# 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 1tm0A 350 1.05e-02 d.21.1.3 107147 1bwzA 274 3.21e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 2gkeA 274 4.56e-02 1gqzA 274 7.40e-02 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 2.04e-01 1xubA 298 3.27e-01 1u1wA 298 3.30e-01 1t6kA 278 4.58e-01 1pzgA 331 1.29e+00 c.2.1.5,d.162.1.1 95425,95426 1ym5A 300 2.07e+00 2aifA 135 3.87e+00 1kkoA 413 3.87e+00 c.1.11.2,d.54.1.1 68675,68676 2b3nA 159 3.89e+00 1qx4A 274 4.19e+00 b.43.4.2,c.25.1.1 104624,104625 2gsq 202 4.20e+00 1pd21 a.45.1.1,c.47.1.5 17715,33009 1pgyA 47 4.25e+00 a.5.2.1 94696 1oe4A 247 5.19e+00 c.18.1.3 86895 1d0iA 156 5.21e+00 2dhqA c.23.13.1 31383 2azpA 318 6.12e+00 1nnsA 326 7.56e+00 c.88.1.1 85910 1nnxA 109 7.60e+00 b.40.10.1 92013 1gtzA 156 7.76e+00 c.23.13.1 70539 2cxcA 144 8.63e+00 1guzA 310 9.05e+00 c.2.1.5,d.162.1.1 65586,65587 1ep2B 261 1.05e+01 1ep2B b.43.4.2,c.25.1.3 25666,31556 1hxmD 242 1.08e+01 b.1.1.1,b.1.1.2 61373,61374 1xttA 216 1.13e+01 1je5A 206 1.20e+01 1je5A b.40.4.7 62909 1sdjA 310 1.21e+01 d.21.1.2,d.21.1.2 98807,98808 1qtfA 246 1.23e+01 1agjA b.47.1.1 25830 1ixlA 131 1.26e+01 d.38.1.5 90717 1g55A 343 1.28e+01 1g55A c.66.1.26 34247 1e32A 458 1.32e+01 1e32A b.52.2.3,c.37.1.20,d.31.1.1 59183,59184,59185 2bsxA 253 1.35e+01 1izmA 184 1.45e+01 a.199.1.1 90725 1hg3A 225 1.53e+01 1hg3A c.1.1.1 61025 1ep3B 262 1.53e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1evhA 112 1.54e+01 1evhA b.55.1.4 26997 1q1gA 276 1.63e+01 c.56.2.1 95574 1dnv 437 1.69e+01 1dnv b.121.5.3 23332 2glzA 153 1.69e+01 1qs8A 329 1.84e+01 1smrA b.50.1.2 26887 2avdA 219 1.88e+01 1wtaA 275 1.92e+01 1wudA 89 1.93e+01 1q5zA 177 1.98e+01 a.196.1.1 95954 1esc 306 2.08e+01 1esc c.23.10.1 31334 2gjgA 248 2.26e+01 1s7jA 262 2.26e+01 d.21.1.2 98647 1zwzA 126 2.27e+01 1n25A 368 2.35e+01 c.37.1.20 85264 1rj9A 304 2.36e+01 a.24.13.1,c.37.1.10 97553,97554 1vqoW 154 2.37e+01 2h0bA 184 2.39e+01 2b30A 301 2.41e+01 1miqA 375 2.42e+01 b.50.1.2 79151 1ffkE 119 2.53e+01 1ffkE d.79.3.1 39812 1p3dA 475 2.54e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1sknP 92 2.57e+01 1sknP a.37.1.1 17127 1gqyA 475 2.74e+01 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1s72W 154 2.74e+01 d.59.1.1 105342 1vljA 407 2.76e+01 e.22.1.2 108832 1x54A 434 2.82e+01 2awaA 390 2.83e+01 1hx0A 496 2.89e+01 b.71.1.1,c.1.8.1 61346,61347 1jj2V 154 2.90e+01 1ffkT d.59.1.1 63107 1umkA 275 2.97e+01 1f6fA 199 2.97e+01 1f6fA a.26.1.1 16839 1cmxA 236 2.98e+01 1uch d.3.1.6 37130 1oi6A 205 3.02e+01 b.82.1.1 103940 1othA 321 3.04e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1pfsA 78 3.11e+01 1pfsA b.40.4.7 25391 1ofnA 205 3.11e+01 b.82.1.1 92830 1yp2A 451 3.13e+01 1q4gA 553 3.14e+01 a.93.1.2,g.3.11.1 95789,95790 1rq2A 382 3.18e+01 c.32.1.1,d.79.2.1 105048,105049 1b56 135 3.25e+01 1hmt b.60.1.2 27183 1mdwA 328 3.30e+01 d.3.1.3 84934 1r44A 202 3.31e+01 d.65.1.4 104787 1s12A 94 3.44e+01 1i7pA 274 3.44e+01 b.43.4.2,c.25.1.1 66048,66049 1b4qA 105 3.47e+01 1kte c.47.1.1 32773 1jf9A 408 3.51e+01 1c0nA c.67.1.3 62931 1xjvA 294 3.60e+01 1a3z 155 3.65e+01 1rcy b.6.1.1 23019 1pbuA 162 3.65e+01 d.58.46.1 88030 1uldA 150 3.90e+01 b.29.1.3 99545 3tgl 269 3.91e+01 3tgl c.69.1.17 34733 1xmxA 385 3.97e+01 1s5jA 847 4.13e+01 1rv3A 483 4.14e+01 c.67.1.4 105101 1qgrA 876 4.36e+01 1qgrA a.118.1.1 19119 1dmhA 311 4.39e+01 1dmhA b.3.6.1 22633 1kk1A 410 4.43e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1sziA 247 4.55e+01 a.24.23.1 106159 1e5eA 404 4.60e+01 1ibjA c.67.1.3 59265 1xc3A 302 4.64e+01 1y8aA 332 4.65e+01 1kqqA 139 4.79e+01 a.4.3.1 72885 1wdkC 390 4.95e+01 c.95.1.1,c.95.1.1 109258,109259 1f24A 402 4.98e+01 1rom a.104.1.1 18953 1cqeA 580 5.02e+01 1cqeA a.93.1.2,g.3.11.1 18703,44246 2ab0A 205 5.03e+01 1rqlA 267 5.13e+01 c.108.1.3 97750 1m32A 366 5.16e+01 c.67.1.3 78508 2fueA 262 5.21e+01 2d13A 227 5.25e+01 1ygs 234 5.27e+01 1ygs b.26.1.1 23907 1lqaA 346 5.34e+01 c.1.7.1 84674 1nekA 588 5.38e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2giyA 191 5.40e+01 1kpeA 126 5.45e+01 1kpf d.13.1.1 37508 1dc7A 124 5.45e+01 1dbwA c.23.1.1 31093 2d1yA 256 5.47e+01 1ag4 103 5.49e+01 1ag4 b.11.1.1 23629 2gpiA 91 5.55e+01 1o0pA 104 5.55e+01 d.58.7.1 86535 1fqgA 263 5.56e+01 1btl e.3.1.1 42699 1rxr 83 5.61e+01 2nllB g.39.1.2 45114 1cur 155 5.71e+01 1rcy b.6.1.1 23021 1q8fA 313 5.77e+01 c.70.1.1 96203 1orjA 130 5.87e+01 a.24.19.1 93456 16pk 415 6.01e+01 16pk c.86.1.1 35454 1prxB 224 6.17e+01 1prxA c.47.1.10 33077 1dd6A 228 6.23e+01 1a7tA d.157.1.1 42054 2cc0A 195 6.23e+01 1b7bA 310 6.38e+01 1b7bA c.73.1.1 34963 1w30A 201 6.42e+01 1bfs 106 6.44e+01 1a3qA b.1.18.1 21927 1rom 403 6.48e+01 1rom a.104.1.1 18963 1kpf 126 6.48e+01 1kpf d.13.1.1 37507 1bxyA 60 6.55e+01 1bxyA d.59.1.1 39525 4rhn 115 6.55e+01 1kpf d.13.1.1 37495 1kfuL 699 6.55e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1ja9A 274 6.71e+01 c.2.1.2 62817 1uwkA 557 6.80e+01 e.51.1.1 108065 1ffkV 143 6.89e+01 1ffkV c.9.2.1 30849 2calA 154 6.91e+01 2lhb 149 6.94e+01 2fal a.1.1.2 15597 1o6sB 105 7.13e+01 b.1.6.1 81096 1rdfA 267 7.14e+01 c.108.1.3 104884 1mqvA 125 7.18e+01 a.24.3.2 79415 1hr6B 443 7.18e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1cxzB 86 7.20e+01 1cxzB a.2.6.1 15705 2gfgA 193 7.24e+01 2bnkA 67 7.34e+01 1zvnA 99 7.57e+01 1quuA 250 7.58e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1moq 368 7.64e+01 1moq c.80.1.1 35302 1sltB 134 7.67e+01 1c1lA b.29.1.3 24187 1suh 146 7.73e+01 1edhA b.1.6.1 22206 1ab4 477 7.80e+01 1ab4 e.11.1.1 43251 1gz5A 456 7.83e+01 c.87.1.6 76406 1ermA 263 8.09e+01 1btl e.3.1.1 42690 1kkhA 317 8.21e+01 d.14.1.5,d.58.26.3 72645,72646 1xp8A 366 8.45e+01 1c0nA 406 8.45e+01 1c0nA c.67.1.3 34433 2f62A 161 8.53e+01 1x75A 132 8.54e+01 1wchA 315 8.60e+01 1obpA 159 8.62e+01 1obpA b.60.1.1 27092 1nstA 325 8.62e+01 1nstA c.37.1.5 31951 1cmnA 402 8.62e+01 1rom a.104.1.1 18958 1rcy 151 8.64e+01 1rcy b.6.1.1 23018 1vkkA 154 8.67e+01 d.109.1.2 108669 1z54A 132 8.74e+01 1nf2A 268 8.77e+01 c.108.1.10 91849 1otkA 249 8.86e+01 a.25.1.2 93521 2amyA 246 8.86e+01 1n1bA 549 8.98e+01 a.102.4.1,a.128.1.3 79799,79800 1jfbA 404 8.99e+01 a.104.1.1 66624