# 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 1dxrM 323 1.90e-03 6prcM f.2.1.2 43432 6prcM 323 3.11e-03 6prcM f.2.1.2 43435 1ehkA 562 8.79e-03 1ehkA f.2.1.3 43624 2at9 247 2.71e-02 1c3wA f.2.1.1 43427 1a7m 180 1.11e-01 1lki a.26.1.1 16830 1is2A 661 2.37e-01 1aw0 72 3.20e-01 1aw0 d.58.17.1 39342 1cd9C 175 3.33e-01 1bgc a.26.1.1 16816 1bgc 174 4.07e-01 1bgc a.26.1.1 16822 1lki 180 4.92e-01 1lki a.26.1.1 16829 1bgeB 175 6.77e-01 1bgc a.26.1.1 16824 1dzlA 505 6.81e-01 1dzlA b.10.1.4 23586 1m0kA 262 7.30e-01 153l 185 9.05e-01 153l d.2.1.5 36984 1dqeA 137 9.70e-01 1dqeA a.39.2.1 17388 1gm0A 142 1.22e+00 a.39.2.1 65297 1kgbA 231 2.09e+00 f.2.1.1 68581 1kpkA 473 2.55e+00 f.2.1.13 68776 1konA 249 2.57e+00 1c3wA 222 2.98e+00 1c3wA f.2.1.1 43405 1ycqA 107 3.01e+00 1ycqA a.42.1.1 17419 1lghA 56 3.05e+00 1lghA f.3.1.1 43733 1mngA 203 3.57e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1auk 489 3.70e+00 1auk c.76.1.2 35030 1m56B 264 4.73e+00 2a3dA 73 5.08e+00 2a3dA k.9.1.1 46424 1jj2B 337 6.34e+00 1ffkB b.43.3.2 63086 1bvoA 175 6.41e+00 1a3qA b.2.5.1 22457 4crxA 322 7.01e+00 4crxA a.60.9.1 18095 d.163.1.1 42155 1cfr 285 7.18e+00 1cfr c.52.1.7 33312 1a0fA 201 7.31e+00 1a0fA a.45.1.1 17737 c.47.1.5 33031 1ee9A 320 7.35e+00 1ee9A c.2.1.7 30288 c.58.1.2 33936 1knvA 293 7.99e+00 c.52.1.7 68707 1kbuA 349 8.32e+00 1edoA 244 8.70e+00 1ybvA c.2.1.2 29896 3crxA 343 8.75e+00 4crxA a.60.9.1 18101 d.163.1.1 42161 1gbs 185 8.97e+00 153l d.2.1.5 36986 1k5dC 386 9.52e+00 c.10.1.2 68170 1l9vA 317 9.93e+00 5csmA 256 9.96e+00 5csmA a.130.1.2 19494 2bmhA 455 1.06e+01 1bu7A a.104.1.1 18941 1brd 248 1.10e+01 1c3wA f.2.1.1 43404 1yer 228 1.11e+01 1yer d.122.1.1 41101 1rip 81 1.13e+01 1rip b.40.4.5 25357 1a16 440 1.15e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1tdj 514 1.18e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1edzA 320 1.19e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 1byqA 228 1.20e+01 1yer d.122.1.1 41100 1az9 457 1.25e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1crxA 322 1.26e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1qaxA 428 1.26e+01 1qaxA d.58.20.1 39376 d.179.1.1 42597 1clh 166 1.29e+01 2cpl b.62.1.1 27512 1db3A 372 1.34e+01 1db3A c.2.1.2 29813 1csmA 256 1.36e+01 5csmA a.130.1.2 19495 1yrgB 385 1.45e+01 1yrgA c.10.1.2 30855 1hy3A 294 1.46e+01 1mjoA 104 1.48e+01 1cmbA a.43.1.2 17466 1bu7A 455 1.52e+01 1bu7A a.104.1.1 18937 1pkp 150 1.53e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1jo5A 48 1.58e+01 f.3.1.1 66988 1yrgA 385 1.58e+01 1yrgA c.10.1.2 30854 1d4bA 122 1.61e+01 1d4bA d.15.2.1 37638 1f44A 324 1.62e+01 a.60.9.1 64982 d.163.1.1 64983 1uok 558 1.63e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1vib 55 1.64e+01 1vib g.2.2.1 43999 3lynA 136 1.72e+01 1lis a.19.1.1 16413 1e6iA 121 1.72e+01 1b91A a.29.2.1 16969 1jmeA 455 1.75e+01 a.104.1.1 66885 1e12A 253 1.76e+01 1c3wA f.2.1.1 43428 1i7gA 287 1.77e+01 1h97A 147 1.79e+01 1h97A a.1.1.2 60812 1cmcA 104 1.83e+01 1cmbA a.43.1.2 17462 1b0nA 111 1.84e+01 1b0nA a.34.1.1 17001 a.35.1.3 17064 1qhsA 178 1.88e+01 1qhsA c.37.1.3 31938 1glm 470 1.88e+01 1ayx a.102.1.1 18821 1h4lD 147 1.88e+01 2ccyA 128 1.91e+01 2ccyA a.24.3.2 16544 1qhxA 178 1.96e+01 1qhsA c.37.1.3 31936 2occA 514 2.11e+01 2occA f.2.1.3 43518 1f3mC 297 2.15e+01 1hcl d.144.1.1 41677 2rmcA 182 2.16e+01 2cpl b.62.1.1 27491 1pa2A 306 2.16e+01 1bgp a.93.1.1 18693 1jwhA 337 2.17e+01 1fgyA 127 2.19e+01 1faoA b.55.1.1 26976 1fg9C 245 2.36e+01 1jrhI b.1.2.1 22060 b.1.2.1 22061 1dseA 292 2.37e+01 1ryc a.93.1.1 59130 1gai 472 2.37e+01 1ayx a.102.1.1 18819 1cmaA 104 2.43e+01 1cmbA a.43.1.2 17486 1cmbA 104 2.44e+01 1cmbA a.43.1.2 17460 1shcA 195 2.50e+01 1shcA b.55.1.2 26992 1fsu 492 2.52e+01 1auk c.76.1.2 35032 1h77A 605 2.57e+01 1ezm 301 2.61e+01 1hyt d.92.1.2 58980 2fua 215 2.74e+01 2fua c.74.1.1 34977 1fzdA 201 2.82e+01 3fib d.171.1.1 42484 3il8 72 2.85e+01 1tvxA d.9.1.1 37356 1jf9A 408 2.90e+01 1c0nA c.67.1.3 62931 2pth 193 2.90e+01 2pth c.56.3.1 33793 1b06A 210 2.96e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1prgA 270 2.98e+01 2prgA a.123.1.1 19314 1j5rA 371 3.04e+01 1e4cP 215 3.09e+01 2fua c.74.1.1 34969 1il8A 72 3.14e+01 1tvxA d.9.1.1 37365 1qhvA 195 3.17e+01 1qhvA b.21.1.1 23842 1cnpA 90 3.24e+01 4icb a.39.1.2 17161 1neu 124 3.39e+01 1neu b.1.1.1 19704 1qb2A 109 3.39e+01 1qb2A a.36.1.1 17125 1aol 228 3.51e+01 1aol b.20.1.1 23840 1jpzA 473 3.71e+01 a.104.1.1 67069 1fi2A 201 3.76e+01 1fi2A b.82.1.2 59845 1bxtA 234 3.76e+01 3seb b.40.2.2 25210 d.15.6.1 37799 1h2vC 771 3.79e+01 4lbd 267 3.80e+01 2lbd a.123.1.1 19289 2if1 126 3.80e+01 2if1 d.64.1.1 39547 1ihrA 76 3.83e+01 1ihrA d.191.1.1 62392 1dkqA 410 3.86e+01 1dklA c.60.1.3 33998 1m8aA 70 3.92e+01