# List of top-scoring protein chains for t2k-100-30-alpha 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 6prcM 323 1.07e-01 6prcM f.2.1.2 43435 1dxrM 323 1.08e-01 6prcM f.2.1.2 43432 1c3wA 222 2.57e-01 1c3wA f.2.1.1 43405 1m0kA 262 3.02e-01 2at9 247 3.43e-01 1c3wA f.2.1.1 43427 1a7m 180 4.02e-01 1lki a.26.1.1 16830 1kgbA 231 4.61e-01 f.2.1.1 68581 1is2A 661 6.41e-01 1lghA 56 6.45e-01 1lghA f.3.1.1 43733 1auk 489 6.75e-01 1auk c.76.1.2 35030 1uok 558 7.31e-01 1uok b.71.1.1 27801 c.1.8.1 28788 1bgc 174 1.07e+00 1bgc a.26.1.1 16822 1lki 180 1.12e+00 1lki a.26.1.1 16829 1aw0 72 1.45e+00 1aw0 d.58.17.1 39342 1cfr 285 1.63e+00 1cfr c.52.1.7 33312 1dqeA 137 2.13e+00 1dqeA a.39.2.1 17388 1dzlA 505 2.43e+00 1dzlA b.10.1.4 23586 153l 185 2.45e+00 153l d.2.1.5 36984 1neu 124 2.64e+00 1neu b.1.1.1 19704 1gm0A 142 2.76e+00 a.39.2.1 65297 1cd9C 175 3.02e+00 1bgc a.26.1.1 16816 1qaxA 428 4.86e+00 1qaxA d.58.20.1 39376 d.179.1.1 42597 1qhsA 178 4.92e+00 1qhsA c.37.1.3 31938 1nstA 325 5.15e+00 1nstA c.37.1.5 31951 1qhxA 178 5.22e+00 1qhsA c.37.1.3 31936 1brd 248 5.23e+00 1c3wA f.2.1.1 43404 1fg9C 245 6.05e+00 1jrhI b.1.2.1 22060 b.1.2.1 22061 2pth 193 6.35e+00 2pth c.56.3.1 33793 1konA 249 6.47e+00 1knvA 293 6.54e+00 c.52.1.7 68707 1g6q2 328 7.03e+00 1g6q2 1bgeB 175 7.85e+00 1bgc a.26.1.1 16824 2occC 261 9.00e+00 1ocrC f.2.1.3 43520 1k5dC 386 9.47e+00 c.10.1.2 68170 1dx7A 48 9.89e+00 1dx7A f.3.1.1 43741 1jhnA 424 1.03e+01 b.29.1.12 66720 b.29.1.12 66721 b.104.1.1 66722 3pvaA 335 1.04e+01 3pvaA d.153.1.3 41854 1m8aA 70 1.15e+01 1ocrC 261 1.16e+01 1ocrC f.2.1.3 43540 1dmr 823 1.22e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1ea1A 455 1.26e+01 1ea1A a.104.1.1 18970 1dseA 292 1.27e+01 1ryc a.93.1.1 59130 2pvaA 345 1.31e+01 3pvaA d.153.1.3 41850 1ravA 127 1.35e+01 1swuA b.61.1.1 27409 1yrgB 385 1.50e+01 1yrgA c.10.1.2 30855 1jfzA 154 1.61e+01 a.149.1.1 66655 1yrgA 385 1.62e+01 1yrgA c.10.1.2 30854 2fua 215 1.63e+01 2fua c.74.1.1 34977 1fua 215 1.66e+01 2fua c.74.1.1 34973 1jmeA 455 1.69e+01 a.104.1.1 66885 1e4cP 215 1.70e+01 2fua c.74.1.1 34969 1hv9A 456 1.76e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1fgyA 127 1.78e+01 1faoA b.55.1.1 26976 1bvoA 175 1.86e+01 1a3qA b.2.5.1 22457 1jpzA 473 1.98e+01 a.104.1.1 67069 1fwyA 331 2.04e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1fxjA 331 2.08e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1f2tB 148 2.09e+01 1f2tB 1iam 185 2.21e+01 1zxq b.1.1.3 21653 b.1.1.4 21689 1hy3A 294 2.24e+01 1edoA 244 2.27e+01 1ybvA c.2.1.2 29896 1vib 55 2.29e+01 1vib g.2.2.1 43999 1ag4 103 2.36e+01 1ag4 b.11.1.1 23629 1h77A 605 2.39e+01 1ehkA 562 2.46e+01 1ehkA f.2.1.3 43624 1bu7A 455 2.46e+01 1bu7A a.104.1.1 18937 1f44A 324 2.54e+01 a.60.9.1 64982 d.163.1.1 64983 1qstA 160 2.56e+01 1yghA d.108.1.1 40804 1h54B 754 2.58e+01 a.102.1.4 60636 b.30.4.1 60637 1jwhA 337 2.70e+01 1ycqA 107 2.73e+01 1ycqA a.42.1.1 17419 1kcmA 270 2.73e+01 1quqA 129 2.75e+01 1quqA b.40.4.3 25303 1gcvA 140 2.81e+01 1cg5B a.1.1.2 15410 1eu1A 780 2.85e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 2bmhA 455 2.91e+01 1bu7A a.104.1.1 18941 1k3lA 221 3.01e+01 1lnqA 336 3.19e+01 1dkqA 410 3.21e+01 1dklA c.60.1.3 33998 1jhjA 171 3.24e+01 b.18.1.9 66714 1cxvA 164 3.39e+01 1ck7A d.92.1.11 40404 1hdmA 201 3.42e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1garA 212 3.53e+01 2gar c.65.1.1 34162 1h54A 754 3.71e+01 a.102.1.4 60634 b.30.4.1 60635 1mngA 203 3.73e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1krhA 338 3.76e+01 1fvzA 271 3.77e+01 1fvzA d.129.3.4 60050 1qmqA 414 3.84e+01 1phd a.104.1.1 18907 1mrp 309 3.86e+01 1mrp c.94.1.1 35796 1qb2A 109 3.92e+01 1qb2A a.36.1.1 17125 1fy2A 229 3.96e+01 1fyeA c.23.16.4 31478