.90e+01 c.2.1.2 83663 1eh9A 558 2.99e+01 1ehaA b.1.18.2,b.71.1.1,c.1.8.1 21858,27785,28772 1i9yA 347 2.99e+01 1i9yA d.151.1.2 62101 1whe 86 3.04e+01 1edmB g.3.11.1,g.32.1.1 44242,44974 1qgwC 177 3.09e+01 1qgwC a.1.1.3 15673 1xg0C 177 3.09e+01 1bdg 451 3.09e+01 1qhaA c.55.1.3,c.55.1.3 33461,33462 1vimA 200 3.13e+01 c.80.1.3 100758 1zq4A 693 3.22e+01 1eu3A 210 3.22e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1b5l 172 3.24e+01 1b5l a.26.1.3 16900 1mw9X 592 3.28e+01 e.10.1.1 91480 1m2kA 249 3.32e+01 c.31.1.5 84754 1wf3A 301 3.36e+01 1i9zA 347 3.42e+01 1i9yA d.151.1.2 62102 1y3tA 337 3.51e+01 1emwA 88 3.59e+01 1emwA d.27.1.1 38448 2a6sA 84 3.73e+01 1paqA 189 3.75e+01 a.118.1.14 94413 1iejA 332 3.80e+01 1nnt c.94.1.2 62328 1p3wA 404 3.86e+01 c.67.1.3 87752 1q3kA 259 3.89e+01 c.125.1.1 95693 1qrrA 394 3.92e+01 1qrrA c.2.1.2 29824 1oxsC 353 3.98e+01 b.40.6.3,c.37.1.12 87519,87520 1spbP 78 4.07e+01 1scjB d.58.3.2 39068 1csbB 205 4.18e+01 1theB 1tq4A 413 4.21e+01 c.37.1.8 107201 1dn1B 267 4.23e+01 1dn1B a.47.2.1 17771 1njhA 119 4.59e+01 b.128.1.1 85787 1xn9A 101 4.65e+01 1gph1 465 4.74e+01 1ecfB 1hrhA 136 4.94e+01 1rthA c.55.3.1 33577 2f4iA 197 5.15e+01 1m7bA 184 5.20e+01 c.37.1.8 74572 1tidB 119 5.22e+01 c.13.2.1 107000 1om0A 274 5.28e+01 c.1.8.5 87058 4pfk 319 5.37e+01 3pfk c.89.1.1 35582 1uarA 285 5.41e+01 c.46.1.2,c.46.1.2 107762,107763 1txgA 335 5.47e+01 1fsz 372 5.48e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 3pfk 319 5.55e+01 3pfk c.89.1.1 35581 1vmaA 306 5.56e+01 a.24.13.1,c.37.1.10 108887,108888 1dr8B 344 5.60e+01 1cnzA c.77.1.1 35052 1e8aA 91 5.92e+01 1b4cA a.39.1.2 17188 1ap6A 198 5.97e+01 1avmA a.2.11.1,d.44.1.1 15746,38705 2ex0A 399 6.03e+01 1xaa 345 6.09e+01 1cnzA c.77.1.1 35033 1u2zA 433 6.20e+01 c.66.1.31 107626 1in0A 163 6.22e+01 d.58.49.1,d.58.49.1 83694,83695 1at1A 310 6.23e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 6pfkA 319 6.24e+01 3pfk c.89.1.1 35583 1i3zA 103 6.25e+01 d.93.1.1 83667 1souA 194 6.33e+01 c.124.1.6 105858 1zymA 258 6.38e+01 1zymA a.60.10.1,c.8.1.2 18110,30705 1fjgP 88 6.39e+01 1emwA d.27.1.1 38444 1c20A 128 6.41e+01 1c20A a.4.3.1 16079 1u2kA 309 6.43e+01 1iu8A 206 6.44e+01 c.56.4.1 71436 1a4uA 254 6.44e+01 1b16A c.2.1.2 29878 1djxB 624 6.50e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1rzrA 332 6.62e+01 1ipd 345 6.66e+01 1cnzA c.77.1.1 35038 2fgtA 417 6.72e+01 1idm 343 6.75e+01 1cnzA c.77.1.1 35035 1uirA 314 6.75e+01 c.66.1.17 99429 1w6gA 646 6.79e+01 1vk9A 151 6.84e+01 c.139.1.1 108640 1nmeA 146 6.88e+01 c.17.1.1 85874 1pru 56 6.96e+01 1pru a.35.1.5 17104 1or7C 90 7.03e+01 a.180.1.1 87336 8atcA 310 7.11e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1ip9A 85 7.15e+01 1ip9A d.15.2.2 62638 1ew3A 159 7.18e+01 1mup b.60.1.1 27114 1qatB 622 7.20e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17355,23172,29600 1ylqA 96 7.23e+01 1ta3A 274 7.37e+01 c.1.8.5 106731 1e6uA 321 7.41e+01 1bsvA c.2.1.2 29805 2fo3A 125 7.42e+01 1siiA 646 7.57e+01 b.30.2.1,d.17.2.1,d.17.2.1 105578,105579,105580 1eza 259 7.65e+01 1zymA a.60.10.1,c.8.1.2 18113,30708 1abmA 198 7.67e+01 1avmA 2bjcA 62 7.68e+01 2azjA 289 7.76e+01 1gy7A 125 7.80e+01 d.17.4.2 70738 1ne9A 335 7.95e+01 d.108.1.4,d.108.1.4 91839,91840 1m45A 148 7.97e+01 a.39.1.5 78598 1e4cP 215 8.17e+01 2fua c.74.1.1 34969 1ejjA 511 8.25e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 2pfkA 320 8.35e+01 3pfk c.89.1.1 35577 1ywnA 316 8.63e+01 1cpcB 172 8.72e+01 1qgwC a.1.1.3 15644 2bduA 297 8.88e+01 1acmA 310 8.89e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 1a4rA 191 8.95e+01 1ctqA c.37.1.8 32063 1cpcL 172 8.99e+01 1qgwC a.1.1.3 15646