# 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 2.29e-03 d.21.1.3 107147 2gkeA 274 2.12e-02 1gqzA 274 2.82e-02 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 4.19e-02 1bwzA 274 5.02e-02 1bwzA d.21.1.1,d.21.1.1 38337,38338 1u1wA 298 2.08e-01 2b3nA 159 2.80e-01 1t6kA 278 3.51e-01 1pzgA 331 6.98e-01 c.2.1.5,d.162.1.1 95425,95426 1xubA 298 1.03e+00 2azpA 318 1.24e+00 1ym5A 300 2.36e+00 1oe4A 247 2.77e+00 c.18.1.3 86895 1ep2B 261 5.34e+00 1ep2B b.43.4.2,c.25.1.3 25666,31556 1vjzA 341 6.08e+00 c.1.8.3 100838 1hzdA 272 7.69e+00 c.14.1.3 65969 1qx4A 274 8.21e+00 b.43.4.2,c.25.1.1 104624,104625 1jj2F 119 8.38e+00 1ffkE d.79.3.1 63091 1otkA 249 8.42e+00 a.25.1.2 93521 1ep3B 262 9.55e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 1kkoA 413 1.17e+01 c.1.11.2,d.54.1.1 68675,68676 1vknA 351 1.23e+01 c.2.1.3,d.81.1.1 108676,108677 1w7lA 422 1.30e+01 c.67.1.1 109226 1caxB 184 1.30e+01 1caxB b.82.1.2 28105 1ixlA 131 1.33e+01 d.38.1.5 90717 1cawB 184 1.35e+01 1caxB b.82.1.2 28113 1b7bA 310 1.37e+01 1b7bA c.73.1.1 34963 1sz7A 200 1.38e+01 1g55A 343 1.39e+01 1g55A c.66.1.26 34247 1cauB 184 1.46e+01 1caxB b.82.1.2 28103 1ffkE 119 1.63e+01 1ffkE d.79.3.1 39812 1d0iA 156 1.66e+01 2dhqA c.23.13.1 31383 1jffB 445 1.75e+01 c.32.1.1,d.79.2.1 62934,62935 1umkA 275 1.83e+01 1a8z 153 1.97e+01 1rcy b.6.1.1 23020 1evhA 112 2.15e+01 1evhA b.55.1.4 26997 1u5kA 244 2.17e+01 2fp4B 395 2.18e+01 2cc0A 195 2.37e+01 1zxxA 319 2.54e+01 1nnxA 109 2.76e+01 b.40.10.1 92013 1e30A 155 2.86e+01 1rcy b.6.1.1 23016 1q8fA 313 2.88e+01 c.70.1.1 96203 2g7zA 282 2.92e+01 1lyvA 306 3.03e+01 c.45.1.2 74348 16pk 415 3.03e+01 16pk c.86.1.1 35454 2calA 154 3.04e+01 1xikA 375 3.14e+01 1xikA a.25.1.2 16784 2tdt 274 3.14e+01 3tdt b.81.1.2 28054 1jmmA 377 3.15e+01 b.30.6.1 71749 3tdt 274 3.15e+01 3tdt b.81.1.2 28053 1lci 550 3.25e+01 1lci e.23.1.1 43349 1ribA 375 3.29e+01 1xikA a.25.1.2 16788 1rcy 151 3.39e+01 1rcy b.6.1.1 23018 1kgqA 274 3.46e+01 b.81.1.2 72447 1k8kE 178 3.56e+01 a.148.1.1 68311 1uz5A 402 3.61e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1yts 278 3.62e+01 1ytw c.45.1.2 32690 2bl9A 238 3.63e+01 1ycdA 243 3.65e+01 1s7jA 262 3.68e+01 d.21.1.2 98647 1n25A 368 3.71e+01 c.37.1.20 85264 1ass 159 3.72e+01 1a6dA c.8.5.2 30818 1gvfA 286 3.75e+01 c.1.10.2 70599 1svmA 377 3.75e+01 1kb0A 677 3.82e+01 a.3.1.6,b.70.1.1 68378,68379 1wchA 315 3.83e+01 1ll1 590 3.84e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18488,18499,21864 1izmA 184 3.94e+01 a.199.1.1 90725 1ofnA 205 3.96e+01 b.82.1.1 92830 1qc9A 276 3.98e+01 1ckqA c.52.1.1 33235 1oi6A 205 4.09e+01 b.82.1.1 103940 1asx 159 4.13e+01 1a6dA c.8.5.2 30821 1gz5A 456 4.19e+01 c.87.1.6 76406 1ad3A 452 4.37e+01 1ad3A c.82.1.1 35335 1up8A 598 4.44e+01 a.111.1.2 99710 1gtzA 156 4.45e+01 c.23.13.1 70539 1cb0A 283 4.48e+01 1cb0A c.56.2.1 33790 1i7pA 274 4.63e+01 b.43.4.2,c.25.1.1 66048,66049 2d1yA 256 4.72e+01 1souA 194 4.77e+01 c.124.1.6 105858 1a3z 155 4.86e+01 1rcy b.6.1.1 23019 2pgd 482 4.91e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 1jqcA 375 4.94e+01 1xikA a.25.1.2 63229 1vljA 407 4.95e+01 e.22.1.2 108832 1mxrA 375 4.97e+01 a.25.1.2 85197 1eucB 396 5.00e+01 2scuB c.23.4.1,d.142.1.4 31149,41570 2avdA 219 5.06e+01 1a5cA 368 5.28e+01 1fbaA c.1.10.1 29148 1ndh 272 5.58e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1rr9A 200 5.78e+01 d.14.1.10 97783 2d13A 227 5.83e+01 1zu4A 320 5.84e+01 1biqA 375 5.85e+01 1xikA a.25.1.2 16786 1cur 155 5.91e+01 1rcy b.6.1.1 23021 1rreA 200 5.97e+01 d.14.1.10 97791 1hw5A 210 5.98e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1av8A 340 6.11e+01 1xikA a.25.1.2 16796 1g6nA 210 6.16e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1eudB 396 6.17e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1w9hA 427 6.17e+01 1fw1A 216 6.19e+01 a.45.1.1,c.47.1.5 60051,60052 1h54A 754 6.27e+01 a.102.1.4,b.30.5.3 60634,60635 1a6dA 545 6.29e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1a45 173 6.42e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1i6xA 209 6.50e+01 a.4.5.4,b.82.3.2 83673,83674 2blcA 238 6.59e+01 1tlyA 278 6.65e+01 f.4.6.1 107143 1prxB 224 6.76e+01 1prxA c.47.1.10 33077 1k6dA 220 6.84e+01 c.124.1.2 72082 1t3cA 421 7.01e+01 d.92.1.7 106343 1lox 662 7.06e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1yucA 255 7.17e+01 1nekA 588 7.26e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 2a8eA 220 7.28e+01 2prgA 271 7.46e+01 2prgA a.123.1.1 19311 1oo0A 147 7.54e+01 d.232.1.1 87182 1oahA 519 7.55e+01 a.138.1.3 86736 1tw9A 206 7.62e+01 a.45.1.1,c.47.1.5 107381,107382 1ckqA 276 7.78e+01 1ckqA c.52.1.1 33229 1jwhA 337 7.94e+01 d.144.1.7 71913 1ceqA 316 8.02e+01 1ceqA c.2.1.5,d.162.1.1 30163,42130 1zgyA 272 8.05e+01 1yptA 305 8.10e+01 1ytw c.45.1.2 32686 1ea1A 455 8.22e+01 1ea1A a.104.1.1 18970 1jflA 228 8.25e+01 c.78.2.1,c.78.2.1 71656,71657 1bx4A 345 8.58e+01 1bx4A c.72.1.1 34935 1e9xA 455 8.63e+01 1ea1A a.104.1.1 18969 1o59A 355 8.70e+01 b.18.1.22,b.18.1.22 92495,92496 1uor 585 8.72e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1jhjA 171 8.74e+01 b.18.1.9 66714 1fm9D 272 8.88e+01 2prgA a.123.1.1 19313 1vmoA 163 8.95e+01 1vmoA b.77.1.1 27974