# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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-03 d.21.1.3 107147 2gkeA 274 1.07e-02 1gqzA 274 1.24e-02 d.21.1.1,d.21.1.1 83311,83312 1bwzA 274 2.20e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1w61A 414 2.38e-02 1u1wA 298 2.01e-01 2b3nA 159 2.51e-01 1t6kA 278 3.34e-01 1pzgA 331 8.33e-01 c.2.1.5,d.162.1.1 95425,95426 1xubA 298 1.07e+00 2azpA 318 1.29e+00 1ym5A 300 1.98e+00 1oe4A 247 2.05e+00 c.18.1.3 86895 1kkoA 413 3.99e+00 c.1.11.2,d.54.1.1 68675,68676 1hzdA 272 6.37e+00 c.14.1.3 65969 1vjzA 341 7.12e+00 c.1.8.3 100838 1otkA 249 8.34e+00 a.25.1.2 93521 1qx4A 274 8.86e+00 b.43.4.2,c.25.1.1 104624,104625 1ep2B 261 9.34e+00 1ep2B b.43.4.2,c.25.1.3 25666,31556 1vknA 351 9.97e+00 c.2.1.3,d.81.1.1 108676,108677 1caxB 184 1.05e+01 1caxB b.82.1.2 28105 1g55A 343 1.07e+01 1g55A c.66.1.26 34247 1cawB 184 1.08e+01 1caxB b.82.1.2 28113 1ixlA 131 1.11e+01 d.38.1.5 90717 1cauB 184 1.12e+01 1caxB b.82.1.2 28103 1jj2F 119 1.13e+01 1ffkE d.79.3.1 63091 1w7lA 422 1.41e+01 c.67.1.1 109226 1kte 105 1.48e+01 1kte c.47.1.1 32771 1ag4 103 1.55e+01 1ag4 b.11.1.1 23629 2fp4B 395 1.71e+01 1tw9A 206 1.73e+01 a.45.1.1,c.47.1.5 107381,107382 1jffB 445 1.98e+01 c.32.1.1,d.79.2.1 62934,62935 1d0iA 156 2.01e+01 2dhqA c.23.13.1 31383 1q8fA 313 2.02e+01 c.70.1.1 96203 1umkA 275 2.04e+01 1y8aA 332 2.21e+01 1ffkE 119 2.25e+01 1ffkE d.79.3.1 39812 1evhA 112 2.25e+01 1evhA b.55.1.4 26997 1izmA 184 2.43e+01 a.199.1.1 90725 1u5kA 244 2.50e+01 1zxxA 319 2.75e+01 1b4qA 105 2.90e+01 1kte c.47.1.1 32773 1ll1 590 2.92e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18488,18499,21864 1xikA 375 3.06e+01 1xikA a.25.1.2 16784 1hg3A 225 3.07e+01 1hg3A c.1.1.1 61025 1ass 159 3.11e+01 1a6dA c.8.5.2 30818 16pk 415 3.14e+01 16pk c.86.1.1 35454 1lci 550 3.15e+01 1lci e.23.1.1 43349 1souA 194 3.15e+01 c.124.1.6 105858 2g7zA 282 3.16e+01 1ep3B 262 3.19e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1or7A 194 3.23e+01 a.4.13.2,a.177.1.1 87332,87333 1ribA 375 3.26e+01 1xikA a.25.1.2 16788 2bl9A 238 3.28e+01 1asx 159 3.31e+01 1a6dA c.8.5.2 30821 1jhb 106 3.34e+01 1kte c.47.1.1 32772 1jmmA 377 3.35e+01 b.30.6.1 71749 1uz5A 402 3.38e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1hdfA 102 3.52e+01 1ag4 b.11.1.1 23627 1uor 585 3.53e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 3tdt 274 3.58e+01 3tdt b.81.1.2 28053 2tdt 274 3.59e+01 3tdt b.81.1.2 28054 1gvfA 286 3.61e+01 c.1.10.2 70599 1wchA 315 3.71e+01 1s7jA 262 3.72e+01 d.21.1.2 98647 1kgqA 274 3.88e+01 b.81.1.2 72447 2cc0A 195 4.10e+01 1kb0A 677 4.27e+01 a.3.1.6,b.70.1.1 68378,68379 1svmA 377 4.32e+01 1n25A 368 4.36e+01 c.37.1.20 85264 1eucB 396 4.38e+01 2scuB c.23.4.1,d.142.1.4 31149,41570 1m0dA 138 4.43e+01 c.52.1.17 74354 1ofnA 205 4.45e+01 b.82.1.1 92830 1oi6A 205 4.49e+01 b.82.1.1 103940 1cb0A 283 4.51e+01 1cb0A c.56.2.1 33790 3tgl 269 4.53e+01 3tgl c.69.1.17 34733 1ycdA 243 4.69e+01 1k8kE 178 4.88e+01 a.148.1.1 68311 1gmiA 136 4.92e+01 b.7.1.1 65309 1mxrA 375 5.04e+01 a.25.1.2 85197 1ad3A 452 5.07e+01 1ad3A c.82.1.1 35335 1i7pA 274 5.08e+01 b.43.4.2,c.25.1.1 66048,66049 1jqcA 375 5.13e+01 1xikA a.25.1.2 63229 1lox 662 5.14e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1a5cA 368 5.17e+01 1fbaA c.1.10.1 29148 2d1yA 256 5.18e+01 1gtzA 156 5.20e+01 c.23.13.1 70539 1lyvA 306 5.20e+01 c.45.1.2 74348 1s4qA 228 5.32e+01 c.37.1.1 98507 1eudB 396 5.39e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1a8z 153 5.51e+01 1rcy b.6.1.1 23020 2blcA 238 5.67e+01 1up8A 598 5.71e+01 a.111.1.2 99710 1gz5A 456 5.73e+01 c.87.1.6 76406 1ceqA 316 5.78e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1ndh 272 5.83e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2avdA 219 5.86e+01 2gpiA 91 5.87e+01 1biqA 375 5.90e+01 1xikA a.25.1.2 16786 2calA 154 6.10e+01 1vljA 407 6.16e+01 e.22.1.2 108832 1nnxA 109 6.18e+01 b.40.10.1 92013 1av8A 340 6.23e+01 1xikA a.25.1.2 16796 1vi9A 299 6.30e+01 c.72.1.5 100750 1k6dA 220 6.43e+01 c.124.1.2 72082 1jwhA 337 6.53e+01 d.144.1.7 71913 1zu4A 320 6.69e+01 1whxA 111 6.84e+01 1fw1A 216 6.94e+01 a.45.1.1,c.47.1.5 60051,60052 2bduA 297 6.97e+01 1g6nA 210 6.98e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1rreA 200 7.00e+01 d.14.1.10 97791 2a8eA 220 7.01e+01 1hw5A 210 7.09e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1a45 173 7.15e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1a6dA 545 7.25e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1yts 278 7.29e+01 1ytw c.45.1.2 32690 1jflA 228 7.32e+01 c.78.2.1,c.78.2.1 71656,71657 1i6xA 209 7.41e+01 a.4.5.4,b.82.3.2 83673,83674 1rr9A 200 7.89e+01 d.14.1.10 97783 2pgd 482 7.94e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1rcy 151 8.18e+01 1rcy b.6.1.1 23018 1ebdA 455 8.24e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1t3cA 421 8.27e+01 d.92.1.7 106343 1z8fA 228 8.37e+01 1e7aA 585 8.40e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19360,19361,19362 1e30A 155 8.45e+01 1rcy b.6.1.1 23016 1o59A 355 8.49e+01 b.18.1.22,b.18.1.22 92495,92496 1v32A 101 8.50e+01 a.42.1.1 100277 1sz7A 200 8.70e+01 1pzxA 289 8.88e+01 c.119.1.1 95484