# 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 1on0A 158 1.71e+00 d.108.1.1 87095 1ufhA 180 3.98e+00 d.108.1.1 88485 1p5hA 428 5.86e+00 c.123.1.1 87802 1ky3A 182 5.86e+00 c.37.1.8 73193 1r8oA 96 6.77e+00 1fy7A 278 7.07e+00 1fy7A d.108.1.1 40817 1gd5A 130 7.13e+00 1gd5A d.189.1.1 60439 1nykA 165 8.68e+00 b.33.1.1 86408 1o7kA 131 8.79e+00 d.189.1.1 81144 1k42A 168 8.90e+00 b.18.1.14 72032 1ekfA 365 9.56e+00 1ekfA e.17.1.1 59445 1kq6A 141 9.98e+00 d.189.1.1 -9926 1shaA 104 1.13e+01 1fmk d.93.1.1 40424 1f2fA 104 1.15e+01 1fmk d.93.1.1 40455 1bpv 112 1.16e+01 1bpv b.1.2.1 22071 1f15A 218 1.25e+01 1f15B b.121.4.5 23320 1shbA 104 1.26e+01 1fmk d.93.1.1 40425 1avaC 181 1.44e+01 1avaC b.42.4.1 25604 1o4rA 108 1.57e+01 d.93.1.1 -10624 1d2qA 173 1.58e+01 1d4vB b.22.1.1 23894 1oaoC 729 1.67e+01 e.26.1.3 86746 1egiA 147 1.70e+01 1eggA d.169.1.1 42331 1boy 219 1.71e+01 1boy b.1.2.1 21955 b.1.2.1 21956 1odkA 235 1.81e+01 c.56.2.1 86863 2hft 218 1.84e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1i7qA 519 1.95e+01 1qdlA d.161.1.1 61901 1eggA 147 2.01e+01 1eggA d.169.1.1 42333 1gu3A 149 2.06e+01 b.18.1.14 76350 1svb 395 2.08e+01 1svb b.1.18.4 21814 f.10.1.1 43827 1esl 162 2.12e+01 1esl d.169.1.1 42353 g.3.11.1 44225 1d4vB 163 2.18e+01 1d4vB b.22.1.1 23884 1mjgM 729 2.19e+01 e.26.1.3 79204 1g1tA 157 2.30e+01 d.169.1.1 65104 g.3.11.1 65105 1vddA 228 2.34e+01 1nciA 110 2.37e+01 1edhA b.1.6.1 22191 1cby 259 2.41e+01 1cby d.103.1.1 40705 1lcl 142 2.48e+01 1lcl b.29.1.3 24216 1neu 124 2.53e+01 1neu b.1.1.1 19704 1lslA 113 2.56e+01 g.60.1.1 78178 g.60.1.1 78179 1ixmA 192 2.67e+01 1ixmA d.123.1.1 41114 1je5A 206 2.68e+01 1je5A b.40.4.7 62909 1bp3B 211 2.72e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1kdxA 81 2.77e+01 1kdxA a.12.1.1 16375 1i05A 180 2.90e+01 1mup b.60.1.1 27130 1i06A 180 2.99e+01 1mup b.60.1.1 27131 1ncg 110 3.19e+01 1edhA b.1.6.1 22193 1danU 121 3.19e+01 1boy b.1.2.1 21954 1dg6A 191 3.24e+01 1d4vB b.22.1.1 23883 1g86A 142 3.26e+01 b.29.1.3 70161 1repC 251 3.27e+01 1repC a.4.5.10 16125 a.4.5.10 16126 1hdkA 141 3.27e+01 b.29.1.3 65807 1f15B 218 3.28e+01 1f15B b.121.4.5 23321 1txb 73 3.33e+01 1txb g.7.1.1 44455 1qy1A 174 3.44e+01 b.60.1.1 -4445 1lj9A 144 3.50e+01 a.4.5.28 78035 1ktaA 365 3.54e+01 e.17.1.1 77533 1jj2H 167 3.56e+01 1ffkF d.41.4.1 63093 1ntyA 311 3.62e+01 1iznB 277 3.74e+01 e.43.1.2 83848