# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1vjkA 98 2.79e-02 d.15.3.1 108631 1xlqA 106 6.70e-01 1oqqA 106 9.19e-01 d.15.4.1 93422 1rwsA 77 9.66e-01 d.15.3.2 97991 1jenA 267 1.16e+00 1jenA 1put 106 1.18e+00 1ayfA d.15.4.1 37680 1fmaD 81 1.40e+00 1fmaD d.15.3.1 37643 1frrA 95 1.74e+00 1awd d.15.4.1 37674 1fm0D 81 1.83e+00 1fmaD d.15.3.1 37642 1jl0A 334 3.21e+00 1jenA d.156.1.1 63155 1ekeA 230 3.91e+00 1ekeA c.55.3.1 33572 1zkcA 197 4.09e+00 1vckA 115 4.18e+00 2f4pA 147 4.70e+00 1ivzA 132 5.57e+00 d.58.41.1 76863 1qu5A 182 6.93e+00 1qu5A b.26.1.2 23922 1r8eA 278 7.16e+00 a.6.1.3,d.60.1.1 104843,104844 1uwmA 106 7.51e+00 1b9rA 105 9.50e+00 1ayfA d.15.4.1 37683 1e9mA 106 9.57e+00 1ayfA d.15.4.1 59397 2fcr 173 1.03e+01 1rcf c.23.5.1 31151 2bb6A 414 1.07e+01 1l7yA 94 1.21e+01 d.15.1.6 73676 1jmoA 480 1.30e+01 e.1.1.1 77138 1hq3C 136 1.37e+01 1aoiA a.22.1.1 16454 1tzyC 136 1.37e+01 a.22.1.1 107532 2nllB 103 1.43e+01 2nllB g.39.1.2 45115 1meqA 23 1.44e+01 j.53.1.1 79036 1xw2A 405 1.50e+01 1bwx 39 1.51e+01 1bwx j.15.1.1 46155 1t5eA 360 1.70e+01 f.46.1.1 106436 1zwe 34 1.71e+01 1hph j.15.1.1 46160 1hph 37 1.71e+01 1hph j.15.1.1 46159 1zwd 35 1.71e+01 j.15.1.1 46164 1ryjA 70 1.74e+01 d.15.3.2 98104 1san 62 1.76e+01 2hddA a.4.1.1 16008 1h12A 405 1.81e+01 a.102.1.2 83447 1df3A 162 1.84e+01 1mup b.60.1.1 27134 1aie 31 1.88e+01 1aie a.53.1.1 17829 1xwtA 405 1.88e+01 1et1A 34 1.90e+01 1hpy j.15.1.1 46152 1hpy 34 1.90e+01 1hpy j.15.1.1 46161 1i06A 180 1.90e+01 1mup b.60.1.1 27131 2f49C 30 1.91e+01 1cjaA 342 1.95e+01 1cjaA d.144.1.3 41708 1k47A 337 2.07e+01 d.14.1.5,d.58.26.4 72040,72041 1i05A 180 2.17e+01 1mup b.60.1.1 27130 1olgA 42 2.19e+01 1olgA a.53.1.1 17835 1befA 181 2.26e+01 1befA b.47.1.3 26419 1df9A 191 2.27e+01 1befA b.47.1.3 26420 1zwb 36 2.28e+01 j.15.1.1 46165 2bkdN 134 2.28e+01 1jv4A 162 2.34e+01 b.60.1.1 67343 2d0tA 406 2.38e+01 2bkkA 264 2.38e+01 1zwf 35 2.48e+01 j.15.1.1 46156 1zupA 315 2.63e+01 1qy1A 174 2.67e+01 b.60.1.1 96568 2cu3A 64 2.74e+01 1zwa 34 2.75e+01 j.15.1.1 46162 1zwc 37 2.82e+01 j.15.1.1 46167 1nglA 179 3.00e+01 1nglA b.60.1.1 27146 1mup 166 3.02e+01 1mup b.60.1.1 27133 2bpsA 81 3.03e+01 1zvtA 256 3.06e+01 1ahdP 68 3.09e+01 2hddA a.4.1.1 16006 2fcfA 103 3.11e+01 1wgrA 100 3.17e+01 1gnyA 153 3.26e+01 b.18.1.11 65404 1gp8A 40 3.54e+01 2gp8A j.58.1.1 46342 1fvyA 31 3.56e+01 1fvyA j.15.1.1 46157 2gp8A 40 3.57e+01 2gp8A j.58.1.1 46343 2bbvA 363 3.62e+01 2bbvA b.121.4.4 23323 1hf2A 210 3.74e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1iieA 75 3.77e+01 1iieA a.109.1.1 19039 1p99A 295 3.79e+01 c.94.1.1 94384 1hom 68 3.87e+01 2hddA a.4.1.1 16007 2bbrA 195 4.00e+01 1qmvA 197 4.05e+01 1qq2A c.47.1.10 33066 1c8oA 300 4.39e+01 1c8oA e.1.1.1 42677 1de3A 150 4.76e+01 1aqzA d.1.1.3 36240 1vfjA 116 4.79e+01 1zndA 174 4.81e+01 1k07A 263 4.89e+01 d.157.1.1 77218 1dmhA 311 4.97e+01 1dmhA b.3.6.1 22633 1ok0A 74 5.01e+01 b.5.1.1 93191 1j6wA 175 5.01e+01 1j98A d.185.1.2 62663 1vzyA 291 5.01e+01 2f1sA 186 5.05e+01 1seiA 130 5.19e+01 1seiA d.140.1.1 41463 2furA 209 5.26e+01 1uptC 170 5.27e+01 c.37.1.8 99769 1ihfB 94 5.42e+01 1huuA a.55.1.1 17894 1r4aA 165 5.45e+01 c.37.1.8 96986 1vybA 238 5.54e+01 d.151.1.1 108897 1gnxA 479 5.68e+01 c.1.8.4 76241 2dafA 118 5.73e+01 1r4yA 136 5.78e+01 d.1.1.3 97056 1vf7A 369 5.82e+01 f.46.1.1 108557 3hmgA 328 5.85e+01 1hgeA b.19.1.2 23825 2bwfA 77 5.97e+01 1afqC 96 6.06e+01 5ptp 1b72A 97 6.09e+01 2hddA a.4.1.1 16000 1tzvA 142 6.23e+01 a.79.1.1 107526 1pyiA 96 6.25e+01 1pyiA g.38.1.1,h.1.3.1 45079,45512 1yqfA 203 6.35e+01 1o5oA 221 6.39e+01 c.61.1.1 92509 2bbvC 363 6.58e+01 2bbvA b.121.4.4 23325 1gg6C 97 6.61e+01 5ptp 1ab9C 97 6.65e+01 5ptp 1jb3A 131 6.67e+01 1jc7A b.40.3.2 62833 1n7sC 79 6.67e+01 h.1.15.1 80273 1uptA 171 6.82e+01 c.37.1.8 99767 1sfcC 83 6.85e+01 1sfcC h.1.15.1 45645 1wwkA 307 6.87e+01 2axtI 38 6.92e+01 1zt3A 80 6.98e+01 1yphE 97 6.99e+01 1qhhA 167 7.10e+01 1pjr c.37.1.19 32393 1ucyE 109 7.23e+01 1ucyE 1r5lA 262 7.23e+01 a.5.3.1,c.13.1.1 97099,97100 1dupA 152 7.26e+01 1dupA b.85.4.1 28351 2fox 138 7.38e+01 5nul c.23.5.1 31197 1e5mA 416 7.61e+01 1dd8A c.95.1.1,c.95.1.1 58973,58974 1xe1A 116 7.74e+01 b.43.3.1 109571 1h9jA 145 7.75e+01 1h9jA b.40.6.2,b.40.6.2 60829,60830 2rgf 97 7.76e+01 1lfdA d.15.1.5 37627 1une 123 7.77e+01 1poa a.133.1.2 19583 1scuA 288 7.81e+01 2scuA c.2.1.8,c.23.4.1 30307,31135 1euwA 152 7.90e+01 1dupA b.85.4.1 28349 2ait 74 7.99e+01 1hoe b.5.1.1 22837 1s5lI 38 8.09e+01 2b7aA 293 8.18e+01 1dgzA 37 8.29e+01 1dfeA g.42.1.1 45319 1mku 123 8.31e+01 1poa a.133.1.2 19590 1u02A 239 8.38e+01 c.108.1.15 107538 1uzkA 162 8.40e+01 1jidA 128 8.46e+01 d.201.1.1 66735 1aqzA 149 8.48e+01 1aqzA d.1.1.3 36238 1v64A 108 8.49e+01 a.21.1.1 108392 4gatA 66 8.56e+01 1gatA g.39.1.1 45100 1dy9A 187 8.67e+01 1jxpA b.47.1.3 26400 1j8bA 112 8.83e+01 d.222.1.1 77101 4bp2 130 8.89e+01 1poa a.133.1.2 19584 1uasA 362 8.91e+01 b.71.1.1,c.1.8.1 88388,88389 1mtnC 97 8.91e+01 5ptp 1gq8A 319 8.91e+01 b.80.1.5 70350 1rdr 461 8.98e+01 1rdr e.8.1.4 43116