# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1rz1A 161 1.16e-27 b.45.1.2 -4088 1i0rA 169 4.62e-21 1i0rA b.45.1.2 61489 1i0sA 169 4.62e-21 1i0rA b.45.1.2 61491 1uscA 178 6.90e-21 b.45.1.2 -4074 1ejeA 192 2.70e-20 1ejeA b.45.1.2 25757 1p7gA 222 1.02e+00 a.2.11.1 -108 d.44.1.1 -9742 1ne2A 200 1.06e+00 c.66.1.32 85586 1fhgA 154 1.14e+00 1tlk b.1.1.4 21706 1axj 122 1.20e+00 1axj b.45.1.1 25749 1p6oA 161 1.28e+00 c.97.1.2 -8774 1tlk 154 1.46e+00 1tlk b.1.1.4 21707 1flmA 122 1.60e+00 1axj b.45.1.1 25747 1uaqA 158 1.65e+00 c.97.1.2 88386 1rxxA 421 2.27e+00 unknown_sccs -10982 1pda 315 3.90e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1fthA 122 4.18e+00 d.150.1.2 60028 1h6hA 143 5.35e+00 d.189.1.1 65681 1f7lA 121 7.60e+00 1f7lA d.150.1.2 59666 1r9hA 135 8.04e+00 d.26.1.1 -9482 1cjsA 219 8.05e+00 1cjsA e.24.1.1 43354 1k6dA 220 9.56e+00 unknown_sccs 72082 1et7A 341 9.64e+00 1nif b.6.1.3 23070 b.6.1.3 23071 1qynA 153 1.02e+01 d.33.1.1 -9585 1gr3A 160 1.04e+01 b.22.1.1 65476 1d1gA 168 1.05e+01 1d1gA c.71.1.1 34889 1ltoA 245 1.06e+01 b.47.1.2 84707 1i3cA 149 1.10e+01 c.23.1.1 71112 1fx3B 169 1.13e+01 1fx3B d.33.1.1 38525 1i2aA 219 1.21e+01 e.24.1.1 -12012 1i58A 189 1.21e+01 1b3qA d.122.1.3 61773 1havA 217 1.38e+01 1havA b.47.1.4 26423 1cz3A 168 1.43e+01 1d1gA c.71.1.1 34891 1bv1 159 1.52e+01 1bv1 d.129.3.1 41313 2polA 366 1.59e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1kyfA 247 1.60e+01 b.1.10.1 73220 d.105.1.1 73221 1b1cA 181 1.61e+01 1amoA c.23.5.2 31212 1ecpA 238 1.64e+01 1ecpA c.56.2.1 33775 1qtsA 247 1.66e+01 1qtsA b.1.10.1 22313 d.105.1.1 40789 1k9sA 237 1.68e+01 c.56.2.1 68359 1kwmA 402 1.68e+01 c.56.5.1 73079 d.58.3.1 73080 1fc6A 388 1.72e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1l6oA 95 1.82e+01 b.36.1.1 84534 1smvA 260 1.86e+01 1smvA b.121.4.7 23288 1qhfA 240 1.88e+01 1qhfA c.60.1.1 33960 1nktA 922 1.89e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1ru8A 232 1.93e+01 c.26.2.1 -6635 1qmrA 159 1.97e+01 1bv1 d.129.3.1 41314 1ri6A 343 2.00e+01 unknown_sccs -4621 1dapA 320 2.08e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1f06A 320 2.08e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1zpdA 568 2.13e+01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1p0kA 349 2.14e+01 c.1.4.1 87648 1fm4A 159 2.22e+01 1bv1 d.129.3.1 76186 1eqkA 102 2.40e+01 1eqkA d.17.1.2 37998 1hywA 68 2.42e+01 1hywA d.186.1.1 61425 1kveB 77 2.43e+01 1kveB 1j9qA 341 2.55e+01 1nif b.6.1.3 62765 b.6.1.3 62766 1as8A 343 2.55e+01 1nif b.6.1.3 23074 b.6.1.3 23075 1o91A 178 2.56e+01 b.22.1.1 -3282 1ezvA 430 2.59e+01 1be3A d.185.1.1 59541 d.185.1.1 59542 3dapA 320 2.63e+01 1dapA c.2.1.3 30051 d.81.1.3 39966 1fztA 211 2.64e+01 1qhfA c.60.1.1 60158 1yts 278 2.69e+01 1ytw c.45.1.2 32690 1vcaA 202 2.76e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1bq3B 246 2.76e+01 1qhfA c.60.1.1 33979 1kb5A 115 2.77e+01 1tvdA b.1.1.1 20611 1kb9A 431 2.78e+01 d.185.1.1 77311 d.185.1.1 77312 1jjiA 311 2.81e+01 c.69.1.2 66766 1j8hD 212 3.03e+01 b.1.1.1 71606 b.1.1.2 71607 1snrA 341 3.14e+01 1ig8A 486 3.20e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1izcA 339 3.22e+01 c.1.12.5 83838 1et9A 204 3.22e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1ass 159 3.33e+01 1a6dA c.8.5.2 30818 1kvdB 77 3.33e+01 1kveB 1ndoB 194 3.42e+01 1ndoB d.17.4.4 38121 1n7eA 97 3.48e+01 b.36.1.1 -3745 1dnlA 199 3.64e+01 1ci0A b.45.1.1 25753 1l4sA 112 3.71e+01 d.204.1.1 77693 2izgB 123 3.72e+01 1swuA b.61.1.1 27236 2izhB 123 3.78e+01 1swuA b.61.1.1 27234 1ytn 306 3.81e+01 1ytw c.45.1.2 32688 1v5xA 203 3.88e+01 c.1.2.4 -5169 2bpa1 426 3.92e+01 2bpa1 1ih7A 903 3.98e+01 1clqA c.55.3.5 62375 e.8.1.1 62376