# 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 2ah5A 210 4.69e-03 1j57A 143 1.79e-01 d.221.1.1 77079 1g8fA 511 6.37e-01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1sf8A 126 8.12e-01 d.271.1.1 105472 2aorA 223 9.80e-01 2a5vA 213 1.40e+00 1ym3A 215 1.41e+00 1xaa 345 1.99e+00 1cnzA c.77.1.1 35033 1kepA 348 2.24e+00 c.2.1.2 68536 1bd3A 243 2.43e+00 1bd3A c.61.1.1 34098 1ipd 345 3.01e+00 1cnzA c.77.1.1 35038 2f2eA 146 3.01e+00 1idm 343 3.29e+00 1cnzA c.77.1.1 35035 1i6uA 130 3.65e+00 d.140.1.1 61850 1dr8B 344 3.82e+00 1cnzA c.77.1.1 35052 1vheA 373 4.14e+00 b.49.3.1,c.56.5.4 100669,100670 1bhdA 118 4.25e+00 1bkrA a.40.1.1 17398 1r6wA 322 4.47e+00 c.1.11.2,d.54.1.1 97165,97166 1s1eA 224 5.00e+00 1fhvA 323 5.16e+00 1fhuA c.1.11.2,d.54.1.1 29235,38879 1hyp 80 6.46e+00 1hyp a.52.1.1 17806 1wteA 272 7.19e+00 1ihoA 283 7.25e+00 1ihoA c.26.1.4 62390 2grrB 170 7.48e+00 1i69A 219 8.12e+00 c.94.1.1 61825 2bmjA 178 8.13e+00 1oc2A 348 9.09e+00 c.2.1.2 92765 1qf9A 194 9.20e+00 1zin c.37.1.1 31848 1byuA 216 9.42e+00 1byuA c.37.1.8 32032 1fhuA 320 9.43e+00 1fhuA c.1.11.2,d.54.1.1 29234,38878 5ukdA 194 9.47e+00 1zin c.37.1.1 31851 2atvA 196 9.81e+00 1t5oA 351 9.95e+00 c.124.1.5 106459 1tf5A 844 1.08e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1vhqA 232 1.11e+01 c.23.16.2 100696 1e15A 499 1.12e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 27810,29006,38440 1nq6A 302 1.17e+01 c.1.8.3 92046 1o0xA 262 1.25e+01 d.127.1.1 80755 1n82A 331 1.28e+01 c.1.8.3 91703 1oy1A 228 1.31e+01 c.23.16.2 87548 2czdA 208 1.32e+01 1qagA 226 1.33e+01 1qagA a.40.1.1,a.40.1.1 17400,17401 1i6aA 219 1.45e+01 c.94.1.1 61827 1bde 35 1.49e+01 1bde j.11.1.1 46142 1r0dA 206 1.50e+01 a.216.1.1 104715 1goiA 499 1.52e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1mo9A 523 1.62e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1oaoA 674 1.64e+01 e.26.1.2 86744 1ml4A 308 1.65e+01 c.78.1.1,c.78.1.1 79255,79256 1gfsA 321 1.66e+01 c.2.1.2 29811 1h1nA 305 1.71e+01 c.1.8.3 70855 1gzsB 165 1.82e+01 a.168.1.1 76425 1big 37 1.84e+01 1sco g.3.7.2 44145 1jnyA 435 1.87e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1bsvA 321 1.90e+01 1bsvA c.2.1.2 29809 1a59 378 1.91e+01 1aj8A a.103.1.1 18902 1mroB 442 1.92e+01 1mroB a.89.1.1,d.58.31.2 18531,39449 1hbnB 442 1.97e+01 1mroB a.89.1.1,d.58.31.2 60900,60901 1rh6A 55 1.98e+01 a.6.1.7 104935 1m6nA 802 2.00e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 78697,78698,78699,78700 1e6pA 499 2.00e+01 1e15A b.72.2.1,c.1.8.5,d.26.3.1 59314,59315,59316 2b8eA 273 2.07e+01 1wa3A 205 2.09e+01 1e7rA 321 2.13e+01 1bsvA c.2.1.2 29808 1xhlA 297 2.13e+01 c.2.1.2 109591 1cfe 135 2.14e+01 1cfe d.111.1.1 40913 1qazA 351 2.22e+01 1qazA a.102.3.1 18848 1hvc 203 2.24e+01 1hvc b.50.1.1 26614 1cpcB 172 2.39e+01 1qgwC a.1.1.3 15644 2g7lA 243 2.40e+01 1cpcL 172 2.45e+01 1qgwC a.1.1.3 15646 1devC 196 2.53e+01 1ygs b.26.1.1 23915 1k4zA 159 2.56e+01 b.80.5.1 72070 1khxA 227 2.60e+01 b.26.1.1 68631 1kbuA 349 2.69e+01 a.60.9.1,d.163.1.1 72284,72285 1eexA 554 2.84e+01 1dioA c.1.19.3 29650 1ad4A 266 3.14e+01 1aj2 c.1.21.1 29670 2abqA 306 3.16e+01 1lxdA 100 3.16e+01 1lfdA d.15.1.5 37624 1bsg 266 3.16e+01 1btl e.3.1.1 42729 1r0mA 375 3.18e+01 c.1.11.2,d.54.1.1 104747,104748 1e19A 314 3.26e+01 1b7bA c.73.1.1 34967 1kq5A 159 3.31e+01 b.80.5.1 68795 1ezwA 349 3.34e+01 1ezwA c.1.16.3 29558 1ygtA 111 3.41e+01 1tjyA 316 3.52e+01 c.93.1.1 107062 1eerA 166 3.60e+01 1eerA a.26.1.2 16846 1bwsA 321 3.69e+01 1bsvA c.2.1.2 29812 2af8 86 3.70e+01 2af8 a.28.1.1 16933 1buyA 166 3.70e+01 1eerA a.26.1.2 16848 2amhA 207 3.74e+01 1e6uA 321 3.77e+01 1bsvA c.2.1.2 29805 1cn4C 166 3.80e+01 1eerA a.26.1.2 16847 1tc5A 194 3.86e+01 c.110.1.1 106752 1dusA 194 3.95e+01 1dusA c.66.1.4 34182 1l9xA 315 4.03e+01 c.23.16.1 73762 1e6yB 433 4.09e+01 1mroB a.89.1.1,d.58.31.2 18535,39453 1lfdA 87 4.17e+01 1lfdA d.15.1.5 37622 1fs1B 141 4.38e+01 1vcbB a.157.1.1,d.42.1.1 19252,38664 2fokA 579 4.40e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1rhd 293 4.43e+01 1rhs c.46.1.2,c.46.1.2 32715,32716 1lx8A 55 4.54e+01 a.6.1.7 84734 1dioA 554 4.55e+01 1dioA c.1.19.3 29656 1mlg 154 4.61e+01 1a6m a.1.1.2 15104 1aa7A 158 4.68e+01 1aa7A a.95.1.1 18741 1xreA 217 4.77e+01 1gqnA 252 4.91e+01 c.1.10.1 90514 5hvpA 99 4.93e+01 1fmb b.50.1.1 26605 1pu6A 218 4.98e+01 a.96.1.5 95123 1a05A 358 4.98e+01 1cnzA c.77.1.1 35059 1o63A 219 5.03e+01 c.94.1.1 92540 1b3bA 415 5.11e+01 1hwyA c.2.1.7,c.58.1.1 30244,33892 1elrA 131 5.13e+01 1a17 a.118.8.1 19209 1sw5B 275 5.26e+01 c.94.1.1 106070 1crxA 322 5.27e+01 4crxA a.60.9.1,d.163.1.1 18097,42157 1cm7A 363 5.28e+01 1cnzA c.77.1.1 35063 1dwtA 153 5.30e+01 1a6m a.1.1.2 15190 1vsgA 364 5.33e+01 1vsgA h.4.1.1 45782 1mll 154 5.43e+01 1a6m a.1.1.2 15057 1pm6A 72 5.46e+01 a.6.1.7 94894 1vf1A 229 5.46e+01 1mlo 154 5.63e+01 1a6m a.1.1.2 15085 1b7yA 350 5.69e+01 1pysA d.104.1.1 40776 1bzpA 153 5.70e+01 1a6m a.1.1.2 15020 2cwcA 303 5.74e+01 1mbd 153 5.77e+01 1a6m a.1.1.2 15033 1vlwA 217 5.92e+01 c.1.10.1 108868 1rhs 296 6.14e+01 1rhs c.46.1.2,c.46.1.2 32703,32704 1yb5A 351 6.14e+01 1ujqA 305 6.25e+01 c.1.12.7 99463 2f7tA 227 6.40e+01 1ea3A 164 6.40e+01 1aa7A a.95.1.1 59398 1bah 37 6.73e+01 1cmr g.3.7.2 44154 1pfkA 320 6.95e+01 3pfk c.89.1.1 35575 1tw7A 99 6.95e+01 1g6hA 257 7.02e+01 1gajA c.37.1.12 60318 2fnaA 357 7.22e+01 2cfaA 217 7.28e+01 1sw5A 275 7.35e+01 c.94.1.1 106069 1b43A 340 7.40e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1ecrA 309 7.42e+01 1ecrA e.2.1.1 42678 1v2zA 111 7.48e+01 a.186.1.1 108300 1a6g 151 7.50e+01 1a6m a.1.1.2 15021 1c55A 40 7.52e+01 1sco g.3.7.2 44158 1fokA 568 7.78e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16137,16138,16139,33325 1raxA 115 8.02e+01 1lfdA d.15.1.5 37626 1e3yA 104 8.14e+01 1fadA a.77.1.2 18426 1v7rA 186 8.26e+01 c.51.4.1 100482 1vpdA 299 8.28e+01 1ck2A 104 8.29e+01 1ck9A d.79.3.1 39809 1umgA 362 8.30e+01 d.280.1.1 107956 1c4xA 285 8.52e+01 1c4xA c.69.1.10 34684 1ci9A 392 8.70e+01 e.3.1.1 64767 1ztdA 133 8.75e+01 1mq4A 272 8.76e+01 d.144.1.7 91391 1w9gA 104 8.82e+01 1odkA 235 8.82e+01 c.56.2.1 86863 1izmA 184 8.83e+01 a.199.1.1 90725 1mod 154 8.89e+01 1a6m a.1.1.2 15107