# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1uuqA 440 4.56e-01 c.1.8.3 100015 1twfA 1733 4.84e-01 1m6yA 301 5.05e-01 a.60.13.1 78716 c.66.1.23 78717 1i50A 1733 5.69e-01 e.29.1.2 61754 1j0hA 588 8.33e-01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1fgs 428 9.29e-01 1fgs c.59.1.2 33959 c.72.2.2 34962 1jbwA 428 9.77e-01 c.59.1.2 62860 c.72.2.2 62861 1gvfA 286 1.20e+00 c.1.10.2 70599 1mp1A 111 1.28e+00 a.188.1.1 91382 1k28A 584 1.60e+00 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1l8qA 324 1.74e+00 a.4.12.2 77809 c.37.1.20 77810 2az4A 429 2.14e+00 1b9hA 388 2.19e+00 1b9hA c.67.1.4 34488 1clxA 347 2.61e+00 1taxA c.1.8.3 28899 1wxcA 281 3.02e+00 1keiA 316 3.08e+00 d.92.1.2 77349 2bneA 241 3.12e+00 1zb1A 392 3.14e+00 2tmnE 316 3.53e+00 1hyt d.92.1.2 59055 2bidA 197 3.53e+00 2bidA f.1.4.1 43398 1qdbA 473 3.88e+00 1qdbA a.138.1.3 19688 1zkiA 133 4.00e+00 1de4C 640 4.04e+00 1cx8B a.48.2.1 17779 c.8.4.1 30760 c.56.5.5 33848 8tlnE 316 4.16e+00 1hyt d.92.1.2 59075 6tmnE 316 4.16e+00 1hyt d.92.1.2 59071 1hyt 316 4.25e+00 1hyt d.92.1.2 59005 1f6dA 376 4.30e+00 1f6dA c.87.1.3 35467 1vgvA 384 4.78e+00 c.87.1.3 100608 1ekeA 230 4.92e+00 1ekeA c.55.3.1 33572 1oc7A 364 5.02e+00 c.6.1.1 86794 1ocnA 362 5.33e+00 c.6.1.1 86808 1bvwA 360 5.53e+00 1bvwA c.6.1.1 30668 2fkcA 247 5.64e+00 2bvwA 362 5.82e+00 1bvwA c.6.1.1 30666 2b61A 377 5.91e+00 2d7vA 162 5.97e+00 1wa5C 960 6.00e+00 2ao9A 155 6.06e+00 1vjvA 415 6.24e+00 d.3.1.9 108632 1hm2A 700 6.37e+00 1cb8A a.102.3.2 61083 b.24.1.1 61084 b.30.5.2 61085 1vlmA 219 6.40e+00 c.66.1.41 108836 1qbkB 890 6.42e+00 1qbkB a.118.1.1 19127 1lf6A 684 6.64e+00 a.102.1.5 77918 b.30.5.5 77919 2cq2A 114 6.78e+00 1jgcA 161 7.01e+00 a.25.1.1 66673 1sqc 631 7.12e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 1w32A 348 7.26e+00 1lzlA 323 7.31e+00 c.69.1.2 78306 1lwjA 441 7.46e+00 b.71.1.1 74303 c.1.8.1 74304 2cvxA 888 8.63e+00 1gmlA 178 9.46e+00 c.8.5.2 70273 2sqcA 631 9.54e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1mv8A 436 9.54e+00 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1e6qM 501 9.60e+00 1e70M c.1.8.4 28920 2awdA 323 9.62e+00 1cb8A 678 9.69e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 2f02A 323 9.82e+00 1ynmA 247 1.02e+01 2ts1 419 1.02e+01 2ts1 c.26.1.1 31564 16vpA 366 1.10e+01 16vpA d.180.1.1 42601 2nmbA 160 1.18e+01 2nmbA b.55.1.2 26994 1e70M 501 1.21e+01 1e70M c.1.8.4 28926 1e4mM 501 1.21e+01 1e70M c.1.8.4 59226 2d1eA 248 1.28e+01 1kfwA 435 1.28e+01 c.1.8.5 77376 d.26.3.1 77377 1in6A 334 1.30e+01 1hqcA a.4.5.11 62601 c.37.1.20 62602 1lmzA 187 1.34e+01 a.96.1.4 74037 1ntyA 311 1.38e+01 a.87.1.1 103873 b.55.1.1 103874 1bob 320 1.39e+01 1bob d.108.1.1 40816 2acvA 463 1.43e+01 1eexA 554 1.43e+01 1dioA c.1.19.3 29650 2ao0A 324 1.45e+01 1kwfA 363 1.47e+01 a.102.1.2 73078 1ht6A 405 1.54e+01 b.71.1.1 83629 c.1.8.1 83630 1wovA 250 1.55e+01 1pgjA 478 1.56e+01 2pgd a.100.1.1 18783 c.2.1.6 30195 2es4D 332 1.59e+01 1b31A 302 1.60e+01 1taxA c.1.8.3 28892 1bg4 302 1.61e+01 1taxA c.1.8.3 28806 2bcgY 206 1.61e+01 2fflA 756 1.62e+01 1nq6A 302 1.65e+01 c.1.8.3 92046 1tq4A 413 1.66e+01 c.37.1.8 107201 1sfkA 76 1.69e+01 a.190.1.1 105488 1x8yA 86 1.70e+01 1j6uA 469 1.71e+01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1arzC 273 1.71e+01 1drw c.2.1.3 30061 d.81.1.3 39976 1uruA 244 1.76e+01 h.4.14.1 99835 1y2mA 716 1.81e+01 1v58A 241 1.86e+01 c.47.1.9 108371 d.17.3.1 108372 1rzuA 485 1.88e+01 c.87.1.8 105140 1m16A 146 1.89e+01 b.42.1.1 91164 1nal1 297 1.90e+01 1nal3 1qwnA 1045 1.93e+01 a.8.3.1 96487 b.30.5.6 96488 c.6.2.1 96489 1a04A 215 1.96e+01 1a04A a.4.6.2 16234 c.23.1.1 31089 1tmxA 293 1.96e+01 1e5rA 290 1.99e+01 1e5rA b.82.2.4 59276 1o7fA 469 2.02e+01 a.4.5.31 81131 b.82.3.2 81132 b.82.3.2 81133 1hxkA 1015 2.03e+01 a.8.3.1 83070 b.30.5.6 83071 c.6.2.1 83072 1htyA 1015 2.03e+01 a.8.3.1 83064 b.30.5.6 83065 c.6.2.1 83066 2c5uA 375 2.03e+01 1fdyA 297 2.08e+01 1nal3 c.1.10.1 29071 1jqzA 146 2.08e+01 b.42.1.1 67109 1qjwA 365 2.11e+01 1bvwA c.6.1.1 30657 1szhA 161 2.13e+01 a.226.1.1 106157 1v9dA 340 2.19e+01 a.207.1.1 100535 1dih 273 2.19e+01 1drw c.2.1.3 30056 d.81.1.3 39971 1qgrA 876 2.20e+01 1qgrA a.118.1.1 19119 1hwwA 1015 2.20e+01 a.8.3.1 83067 b.30.5.6 83068 c.6.2.1 83069 1iv8A 720 2.20e+01 b.71.1.1 76842 c.1.8.1 76843 2cujA 108 2.22e+01 1rkeA 262 2.26e+01 a.24.9.1 97608 a.24.9.1 97609 1xyfA 436 2.28e+01 1taxA b.42.2.1 25577 c.1.8.3 28909 2myr 501 2.28e+01 2bvlA 543 2.31e+01 1s8fA 177 2.39e+01 c.37.1.8 105370 1hx0A 496 2.42e+01 b.71.1.1 61346 c.1.8.1 61347 1rg8A 146 2.44e+01 1e6yA 569 2.45e+01 1mroA a.89.1.1 18529 d.58.31.2 39447 1b1yA 500 2.49e+01 1byb c.1.8.1 28796 1ek6A 348 2.51e+01 1xel c.2.1.2 29800 1rh9A 373 2.52e+01 2bmhA 455 2.52e+01 1bu7A a.104.1.1 18941 1lc5A 364 2.55e+01 c.67.1.1 73827 2basA 431 2.55e+01 1cem 363 2.56e+01 1cem a.102.1.2 18826 1chkA 238 2.57e+01 1chkA d.2.1.7 36999 1lkcA 364 2.57e+01 c.67.1.1 73978 1ofcX 304 2.60e+01 a.4.1.3 92826 a.4.1.13 92827 a.187.1.1 92828 1y6iA 233 2.66e+01 1r8iA 213 2.66e+01 a.8.7.1 97239 1xw8A 252 2.67e+01 1htoA 477 2.67e+01 d.15.9.1 70987 d.128.1.1 70988 1jt7A 146 2.67e+01 b.42.1.1 67255 1hl2A 297 2.69e+01 c.1.10.1 83581 5eau 548 2.70e+01 5eat a.102.4.1 18851 a.128.1.3 19443 1drw 273 2.73e+01 1drw c.2.1.3 30057 d.81.1.3 39972 1cb2A 365 2.73e+01 1bvwA c.6.1.1 30661 137lA 164 2.79e+01 1l92 d.2.1.3 36791 1y0gA 191 2.79e+01 1p63A 144 2.81e+01 b.42.1.1 94153 1cx8A 639 2.84e+01 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1jr3A 373 2.85e+01 a.80.1.1 63245 c.37.1.20 63246 1d9tA 289 2.88e+01 1deaA 1bu7A 455 2.89e+01 1bu7A a.104.1.1 18937 1ukvY 206 2.92e+01 c.37.1.8 107918 1f6yA 262 2.92e+01 1f6yA c.1.21.2 29673 1m0kA 262 2.92e+01 f.13.1.1 78344 1o7xD 377 2.94e+01 a.103.1.1 81174 1o9rA 162 2.94e+01 a.25.1.1 86706 1tzvA 142 2.96e+01 a.79.1.1 107526 1nd7A 374 3.07e+01 d.148.1.1 91817 1fkoB 440 3.07e+01 1rthA e.8.1.2 43095 1ywfA 296 3.07e+01 1t6jA 714 3.08e+01 1ne7A 289 3.08e+01 c.124.1.1 91833 5eat 548 3.09e+01 5eat a.102.4.1 18853 a.128.1.3 19445 1eumA 165 3.12e+01 1eumA a.25.1.1 59507 1sqsA 242 3.13e+01 c.23.5.5 98968 1jpzA 473 3.16e+01 a.104.1.1 67069 1xxqA 161 3.18e+01 1qvzA 237 3.18e+01 c.23.16.2 96453 1vi0A 206 3.18e+01 a.4.1.9 100720 a.121.1.1 100721 1p4xA 250 3.19e+01 a.4.5.28 87784 a.4.5.28 87785 1nal3 297 3.19e+01 1nal3 1gqyA 475 3.25e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1sxrA 183 3.29e+01 d.118.1.1 106101 2b8tA 223 3.37e+01 1dioA 554 3.38e+01 1dioA c.1.19.3 29656 1ydiA 263 3.40e+01 1dg3A 592 3.41e+01 1dg3A a.114.1.1 19078 c.37.1.8 32153 2cybA 323 3.47e+01 3cbh 365 3.48e+01 1bvwA c.6.1.1 30665 2at9 247 3.49e+01 1c3wA f.13.1.1 43427 2bnfB 241 3.50e+01 1zvzA 279 3.54e+01 2f6uA 234 3.56e+01 2avyM 117 3.81e+01 1f5nA 592 3.83e+01 1dg3A a.114.1.1 19077 c.37.1.8 32152 1eu1A 780 3.83e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1e0wA 313 3.88e+01 1taxA c.1.8.3 59150 1i6lA 328 3.88e+01 c.26.1.1 66041 1cx8B 639 3.88e+01 1cx8B a.48.2.1 17783 c.8.4.1 30764 c.56.5.5 33852 1i6kA 328 3.88e+01 c.26.1.1 66040 1r1hA 696 3.89e+01 d.92.1.4 104756 1yzhA 214 3.90e+01 1hl8A 449 3.91e+01 b.71.1.3 90646 c.1.8.11 90647 1jqiA 388 3.94e+01 a.29.3.1 67087 e.6.1.1 67088 139l 164 3.94e+01 1l92 d.2.1.3 36643 180lA 164 3.99e+01 1l92 d.2.1.3 36867