# 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 1.40e-02 d.21.1.3 107147 1bwzA 274 4.04e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 2gkeA 274 4.73e-02 1gqzA 274 6.15e-02 d.21.1.1,d.21.1.1 83311,83312 1t6kA 278 1.55e-01 1w61A 414 2.25e-01 1u1wA 298 2.32e-01 1xubA 298 2.56e-01 1ym5A 300 6.22e-01 1o0pA 104 6.97e-01 d.58.7.1 86535 1pzgA 331 1.42e+00 c.2.1.5,d.162.1.1 95425,95426 2b3nA 159 1.91e+00 1souA 194 2.94e+00 c.124.1.6 105858 1d0iA 156 2.97e+00 2dhqA c.23.13.1 31383 1oe4A 247 3.06e+00 c.18.1.3 86895 1gtzA 156 3.20e+00 c.23.13.1 70539 2cxcA 144 3.47e+00 1kkoA 413 4.13e+00 c.1.11.2,d.54.1.1 68675,68676 1ixlA 131 4.63e+00 d.38.1.5 90717 1vr3A 191 4.98e+00 1sr8A 298 5.48e+00 e.54.1.1 105959 1jj2F 119 5.94e+00 1ffkE d.79.3.1 63091 1q6uA 245 6.49e+00 d.26.1.1 95998 1nnxA 109 6.51e+00 b.40.10.1 92013 1othA 321 7.06e+00 1othA c.78.1.1,c.78.1.1 35260,35261 1xjvA 294 8.52e+00 1qd1A 325 8.56e+00 1qd1A d.58.34.1,d.58.34.1 39493,39494 1ep3B 262 8.68e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 2azpA 318 9.00e+00 1s7jA 262 9.08e+00 d.21.1.2 98647 1qx4A 274 9.58e+00 b.43.4.2,c.25.1.1 104624,104625 1eudA 311 9.67e+00 2scuA c.2.1.8,c.23.4.1 30312,31140 1lqaA 346 9.92e+00 c.1.7.1 84674 1wybA 392 1.02e+01 1evhA 112 1.13e+01 1evhA b.55.1.4 26997 1s5jA 847 1.18e+01 2av4A 162 1.39e+01 2gsq 202 1.45e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 2b1xA 470 1.52e+01 1a2zA 220 1.63e+01 1a2zA c.56.4.1 33794 1sdjA 310 1.64e+01 d.21.1.2,d.21.1.2 98807,98808 1wycA 392 1.69e+01 1wchA 315 1.75e+01 1je5A 206 1.84e+01 1je5A b.40.4.7 62909 1pgyA 47 1.87e+01 a.5.2.1 94696 2avdA 219 1.91e+01 1nnsA 326 1.94e+01 c.88.1.1 85910 1b00A 127 1.94e+01 3chy c.23.1.1 31122 2blcA 238 2.01e+01 1zmdA 474 2.08e+01 1j5pA 253 2.15e+01 d.81.1.3,c.2.1.3 71577,83092 1ewqA 765 2.16e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 2bl9A 238 2.19e+01 1q6hA 224 2.23e+01 d.26.1.1 95975 1wtaA 275 2.29e+01 1wvcA 259 2.32e+01 1vljA 407 2.41e+01 e.22.1.2 108832 1f6fA 199 2.44e+01 1f6fA a.26.1.1 16839 1o6sB 105 2.47e+01 b.1.6.1 81096 1mkiA 330 2.62e+01 e.3.1.2 84994 1xp8A 366 2.72e+01 2bvbA 137 2.80e+01 1dnv 437 2.87e+01 1dnv b.121.5.3 23332 1n25A 368 2.94e+01 c.37.1.20 85264 1q4gA 553 2.99e+01 a.93.1.2,g.3.11.1 95789,95790 1jogA 146 3.03e+01 a.24.16.2 77142 1jg8A 347 3.03e+01 1jg8A c.67.1.1 62946 1snzA 344 3.08e+01 b.30.5.4 98930 1g55A 343 3.17e+01 1g55A c.66.1.26 34247 1mpxA 615 3.23e+01 b.18.1.13,c.69.1.21 85041,85042 2glzA 153 3.31e+01 1f2rI 100 3.40e+01 1c9fA d.15.2.1 37641 1jopA 155 3.45e+01 b.82.2.7 84187 1v3vA 333 3.49e+01 b.35.1.2,c.2.1.1 108345,108346 1zu4A 320 3.50e+01 2madH 373 3.51e+01 2bbkH b.69.2.1 27639 2gjgA 248 3.56e+01 1l4iA 206 3.61e+01 b.1.11.1,b.7.2.1 73564,73565 1qgvA 142 3.66e+01 1qgvA c.47.1.8 33056 1nkpA 88 3.67e+01 a.38.1.1 80573 1wdkC 390 3.77e+01 c.95.1.1,c.95.1.1 109258,109259 1q5zA 177 3.87e+01 a.196.1.1 95954 1m6sA 347 3.89e+01 c.67.1.1 78701 1pvvA 315 3.94e+01 c.78.1.1,c.78.1.1 95190,95191 2bsxA 253 3.98e+01 1kpf 126 4.07e+01 1kpf d.13.1.1 37507 2b0tA 738 4.13e+01 1nf2A 268 4.24e+01 c.108.1.10 91849 1quuA 250 4.30e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1dosA 358 4.34e+01 1dosA c.1.10.2 29175 1kpeA 126 4.43e+01 1kpf d.13.1.1 37508 1vm8A 534 4.43e+01 1dp4A 435 4.54e+01 1dp4A c.93.1.1 35710 1zesA 125 4.55e+01 1rzuA 485 4.58e+01 c.87.1.8 105140 1ycoA 279 4.62e+01 1jhjA 171 4.63e+01 b.18.1.9 66714 1v7oA 165 4.63e+01 d.67.1.2 100480 1xipA 388 4.63e+01 1q1gA 276 4.75e+01 c.56.2.1 95574 1rqlA 267 4.76e+01 c.108.1.3 97750 1urvA 190 4.77e+01 1ut0A 190 4.77e+01 a.1.1.2 108012 1rj9A 304 4.80e+01 a.24.13.1,c.37.1.10 97553,97554 1xttA 216 4.90e+01 1s4cA 155 4.92e+01 1uwkA 557 4.92e+01 e.51.1.1 108065 1guzA 310 5.02e+01 c.2.1.5,d.162.1.1 65586,65587 1tzfA 259 5.08e+01 c.68.1.13 107476 1umkA 275 5.10e+01 2mnr 357 5.12e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1s1qA 145 5.16e+01 d.20.1.2 98351 1jqnA 883 5.16e+01 c.1.12.3 77159 1ac5 483 5.16e+01 1ac5 c.69.1.5 34653 16pk 415 5.31e+01 16pk c.86.1.1 35454 1xt8A 292 5.48e+01 1kskA 234 5.55e+01 d.66.1.5,d.265.1.3 72920,90389 1wudA 89 5.62e+01 1mdl 359 5.63e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1rdfA 267 5.74e+01 c.108.1.3 104884 1c4rA 182 5.81e+01 1c4rA b.29.1.4 24229 2d13A 227 6.16e+01 1hzdA 272 6.23e+01 c.14.1.3 65969 2dfkA 402 6.27e+01 1rv3A 483 6.27e+01 c.67.1.4 105101 1izmA 184 6.43e+01 a.199.1.1 90725 1oi7A 288 6.59e+01 c.2.1.8,c.23.4.1 87049,87050 2amyA 246 6.66e+01 1s12A 94 6.74e+01 1i7pA 274 6.75e+01 b.43.4.2,c.25.1.1 66048,66049 1pjxA 314 6.80e+01 b.68.6.1 104167 1h2rL 534 6.83e+01 1h2rL e.18.1.1 43298 1qgrA 876 6.89e+01 1qgrA a.118.1.1 19119 1vdkA 466 6.93e+01 a.127.1.1 100561 1od3A 168 7.22e+01 b.18.1.10 86825 1uurA 473 7.31e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1ja9A 274 7.32e+01 c.2.1.2 62817 1bhe 376 7.46e+01 1bhe b.80.1.3 28030 1y0pA 571 7.49e+01 1e1aA 314 7.50e+01 1e1aA b.68.6.1 59155 1wy0A 342 7.62e+01 1itwA 741 7.62e+01 c.77.1.2 76793 1r44A 202 7.67e+01 d.65.1.4 104787 2aneA 125 7.68e+01 1ofnA 205 7.82e+01 b.82.1.1 92830 1f24A 402 7.85e+01 1rom a.104.1.1 18953 1p3dA 475 7.87e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1m32A 366 7.92e+01 c.67.1.3 78508 1y8aA 332 8.07e+01 2fueA 262 8.10e+01 1mdwA 328 8.15e+01 d.3.1.3 84934 1rsy 152 8.15e+01 1rsy b.7.1.2 23192 1oohA 126 8.27e+01 a.39.2.1 93383 1a8i 842 8.28e+01 1a8i c.87.1.4 35490 1rq2A 382 8.34e+01 c.32.1.1,d.79.2.1 105048,105049 1pbyA 489 8.37e+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 1ef8A 261 8.43e+01 1ef8A c.14.1.3 30921 1jc9A 269 8.43e+01 d.171.1.1 66490 1swvA 267 8.58e+01 1wc3A 219 8.59e+01 1xizA 159 8.59e+01 1oi6A 205 8.81e+01 b.82.1.1 103940 1pzsA 208 8.92e+01 b.1.8.1 104397