# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1rypL 212 5.76e-01 d.153.1.4 41880 1g65K 211 9.65e-01 d.153.1.4 41907 1nf2A 268 1.72e+00 c.108.1.10 -6842 1ebfA 358 2.34e+00 1ebuA c.2.1.3 30033 d.81.1.2 39948 1ebuA 358 2.43e+00 1ebuA c.2.1.3 30035 d.81.1.2 39950 1geqA 248 3.12e+00 2tysA c.1.2.4 28589 1dw9A 156 4.22e+00 1dw9A a.35.1.4 17065 d.72.1.1 39596 1cd8 114 4.41e+00 1cd8 b.1.1.1 19714 1dwkA 156 5.16e+00 1dw9A a.35.1.4 17075 d.72.1.1 39606 1lz1 130 6.05e+00 3lzt d.2.1.2 36415 1jsf 130 6.50e+00 3lzt d.2.1.2 36410 1lmt 136 6.86e+00 3lzt d.2.1.2 36416 2tysA 268 7.06e+00 2tysA c.1.2.4 28572 1gn0A 108 7.74e+00 c.46.1.3 65358 1m0dA 138 8.47e+00 c.52.1.17 74354 1gmxA 108 8.71e+00 c.46.1.3 65355 1nbaA 264 8.74e+00 1nbaA unknown_sccs 31753 1bksA 268 9.33e+00 2tysA c.1.2.4 28585 1fzrA 138 1.03e+01 1fzrA c.52.1.17 33336 1upaA 573 1.06e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 2scuB 388 1.10e+01 2scuB c.23.4.1 31141 d.142.1.4 41562 3cla 213 1.15e+01 3cla c.43.1.1 32610 1qftA 175 1.19e+01 1qftA b.60.1.1 27151 1quqB 121 1.22e+01 1quqB b.40.4.3 25305 1s3iA 310 1.31e+01 b.46.1.1 -4111 c.65.1.1 -8042 1n3bA 216 1.32e+01 c.37.1.1 79959 1o0wA 252 1.35e+01 a.149.1.1 80751 d.50.1.1 80752 1dv2A 452 1.37e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1thfD 253 1.55e+01 1thfD c.1.2.1 28535 1pvtA 238 1.62e+01 c.74.1.1 -8444 1vhtA 218 1.63e+01 c.37.1.1 -7004 1qntA 176 1.65e+01 1sfe a.4.2.1 16074 c.55.7.1 33749 1qopA 268 1.66e+01 2tysA c.1.2.4 28570 1vh7A 265 1.70e+01 c.1.2.1 -5159 1kutA 230 1.73e+01 d.143.1.1 73017 1ka2A 499 1.74e+01 d.92.1.5 77305 1vizA 240 1.76e+01 c.1.4.1 -5212 1oywA 523 1.79e+01 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1nar 290 1.93e+01 1nar c.1.8.5 28988 1q6oA 216 1.95e+01 c.1.2.3 -5162 1ju5A 109 1.96e+01 d.93.1.1 77173 1eh7A 207 2.01e+01 1sfe a.4.2.1 16075 c.55.7.1 33750 2ihl 129 2.02e+01 3lzt d.2.1.2 36408 1eh8A 207 2.10e+01 1sfe a.4.2.1 16077 c.55.7.1 33752 1hg3A 225 2.12e+01 1hg3A c.1.1.1 61025 1ng2A 193 2.13e+01 b.34.2.1 85660 b.34.2.1 85661 1qbhA 101 2.20e+01 1g3fA g.52.1.1 45374 1pu6A 218 2.25e+01 unknown_sccs -1282 1kv8A 216 2.39e+01 c.1.2.3 73054 5lyz 129 2.43e+01 3lzt d.2.1.2 36289 1mvoA 136 2.47e+01 c.23.1.1 79513 1hfx 123 2.51e+01 3lzt d.2.1.2 36600 1giqA 413 2.51e+01 d.166.1.1 76224 d.166.1.1 76225 1lmq 129 2.58e+01 3lzt d.2.1.2 36588 1q1aA 289 2.61e+01 c.31.1.5 -6781 1iyxA 432 2.63e+01 c.1.11.1 83815 d.54.1.1 83816 1qamA 244 2.65e+01 2ercA c.66.1.24 34220 1jscA 630 2.77e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 3lzt 129 2.79e+01 3lzt d.2.1.2 36245 1iz0A 302 2.79e+01 b.35.1.2 83821 c.2.1.1 83822 193l 129 2.94e+01 3lzt d.2.1.2 36247 1q1rA 431 2.95e+01 c.3.1.5 -6048 c.3.1.5 -6049 d.87.1.1 -10502 1lu4A 136 3.06e+01 c.47.1.10 -7509 1jmvA 141 3.17e+01 c.26.2.4 66897 1mjnA 179 3.17e+01 c.62.1.1 79210 1iyjB 817 3.20e+01 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1jug 125 3.20e+01 3lzt d.2.1.2 36587 1rvgA 305 3.26e+01 c.1.10.2 -5500 1kid 203 3.28e+01 1derA c.8.5.1 30771 2ercA 244 3.46e+01 2ercA c.66.1.24 34224 1eh6A 207 3.51e+01 1sfe a.4.2.1 16076 c.55.7.1 33751 1b47A 304 3.55e+01 2cblA a.39.1.7 17381 a.48.1.1 17775 d.93.1.1 40529 1sviA 195 3.62e+01 1odoA 408 3.67e+01 a.104.1.1 -1463 1cjaA 342 3.73e+01 1cjaA d.144.1.3 41708 1eq6A 189 3.76e+01 1eq6A d.107.1.1 40796