# 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 1tm0A 350 1.84e-01 d.21.1.3 107147 1u1wA 298 2.60e-01 1xubA 298 3.19e-01 1w61A 414 3.52e-01 2gkeA 274 4.75e-01 1gqzA 274 5.39e-01 d.21.1.1,d.21.1.1 83311,83312 1t6kA 278 6.50e-01 1bwzA 274 8.81e-01 1bwzA d.21.1.1,d.21.1.1 38337,38338 1ym5A 300 2.50e+00 1gqyA 475 5.74e+00 c.5.1.1,c.59.1.1,c.72.2.1 83305,83306,83307 1p3dA 475 5.76e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1j6uA 469 6.16e+00 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1vdkA 466 6.30e+00 a.127.1.1 100561 1clqA 903 6.42e+00 1clqA c.55.3.5,e.8.1.1 33717,43006 1mxmA 254 8.08e+00 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1azsB 212 1.02e+01 1azsA d.58.29.1 39423 1qx4A 274 1.04e+01 b.43.4.2,c.25.1.1 104624,104625 1o0pA 104 1.07e+01 d.58.7.1 86535 1ab8A 220 1.22e+01 1azsA d.58.29.1 39414 1d0iA 156 1.31e+01 2dhqA c.23.13.1 31383 1wc3A 219 1.39e+01 1dkmA 410 1.50e+01 1dklA c.60.1.2 34000 1ffkE 119 1.63e+01 1ffkE d.79.3.1 39812 2acfA 182 1.66e+01 1ih7A 903 1.66e+01 1clqA c.55.3.5,e.8.1.1 62375,62376 1i7pA 274 1.73e+01 b.43.4.2,c.25.1.1 66048,66049 1wekA 217 1.75e+01 1ewqA 765 1.78e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1gtzA 156 1.95e+01 c.23.13.1 70539 1oe4A 247 2.18e+01 c.18.1.3 86895 1dp4A 435 2.23e+01 1dp4A c.93.1.1 35710 1y9wA 140 2.26e+01 1u9yA 284 2.27e+01 2azpA 318 2.28e+01 2b3nA 159 2.29e+01 1dklA 410 2.30e+01 1dklA c.60.1.2 33996 1gv3A 248 2.83e+01 a.2.11.1,d.44.1.1 70585,70586 2aioA 269 2.89e+01 2myr 501 2.92e+01 1smlA 269 2.95e+01 1smlA d.157.1.1 42053 1ixlA 131 3.04e+01 d.38.1.5 90717 1dkqA 410 3.07e+01 1dklA c.60.1.2 33998 1nnsA 326 3.12e+01 c.88.1.1 85910 1tafB 70 3.13e+01 1tafB a.22.1.3 16482 1hcz 252 3.19e+01 1hcz b.2.6.1,b.84.2.2 22464,28250 2b5wA 357 3.43e+01 1umkA 275 3.44e+01 2pcfB 250 3.48e+01 1hcz i.4.1.1 45911 1k0eA 453 3.48e+01 d.161.1.1 67938 1o5zA 442 4.21e+01 c.59.1.2,c.72.2.2 92530,92531 2b61A 377 4.23e+01 1o70A 324 4.48e+01 b.118.1.1,b.118.1.1 81115,81116 1yqfA 203 4.55e+01 1lylA 504 4.56e+01 1lylA b.40.4.1,d.104.1.1 25261,40717 1e6qM 501 4.60e+01 1e70M c.1.8.4 28920 5gcnA 166 4.62e+01 1yghA d.108.1.1 40807 1giqA 413 4.90e+01 d.166.1.1,d.166.1.1 76224,76225 2c26A 260 5.06e+01 2c4xA 260 5.06e+01 1mkiA 330 5.16e+01 e.3.1.2 84994 1e1oA 504 5.23e+01 1lylA b.40.4.1,d.104.1.1 25258,40714 1e70M 501 5.23e+01 1e70M c.1.8.4 28926 1jscA 630 5.31e+01 c.31.1.3,c.36.1.5,c.36.1.9 67224,67225,67226 1ig8A 486 5.42e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1ug1A 92 5.70e+01 b.34.2.1 99360 1ijyA 130 5.72e+01 1ijxA a.141.1.1 62517 1jihA 531 5.78e+01 d.240.1.1,e.8.1.7 90374,90375 1xtqA 177 5.92e+01 1cjtA 217 5.99e+01 1azsA d.58.29.1 39419 1vh5A 148 6.06e+01 d.38.1.5 100642 1uurA 473 6.14e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1wpgA 994 6.16e+01 1ycoA 279 6.32e+01 1ndh 272 6.56e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1e4mM 501 6.64e+01 1e70M c.1.8.4 59226 1bvqA 141 6.71e+01 1bvqA d.38.1.1 38542 1kvkA 395 6.85e+01 d.14.1.5,d.58.26.3 73060,73061 1k24A 253 6.89e+01 f.4.4.2 72002 1kgqA 274 6.90e+01 b.81.1.2 72447 3tdt 274 6.92e+01 3tdt b.81.1.2 28053 2tdt 274 6.94e+01 3tdt b.81.1.2 28054 2gjgA 248 6.98e+01 1jb9A 316 7.00e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1tdtA 259 7.04e+01 3tdt b.81.1.2 28055 1hzdA 272 7.06e+01 c.14.1.3 65969 1lox 662 7.36e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1uag 437 7.36e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30653,33954,34957 1a8l 226 7.37e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1jj2F 119 7.40e+01 1ffkE d.79.3.1 63091 1woqA 267 7.41e+01 c.55.1.10,c.55.1.10 109462,109463 1b7yA 350 7.42e+01 1pysA d.104.1.1 40776 1aijL 281 7.52e+01 6prcL f.26.1.1 43461 1q5dA 419 7.57e+01 a.104.1.1 95891 2g84A 197 7.58e+01 1xhkA 187 7.60e+01 4uagA 437 7.77e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1ilyA 90 7.79e+01 c.55.4.1 71245 3uagA 437 7.81e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30652,33953,34956 1t7vA 278 7.87e+01 1josA 128 8.25e+01 d.52.7.1 84191 1izmA 184 8.35e+01 a.199.1.1 90725 1pyoA 167 8.40e+01 c.17.1.1 95370 1culA 217 8.53e+01 1azsA d.58.29.1 39417 1pysA 350 8.60e+01 1pysA d.104.1.1 40775 1lo7A 141 8.65e+01 d.38.1.1 74144 1z5hA 780 8.66e+01 1xjvA 294 8.84e+01 1eulA 994 8.93e+01 1eulA