# List of top-scoring protein chains for t2k-100-30-str 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 1.47e-02 6prcM f.2.1.2 43432 6prcM 323 1.89e-02 6prcM f.2.1.2 43435 2at9 247 2.37e-02 1c3wA f.2.1.1 43427 1is2A 661 5.88e-02 1m0kA 262 1.95e-01 1a7m 180 2.11e-01 1lki a.26.1.1 16830 153l 185 2.78e-01 153l d.2.1.5 36984 1aw0 72 2.90e-01 1aw0 d.58.17.1 39342 1kgbA 231 5.10e-01 f.2.1.1 68581 1c3wA 222 6.30e-01 1c3wA f.2.1.1 43405 1dzlA 505 7.87e-01 1dzlA b.10.1.4 23586 1bgc 174 9.22e-01 1bgc a.26.1.1 16822 1lki 180 9.58e-01 1lki a.26.1.1 16829 1dqeA 137 1.05e+00 1dqeA a.39.2.1 17388 1qaxA 428 1.22e+00 1qaxA d.58.20.1 39376 d.179.1.1 42597 1fg9C 245 1.48e+00 1jrhI b.1.2.1 22060 b.1.2.1 22061 1gm0A 142 1.80e+00 a.39.2.1 65297 1lghA 56 2.31e+00 1lghA f.3.1.1 43733 1gbs 185 2.37e+00 153l d.2.1.5 36986 1auk 489 2.73e+00 1auk c.76.1.2 35030 1cd9C 175 2.80e+00 1bgc a.26.1.1 16816 2a3dA 73 2.93e+00 2a3dA k.9.1.1 46424 1k3iA 656 3.65e+00 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1tdj 514 4.01e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1pa2A 306 5.02e+00 1bgp a.93.1.1 18693 1ycqA 107 5.14e+00 1ycqA a.42.1.1 17419 1ehkA 562 5.24e+00 1ehkA f.2.1.3 43624 1bgeB 175 5.69e+00 1bgc a.26.1.1 16824 1neu 124 6.02e+00 1neu b.1.1.1 19704 2cb5A 453 6.09e+00 3gcb d.3.1.1 37035 1vib 55 6.39e+00 1vib g.2.2.1 43999 1cfr 285 6.64e+00 1cfr c.52.1.7 33312 1jf9A 408 8.07e+00 1c0nA c.67.1.3 62931 1byb 495 9.35e+00 1byb c.1.8.2 28790 2pth 193 9.39e+00 2pth c.56.3.1 33793 1mjoA 104 1.00e+01 1cmbA a.43.1.2 17466 1cmcA 104 1.09e+01 1cmbA a.43.1.2 17462 1jbjA 186 1.11e+01 b.1.1.4 66482 b.1.1.4 66483 1cnpA 90 1.14e+01 4icb a.39.1.2 17161 1qhvA 195 1.21e+01 1qhvA b.21.1.1 23842 1ekxA 311 1.24e+01 3csuA c.78.1.1 35088 c.78.1.1 35089 1l9vA 317 1.28e+01 1cmaA 104 1.32e+01 1cmbA a.43.1.2 17486 1cmbA 104 1.32e+01 1cmbA a.43.1.2 17460 1knvA 293 1.34e+01 c.52.1.7 68707 4crxA 322 1.34e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1jae 471 1.36e+01 1smd b.71.1.1 27773 c.1.8.1 28760 1dkqA 410 1.42e+01 1dklA c.60.1.3 33998 1kbuA 349 1.43e+01 1adjA 421 1.45e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1h54B 754 1.45e+01 a.102.1.4 60636 b.30.4.1 60637 3il8 72 1.48e+01 1tvxA d.9.1.1 37356 1gai 472 1.51e+01 1ayx a.102.1.1 18819 1glm 470 1.55e+01 1ayx a.102.1.1 18821 3crxA 343 1.63e+01 4crxA a.60.9.1 18101 d.163.1.1 42161 1rip 81 1.66e+01 1rip b.40.4.5 25357 1a16 440 1.69e+01 1az9 c.55.2.1 33548 d.127.1.1 41165 1az9 457 1.76e+01 1az9 c.55.2.1 33547 d.127.1.1 41164 1h68A 239 1.80e+01 f.2.1.1 60664 1h54A 754 1.80e+01 a.102.1.4 60634 b.30.4.1 60635 1jo5A 48 1.82e+01 f.3.1.1 66988 1brd 248 1.84e+01 1c3wA f.2.1.1 43404 1jj2B 337 1.85e+01 1ffkB b.43.3.2 63086 1apxA 249 1.87e+01 1ryc a.93.1.1 18669 1mngA 203 2.00e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1crxA 322 2.00e+01 4crxA a.60.9.1 18097 d.163.1.1 42157 1c0nA 406 2.09e+01 1c0nA c.67.1.3 34433 1dklA 410 2.15e+01 1dklA c.60.1.3 33996 1ffkB 338 2.26e+01 1ffkB b.43.3.2 25719 1ea3A 164 2.40e+01 1aa7A a.95.1.1 59398 1g8lA 411 2.41e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1fsu 492 2.46e+01 1auk c.76.1.2 35032 1b06A 210 2.54e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1ezm 301 2.59e+01 1hyt d.92.1.2 58980 7atjA 308 2.59e+01 1bgp a.93.1.1 18673 1qu5A 182 2.63e+01 1qu5A b.26.1.2 23922 1eqfA 280 2.64e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1hy3A 294 2.65e+01 1hkcA 917 2.70e+01 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1fwyA 331 2.71e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1amx 180 2.80e+01 1amx b.2.3.1 22410 1jssA 224 2.83e+01 2atjA 308 2.91e+01 1bgp a.93.1.1 18675 1qstA 160 3.02e+01 1yghA d.108.1.1 40804 2bmhA 455 3.08e+01 1bu7A a.104.1.1 18941 1clh 166 3.09e+01 2cpl b.62.1.1 27512 1aq6A 253 3.17e+01 1qq5A c.108.1.1 43331 1qhsA 178 3.18e+01 1qhsA c.37.1.3 31938 1d4bA 122 3.25e+01 1d4bA d.15.2.1 37638 2fua 215 3.26e+01 2fua c.74.1.1 34977 1qhxA 178 3.29e+01 1qhsA c.37.1.3 31936 1h97A 147 3.35e+01 1h97A a.1.1.2 60812 1f3mC 297 3.42e+01 1hcl d.144.1.1 41677 1aa7A 158 3.44e+01 1aa7A a.95.1.1 18741 1f44A 324 3.44e+01 a.60.9.1 64982 d.163.1.1 64983 1aol 228 3.64e+01 1aol b.20.1.1 23840 1fsgA 233 3.68e+01 1qk3A c.61.1.1 34029 1qq7A 253 3.76e+01 1qq5A c.108.1.1 43329 1gqpA 221 3.76e+01 1bu7A 455 3.77e+01 1bu7A a.104.1.1 18937 1ycsA 199 3.78e+01 1tupA b.2.5.1 22433 1i7gA 287 3.79e+01 1qb2A 109 3.81e+01 1qb2A a.36.1.1 17125 1bhb 71 3.84e+01 1c3wA j.35.1.1 46239 1dseA 292 3.86e+01 1ryc a.93.1.1 59130 1e4cP 215 3.98e+01 2fua c.74.1.1 34969 1jksA 294 4.00e+01