# List of top-scoring protein chains for t04-100-30-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 1tm0A 350 5.81e-03 d.21.1.3 107147 1bwzA 274 3.00e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 2gkeA 274 3.72e-02 1gqzA 274 4.95e-02 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 1.68e-01 1xubA 298 2.11e-01 1u1wA 298 2.24e-01 1t6kA 278 2.58e-01 1ym5A 300 4.14e-01 1pzgA 331 1.73e+00 c.2.1.5,d.162.1.1 95425,95426 1oe4A 247 2.24e+00 c.18.1.3 86895 1kkoA 413 2.67e+00 c.1.11.2,d.54.1.1 68675,68676 2gsq 202 3.03e+00 1pd21 a.45.1.1,c.47.1.5 17715,33009 2cxcA 144 3.27e+00 1pgyA 47 3.71e+00 a.5.2.1 94696 1nnxA 109 4.40e+00 b.40.10.1 92013 1d0iA 156 4.58e+00 2dhqA c.23.13.1 31383 2azpA 318 5.57e+00 1gtzA 156 6.64e+00 c.23.13.1 70539 2aifA 135 6.66e+00 2b3nA 159 6.78e+00 2h0bA 184 6.87e+00 1q4gA 553 7.16e+00 a.93.1.2,g.3.11.1 95789,95790 2bsxA 253 7.19e+00 1s7jA 262 7.79e+00 d.21.1.2 98647 1ixlA 131 8.35e+00 d.38.1.5 90717 2bvbA 137 9.55e+00 1snzA 344 9.81e+00 b.30.5.4 98930 1q1gA 276 1.11e+01 c.56.2.1 95574 1g55A 343 1.13e+01 1g55A c.66.1.26 34247 1vljA 407 1.20e+01 e.22.1.2 108832 1o6sB 105 1.22e+01 b.1.6.1 81096 1o0pA 104 1.25e+01 d.58.7.1 86535 1evhA 112 1.25e+01 1evhA b.55.1.4 26997 2avdA 219 1.31e+01 1nnsA 326 1.32e+01 c.88.1.1 85910 1ep3B 262 1.37e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1j5pA 253 1.38e+01 d.81.1.3,c.2.1.3 71577,83092 1wc3A 219 1.47e+01 1sr8A 298 1.49e+01 e.54.1.1 105959 1kpeA 126 1.56e+01 1kpf d.13.1.1 37508 1rj9A 304 1.58e+01 a.24.13.1,c.37.1.10 97553,97554 2gjgA 248 1.61e+01 1qx4A 274 1.63e+01 b.43.4.2,c.25.1.1 104624,104625 1guzA 310 1.64e+01 c.2.1.5,d.162.1.1 65586,65587 1pbuA 162 1.67e+01 d.58.46.1 88030 1q5zA 177 1.78e+01 a.196.1.1 95954 1othA 321 1.89e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1kpf 126 1.90e+01 1kpf d.13.1.1 37507 2glzA 153 1.91e+01 1x54A 434 1.92e+01 1qd1A 325 1.93e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1wudA 89 1.96e+01 1izmA 184 1.99e+01 a.199.1.1 90725 1mdwA 328 1.99e+01 d.3.1.3 84934 1sdjA 310 2.04e+01 d.21.1.2,d.21.1.2 98807,98808 1esc 306 2.15e+01 1esc c.23.10.1 31334 1sknP 92 2.25e+01 1sknP a.37.1.1 17127 1z41A 338 2.37e+01 1dnv 437 2.49e+01 1dnv b.121.5.3 23332 1lqaA 346 2.55e+01 c.1.7.1 84674 1q6uA 245 2.60e+01 d.26.1.1 95998 1s5jA 847 2.67e+01 1je5A 206 2.76e+01 1je5A b.40.4.7 62909 1zwzA 126 2.83e+01 1p3dA 475 2.84e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1n25A 368 2.94e+01 c.37.1.20 85264 2b1xA 470 2.96e+01 2amyA 246 3.04e+01 1zmdA 474 3.14e+01 1f6fA 199 3.17e+01 1f6fA a.26.1.1 16839 2b30A 301 3.22e+01 1kqqA 139 3.40e+01 a.4.3.1 72885 1ofnA 205 3.48e+01 b.82.1.1 92830 1wtaA 275 3.51e+01 2d13A 227 3.60e+01 1n1bA 549 3.60e+01 a.102.4.1,a.128.1.3 79799,79800 1oi6A 205 3.69e+01 b.82.1.1 103940 1qgrA 876 3.72e+01 1qgrA a.118.1.1 19119 1bxyA 60 3.78e+01 1bxyA d.59.1.1 39525 1xmxA 385 3.79e+01 1r44A 202 3.79e+01 d.65.1.4 104787 1xjvA 294 3.88e+01 1ygs 234 3.94e+01 1ygs b.26.1.1 23907 2blcA 238 4.00e+01 2fueA 262 4.04e+01 1f24A 402 4.06e+01 1rom a.104.1.1 18953 1lb2B 84 4.08e+01 a.60.3.1 77871 1vqoW 154 4.08e+01 1dazC 99 4.11e+01 1hvc b.50.1.1 26501 1rv3A 483 4.25e+01 c.67.1.4 105101 2atvA 196 4.31e+01 1u67A 600 4.36e+01 a.93.1.2,g.3.11.1 107697,107698 1mqvA 125 4.40e+01 a.24.3.2 79415 1jj2F 119 4.48e+01 1ffkE d.79.3.1 63091 1kte 105 4.50e+01 1kte c.47.1.1 32771 1s72W 154 4.53e+01 d.59.1.1 105342 1b56 135 4.55e+01 1hmt b.60.1.2 27183 1wchA 315 4.56e+01 1v7oA 165 4.65e+01 d.67.1.2 100480 1kfuL 699 4.69e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1tzfA 259 4.70e+01 c.68.1.13 107476 1jj2V 154 4.80e+01 1ffkT d.59.1.1 63107 1w5nA 337 4.83e+01 1sziA 247 4.84e+01 a.24.23.1 106159 1wvcA 259 4.94e+01 1umkA 275 4.95e+01 1xp8A 366 4.96e+01 1jf9A 408 4.96e+01 1c0nA c.67.1.3 62931 1a2zA 220 5.02e+01 1a2zA c.56.4.1 33794 1nf2A 268 5.07e+01 c.108.1.10 91849 1qipA 183 5.17e+01 1qipA d.32.1.1 38470 2fnaA 357 5.19e+01 1w5qA 337 5.21e+01 1nscA 390 5.26e+01 2qwc b.68.1.1 27591 1rq2A 382 5.28e+01 c.32.1.1,d.79.2.1 105048,105049 1pfsA 78 5.29e+01 1pfsA b.40.4.7 25391 1ycoA 279 5.39e+01 2bl9A 238 5.40e+01 1jfmA 174 5.53e+01 d.19.1.1 66640 2giyA 191 5.56e+01 1vkkA 154 5.67e+01 d.109.1.2 108669 1ermA 263 5.71e+01 1btl e.3.1.1 42690 1pvvA 315 5.72e+01 c.78.1.1,c.78.1.1 95190,95191 1jg8A 347 5.92e+01 1jg8A c.67.1.1 62946 1kskA 234 5.94e+01 d.66.1.5,d.265.1.3 72920,90389 2fvgA 340 5.96e+01 2gpiA 91 6.00e+01 1v1aA 309 6.05e+01 c.72.1.1 100249 1pbyA 489 6.07e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1y8tA 324 6.11e+01 1jogA 146 6.18e+01 a.24.16.2 77142 1rsy 152 6.21e+01 1rsy b.7.1.2 23192 1gzgA 337 6.26e+01 c.1.10.3 70805 1wdkC 390 6.27e+01 c.95.1.1,c.95.1.1 109258,109259 1wy1A 172 6.35e+01 1mpxA 615 6.47e+01 b.18.1.13,c.69.1.21 85041,85042 1eudA 311 6.47e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1m40A 263 6.47e+01 e.3.1.1 74437 2lhb 149 6.49e+01 2fal a.1.1.2 15597 2a8eA 220 6.50e+01 16pk 415 6.50e+01 16pk c.86.1.1 35454 2ab0A 205 6.51e+01 1hg8A 349 6.65e+01 b.80.1.3 65830 1s2xA 206 6.87e+01 a.47.3.1 105229 1orjA 130 6.90e+01 a.24.19.1 93456 2madH 373 7.07e+01 2bbkH b.69.2.1 27639 1quuA 250 7.17e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1y8aA 332 7.18e+01 1rqlA 267 7.20e+01 c.108.1.3 97750 2bnkA 67 7.30e+01 1obpA 159 7.35e+01 1obpA b.60.1.1 27092 1yuwA 554 7.37e+01 1souA 194 7.50e+01 c.124.1.6 105858 1gdeA 389 7.53e+01 c.67.1.1 60456 1xttA 216 7.53e+01 1wybA 392 7.58e+01 1ja9A 274 7.62e+01 c.2.1.2 62817 1z54A 132 7.63e+01 1wy0A 342 7.66e+01 1jfbA 404 7.70e+01 a.104.1.1 66624 1nekA 588 7.70e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1dp4A 435 7.87e+01 1dp4A c.93.1.1 35710 1uebA 184 7.97e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1xizA 159 7.98e+01 1m6sA 347 8.07e+01 c.67.1.1 78701 1m32A 366 8.09e+01 c.67.1.3 78508 1x75A 132 8.26e+01 1itwA 741 8.37e+01 c.77.1.2 76793 1b4kA 337 8.44e+01 1b4kA c.1.10.3 29184 1kkhA 317 8.45e+01 d.14.1.5,d.58.26.3 72645,72646 1yp2A 451 8.51e+01 1ogiA 303 8.56e+01 b.43.4.2,c.25.1.1 92914,92915 1jhjA 171 8.65e+01 b.18.1.9 66714 1jopA 155 8.71e+01 b.82.2.7 84187 2b0tA 738 8.77e+01 1v3vA 333 8.81e+01 b.35.1.2,c.2.1.1 108345,108346 2aneA 125 8.85e+01 2gpyA 233 8.95e+01 2awaA 390 8.96e+01