# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 2gp4A 628 5.92e-02 1zvyA 136 1.25e-01 2bdrA 175 1.51e+00 1i1dA 161 3.69e+00 1i21A d.108.1.1 61526 1v7lA 163 4.15e+00 1kqfA 1015 4.82e+00 b.52.2.2,c.81.1.1 72871,72872 1ysjA 404 5.29e+00 1xovA 326 5.70e+00 1i21A 159 6.04e+00 1i21A d.108.1.1 61549 1i12A 160 6.50e+00 1i21A d.108.1.1 61515 1ddt 535 6.64e+00 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22379,42241,43384 1bllE 488 6.72e+00 1lam c.50.1.1,c.56.5.3 33170,33833 1lam 484 6.98e+00 1lam c.50.1.1,c.56.5.3 33166,33829 1lap 488 7.05e+00 1lam c.50.1.1,c.56.5.3 33171,33834 2fmlA 273 7.63e+00 1ml9A 302 8.46e+00 b.85.7.1 79282 1hup 141 9.09e+00 1rtm1 d.169.1.1,h.1.1.1 42354,45422 1fx2A 235 9.18e+00 1fx2A d.58.29.1 39430 1fx4A 231 9.96e+00 1fx2A d.58.29.1 39431 1kblA 873 1.13e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1a5z 319 1.17e+01 1ceqA c.2.1.5,d.162.1.1 30181,42148 1q7hA 153 1.20e+01 b.122.1.1,d.17.6.2 96042,96043 2fp8A 322 1.21e+01 1kl9A 182 1.21e+01 b.40.4.5 72681 1qsvA 101 1.29e+01 1fltX b.1.1.4 21771 1ofdA 1520 1.37e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1llwA 1520 1.47e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1bteA 97 1.54e+01 1bteA g.7.1.3 44463 2d9rA 104 1.55e+01 1air 353 1.56e+01 1air b.80.1.1 28018 2pec 353 1.56e+01 1air b.80.1.1 28019 2fcbA 173 1.61e+01 2fcbA b.1.1.4,b.1.1.4 21781,21782 1o88A 353 1.62e+01 b.80.1.1 81178 1f0lA 535 1.67e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1ydxA 406 1.74e+01 1zvnA 99 1.74e+01 1tvxB 75 1.75e+01 1tvxA d.9.1.1 37442 1tvxA 75 1.77e+01 1tvxA d.9.1.1 37441 1vs0A 310 1.82e+01 1napA 70 1.87e+01 1tvxA d.9.1.1 37445 1iz6A 138 1.97e+01 b.34.5.2,b.40.4.5 76976,76977 1plfA 72 1.98e+01 1tvxA d.9.1.1 37373 1qh0A 295 2.01e+01 b.43.4.2,c.25.1.1 68891,68892 2bsaA 303 2.26e+01 1xcrA 316 2.27e+01 1b2rA 304 2.30e+01 1fnc b.43.4.2,c.25.1.1 25648,31538 1w34A 304 2.30e+01 1dl5A 317 2.33e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1e5gA 120 2.40e+01 1e5gA g.18.1.1,g.18.1.1 44843,44844 1que 303 2.43e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1fltX 95 2.46e+01 1fltX b.1.1.4 21765 1fltY 95 2.47e+01 1fltX b.1.1.4 21766 1qtyT 101 2.51e+01 1fltX b.1.1.4 21769 1upsA 420 2.61e+01 1vajA 214 2.72e+01 1pydA 556 2.76e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 7ahlA 293 2.77e+01 7ahlA f.6.1.1 43812 1ogiA 303 2.81e+01 b.43.4.2,c.25.1.1 92914,92915 1dbiA 280 2.82e+01 1gci c.41.1.1 32543 1ynpA 317 2.82e+01 1go2A 304 2.85e+01 b.43.4.2,c.25.1.1 76243,76244 1bh6A 274 2.86e+01 1gci c.41.1.1 32487 1xmbA 418 2.86e+01 1ivyA 452 2.87e+01 1ivyA c.69.1.5 34654 2bmwA 304 2.89e+01 1fivA 113 2.94e+01 1fmb b.50.1.1 26764 4fiv 113 2.94e+01 1fmb b.50.1.1 26762 2bf5A 98 3.01e+01 1k3sA 113 3.05e+01 d.198.1.1 68120 2bneA 241 3.06e+01 3fivA 116 3.10e+01 1fmb b.50.1.1 26768 2fivA 116 3.10e+01 1fmb b.50.1.1 26766 2bnfB 241 3.15e+01 1te7A 103 3.33e+01 2ch8A 201 3.43e+01 1xsqA 168 3.45e+01 1dik 874 3.60e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1oq1A 223 3.70e+01 b.29.1.17 93408 1guaA 167 3.73e+01 1ctqA c.37.1.8 32013 1amx 180 3.81e+01 1amx b.2.3.1 22410 1svy 114 3.85e+01 1svy d.109.1.1 40831 2ahjB 212 3.94e+01 2ahjB b.34.4.4 24599 1mfn 185 3.97e+01 1qr4B b.1.2.1,b.1.2.1 21984,21985 1g0u1 266 3.98e+01 1ahjB 212 3.98e+01 2ahjB b.34.4.4 24601 1lm8V 160 4.02e+01 b.3.3.1 74035 1lqbC 162 4.03e+01 b.3.3.1 74186 1y6zA 263 4.26e+01 1dmr 823 4.40e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 1h6zA 913 4.44e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1vcbC 160 4.53e+01 1vcbC b.3.3.1 22535 2cz1B 212 4.57e+01 1ea0A 1479 4.66e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1hn4A 131 4.67e+01 a.133.1.2 65893 1ox3A 109 4.70e+01 h.1.17.1 93668 2napA 723 4.78e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1kao 167 4.82e+01 1ctqA c.37.1.8 32014 1yu6A 275 4.92e+01 1e8nA 710 5.05e+01 1qfmA b.69.7.1,c.69.1.4 27675,34643 1zoiA 276 5.17e+01 1pn0A 665 5.22e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1r6xA 395 5.26e+01 b.122.1.3,c.26.1.5 97167,97168 2be1A 339 5.26e+01 2cwpA 112 5.36e+01 1yzyA 413 5.69e+01 2bjfA 329 5.78e+01 1fjsA 234 5.84e+01 1ucyE b.47.1.2 26336 1thqA 170 5.99e+01 f.4.1.2 106920 1gpr 162 6.00e+01 1gpr b.84.3.1 28267 1lbvA 252 6.17e+01 e.7.1.1 73813 1hkhA 279 6.23e+01 c.69.1.12 90628 1ryp2 233 6.25e+01 1ryp2 1mgsA 73 6.34e+01 1tvxA d.9.1.1 37389 1s21A 206 6.50e+01 d.166.1.4 105222 1il8A 72 6.70e+01 1tvxA d.9.1.1 37365 3il8 72 6.70e+01 1tvxA d.9.1.1 37356 1avt 274 6.71e+01 1gci c.41.1.1 32488 1r0rE 274 6.71e+01 c.41.1.1 96735 1lrwA 600 6.79e+01 b.70.1.1 91111 1lcl 142 6.98e+01 1lcl b.29.1.3 24216 1yleA 342 7.01e+01 1uj6A 227 7.11e+01 c.124.1.4,d.58.40.1 107898,107899 1m6nA 802 7.23e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 1wgvA 124 7.29e+01 821p 166 7.37e+01 1ctqA c.37.1.8 31969 1hcgA 241 7.43e+01 5ptp b.47.1.2 26341 1qpbA 563 7.44e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 1jsdA 319 7.56e+01 b.19.1.2 63258 1qavB 115 7.59e+01 1qauA b.36.1.1 24780 1a14H 120 7.68e+01 1mfa b.1.1.1 20061 1lgyA 269 7.76e+01 3tgl c.69.1.17 34758 1yfuA 174 8.00e+01 1lgpA 116 8.01e+01 b.26.1.2 73890 1rylA 167 8.01e+01 d.276.1.1 105124 1g2lA 235 8.07e+01 b.47.1.2 65112 1a88A 275 8.13e+01 1brt c.69.1.12 34707 1mjuH 227 8.36e+01 b.1.1.1,b.1.1.2 91302,91303 1zkpA 268 8.38e+01 2bokA 241 8.40e+01 1smrA 335 8.46e+01 1smrA b.50.1.2 26878 1luzA 88 8.53e+01 b.40.4.5 74271 2a19A 175 8.77e+01 1n13B 113 8.80e+01 1hdkA 141 8.88e+01 b.29.1.3 65807 1g86A 142 8.90e+01 b.29.1.3 70161 1xu9A 286 8.96e+01