# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 2gkeA 274 2.76e-01 1u1wA 298 2.92e-01 1tm0A 350 3.07e-01 d.21.1.3 107147 1gqzA 274 3.16e-01 d.21.1.1,d.21.1.1 83311,83312 1w61A 414 3.30e-01 1xubA 298 3.32e-01 1bwzA 274 5.39e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1t6kA 278 7.43e-01 1ym5A 300 6.89e+00 1vdkA 466 7.81e+00 a.127.1.1 100561 1azsB 212 8.91e+00 1azsA d.58.29.1 39423 1p3dA 475 8.95e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1gqyA 475 8.95e+00 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1ab8A 220 1.03e+01 1azsA d.58.29.1 39414 1clqA 903 1.04e+01 1clqA c.55.3.5,e.8.1.1 33717,43006 1j6uA 469 1.34e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1d0iA 156 1.37e+01 2dhqA c.23.13.1 31383 1dp4A 435 1.41e+01 1dp4A c.93.1.1 35710 1o0pA 104 1.45e+01 d.58.7.1 86535 1mxmA 254 1.45e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1dkmA 410 1.53e+01 1dklA c.60.1.2 34000 2myr 501 1.79e+01 1ffkE 119 1.95e+01 1ffkE d.79.3.1 39812 1gtzA 156 2.05e+01 c.23.13.1 70539 1qx4A 274 2.07e+01 b.43.4.2,c.25.1.1 104624,104625 1wekA 217 2.08e+01 1wc3A 219 2.09e+01 1dklA 410 2.26e+01 1dklA c.60.1.2 33996 2aioA 269 2.34e+01 1ewqA 765 2.38e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1smlA 269 2.39e+01 1smlA d.157.1.1 42053 1xtqA 177 2.61e+01 1k0eA 453 2.61e+01 d.161.1.1 67938 1e6qM 501 2.62e+01 1e70M c.1.8.4 28920 1oe4A 247 2.63e+01 c.18.1.3 86895 1hcz 252 2.66e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 2acfA 182 2.71e+01 1u9yA 284 3.01e+01 1dkqA 410 3.04e+01 1dklA c.60.1.2 33998 2pcfB 250 3.06e+01 1hcz i.4.1.1 45911 1h9dB 134 3.11e+01 2jhbA b.54.1.1 60822 1e70M 501 3.18e+01 1e70M c.1.8.4 28926 1ih7A 903 3.28e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 7catA 506 3.29e+01 1cf9A e.5.1.1 42781 1nnsA 326 3.38e+01 c.88.1.1 85910 5gcnA 166 3.40e+01 1yghA d.108.1.1 40807 2b61A 377 3.51e+01 1i7pA 274 3.75e+01 b.43.4.2,c.25.1.1 66048,66049 1z5hA 780 3.79e+01 1e4mM 501 3.85e+01 1e70M c.1.8.4 59226 1o70A 324 3.93e+01 b.118.1.1,b.118.1.1 81115,81116 1o17A 345 4.08e+01 a.46.2.1,c.27.1.1 80765,80766 1ig8A 486 4.18e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1ixlA 131 4.25e+01 d.38.1.5 90717 2b5wA 357 4.38e+01 1dgfA 497 4.49e+01 1cf9A e.5.1.1 42782 1dghB 498 4.50e+01 1cf9A e.5.1.1 42791 1kvkA 395 4.62e+01 d.14.1.5,d.58.26.3 73060,73061 1gv3A 248 4.97e+01 a.2.11.1,d.44.1.1 70585,70586 1jihA 531 5.03e+01 d.240.1.1,e.8.1.7 90374,90375 1uag 437 5.30e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30653,33954,34957 1o5zA 442 5.31e+01 c.59.1.2,c.72.2.2 92530,92531 1uurA 473 5.40e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1fi4A 416 5.49e+01 1fi4A d.14.1.5,d.58.26.2 59847,59848 1z94A 147 5.50e+01 4uagA 437 5.52e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1tafB 70 5.53e+01 1tafB a.22.1.3 16482 3uagA 437 5.69e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30652,33953,34956 1a8l 226 5.69e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1cjtA 217 5.74e+01 1azsA d.58.29.1 39419 1rzuA 485 5.92e+01 c.87.1.8 105140 1wpgA 994 5.97e+01 2govA 195 5.97e+01 1y9wA 140 6.01e+01 1yqfA 203 6.07e+01 1mkiA 330 6.07e+01 e.3.1.2 84994 1b7yA 350 6.18e+01 1pysA d.104.1.1 40776 1cawB 184 6.19e+01 1caxB b.82.1.2 28113 2h0bA 184 6.27e+01 2azpA 318 6.29e+01 1vh5A 148 6.56e+01 d.38.1.5 100642 1ycoA 279 6.80e+01 1hzdA 272 6.81e+01 c.14.1.3 65969 1k24A 253 6.99e+01 f.4.4.2 72002 1ilyA 90 7.03e+01 c.55.4.1 71245 1x88A 359 7.08e+01 2cy2A 174 7.25e+01 1qstA 160 7.28e+01 1yghA d.108.1.1 40804 1giqA 413 7.60e+01 d.166.1.1,d.166.1.1 76224,76225 1ndh 272 7.83e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1umkA 275 7.94e+01 2b3nA 159 8.03e+01 1ug1A 92 8.03e+01 b.34.2.1 99360 1lox 662 8.17e+01 1lox a.119.1.2,b.12.1.1 19238,23638 2gjgA 248 8.27e+01 1culA 217 8.30e+01 1azsA d.58.29.1 39417 1eulA 994 8.36e+01 1eulA 1xjvA 294 8.40e+01 1kgqA 274 8.46e+01 b.81.1.2 72447 1jj2F 119 8.48e+01 1ffkE d.79.3.1 63091 3tdt 274 8.51e+01 3tdt b.81.1.2 28053 2tdt 274 8.52e+01 3tdt b.81.1.2 28054 1jscA 630 8.68e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1tdtA 259 8.75e+01 3tdt b.81.1.2 28055 1pysA 350 8.80e+01 1pysA d.104.1.1 40775 1ov3A 138 8.94e+01 b.34.2.1,b.34.2.1 87451,87452 1l0wA 580 8.95e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428