# 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 1mpgA 282 1.22e-21 1mpgA a.96.1.3,d.129.1.2 18747,41296 1ornA 226 9.05e-21 a.96.1.1 87342 2abk 211 5.71e-20 2abk a.96.1.1 18743 1lwyA 324 4.76e-18 a.96.1.3,d.129.1.2 78285,78286 1ko9A 345 9.85e-18 a.96.1.3,d.129.1.2 68717,68718 1ebmA 317 1.18e-17 1ebmA a.96.1.3,d.129.1.2 18751,41300 1m3qA 317 1.46e-17 a.96.1.3,d.129.1.2 91184,91185 1muyA 225 1.83e-16 1mun a.96.1.2 18745 1mun 225 4.92e-16 1mun a.96.1.2 18744 1keaA 221 1.56e-14 a.96.1.2 68491 1pu6A 218 4.99e-13 a.96.1.5 95123 1ngnA 155 1.19e-06 a.96.1.2 85697 1j8mF 297 2.59e-01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1j8yF 297 2.91e-01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1lmzA 187 1.50e+00 a.96.1.4 74037 1bpyA 335 1.85e+00 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 17980,75819,75820 2fmpA 335 2.33e+00 1tv9A 335 2.51e+00 2fbhA 146 2.85e+00 2ebn 289 3.00e+00 2ebn c.1.8.5 28990 1clxA 347 3.19e+00 1taxA c.1.8.3 28899 1w32A 348 4.92e+00 1yy7A 213 5.20e+00 2bk9A 153 5.69e+00 2a19A 175 6.37e+00 2g9iA 249 7.45e+00 1jsdB 176 8.01e+00 h.3.1.1 63259 2fnuA 375 8.95e+00 1q0sA 259 9.49e+00 c.66.1.28 95509 1qnf 484 1.02e+01 1qnf a.99.1.1,c.28.1.1 18777,31632 1bpe 335 1.02e+01 1bpyA a.60.6.1,a.60.12.1,d.218.1.2 18076,75815,75816 1dc1A 323 1.04e+01 1dc1A c.52.1.11 33321 1owlA 484 1.06e+01 a.99.1.1,c.28.1.1 93647,93648 1e50B 134 1.08e+01 2jhbA b.54.1.1 59245 1pvyA 227 1.26e+01 d.115.1.2 95195 1o20A 427 1.27e+01 c.82.1.1 86556 1snnA 227 1.28e+01 d.115.1.2 105821 2occE 109 1.31e+01 2occE a.118.11.1 19224 4enl 436 1.32e+01 4enl c.1.11.1,d.54.1.1 29202,38846 2g64A 140 1.36e+01 1qghA 156 1.40e+01 1qghA a.25.1.1 16728 1v54E 109 1.42e+01 a.118.11.1 100326 1hjp 203 1.53e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16274,17947,25266 1yf3A 259 1.69e+01 1ma3A 253 1.70e+01 c.31.1.5 78883 1b4pA 217 1.71e+01 a.45.1.1,c.47.1.5 83158,83159 1iomA 377 1.72e+01 a.103.1.1 83698 1bz4A 144 1.79e+01 1nfn a.24.1.1 16521 1c8bA 371 1.80e+01 1c8bA c.56.1.2 59082 1go3F 107 1.81e+01 a.60.8.2 65407 1jf0A 195 1.92e+01 1ej3A a.39.1.5 62926 1pczA 191 2.05e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1lq9A 112 2.13e+01 d.58.4.3 78129 1vls 146 2.15e+01 1vls a.24.2.1 16532 1nc5A 373 2.21e+01 a.102.1.6 85548 1ntyA 311 2.25e+01 a.87.1.1,b.55.1.1 103873,103874 1i6kA 328 2.34e+01 c.26.1.1 66040 1xqoA 256 2.35e+01 1lpe 144 2.46e+01 1nfn a.24.1.1 16524 2a1jB 91 2.53e+01 1fts 295 2.53e+01 1ng1 a.24.13.1,c.37.1.10 16968,32279 2oneA 436 2.58e+01 4enl c.1.11.1,d.54.1.1 29203,38847 1am4D 177 2.61e+01 1ctqA c.37.1.8 32068 1d3uA 181 2.62e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1jfzA 154 2.65e+01 a.149.1.1 66655 1h9dB 134 2.73e+01 2jhbA b.54.1.1 60822 1vgmA 378 2.92e+01 1obbA 480 2.93e+01 c.2.1.5,d.162.1.2 86760,86761 1lbu 213 2.96e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1vz6A 393 3.01e+01 d.154.1.2 108949 1z21A 112 3.05e+01 1bdb 277 3.32e+01 1bdb c.2.1.2 29874 2c46A 241 3.34e+01 1ge9A 184 3.40e+01 1dd5A d.67.3.1 60463 1aisA 182 3.43e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1i39A 225 3.46e+01 1ekeA c.55.3.1 61585 1wvqA 167 3.47e+01 1pysA 350 3.54e+01 1pysA d.104.1.1 40775 1zpdA 568 3.56e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1mxgA 435 3.63e+01 b.71.1.1,c.1.8.1 85193,85194 1x2iA 75 3.72e+01 1ak0 270 3.93e+01 1ak0 a.124.1.2 19345 2d2mB 142 3.95e+01 2sas 185 3.97e+01 2sas a.39.1.5 17258 1hyeA 313 3.97e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1zj8A 566 4.01e+01 6gsvA 217 4.02e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1kbpA 432 4.03e+01 4kbpA b.1.12.1,d.159.1.1 22349,42068 2g76A 335 4.04e+01 1q15A 503 4.05e+01 c.26.2.1,d.153.1.1 95538,95539 1nkl 78 4.06e+01 1nkl a.64.1.1 18140 1u11A 182 4.08e+01 c.23.8.1 107576 2gnpA 266 4.19e+01 1bkzA 135 4.22e+01 1a3k b.29.1.3 24202 1y02A 120 4.22e+01 1pex 207 4.28e+01 1gen b.66.1.1 27540 1oyeA 1049 4.29e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 2jhbA 143 4.30e+01 2jhbA b.54.1.1 26950 1odoA 408 4.31e+01 a.104.1.1 92783 1i4sA 147 4.32e+01 a.149.1.1 66026 1m41A 380 4.35e+01 c.1.16.4 78595 1zzoA 136 4.38e+01 1j71A 334 4.41e+01 1eagA b.50.1.2 62669 1tqgA 105 4.48e+01 a.24.10.3 107224 4kbpA 432 4.51e+01 4kbpA b.1.12.1,d.159.1.1 22345,42064 1j1uA 306 4.53e+01 c.26.1.1 83980 1i6lA 328 4.55e+01 c.26.1.1 66041 1ntvA 152 4.58e+01 b.55.1.2 86168 1x91A 153 4.58e+01 1cx8B 639 4.89e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17783,30764,33852 1iwgA 1053 4.97e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 76874,76875,76876,76877,76878,76879,76880,76881 1zclA 180 4.98e+01 1vyiA 112 5.24e+01 2ez6A 221 5.29e+01 1yr2A 741 5.32e+01 1qr0A 228 5.35e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1o1yA 239 5.45e+01 c.23.16.1 86554 1a9wE 146 5.52e+01 1cg5B a.1.1.2 15551 1o7xD 377 5.58e+01 a.103.1.1 81174 1t9xA 1049 5.59e+01 1vp8A 201 5.59e+01 1m3sA 186 5.62e+01 c.80.1.3 78573 1wnaA 131 5.71e+01 1b7yA 350 5.74e+01 1pysA d.104.1.1 40776 1i9sA 210 5.85e+01 1i9sA c.45.1.1 62099 1zq9A 285 5.86e+01 1x1nA 524 6.03e+01 2al1A 436 6.14e+01 1xrsA 516 6.16e+01 2fnaA 357 6.18e+01 1g5qA 181 6.24e+01 1g5qA c.34.1.1 60288 1aj5A 173 6.25e+01 1alvA a.39.1.8 17367 1efcA 393 6.26e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1zwxA 301 6.29e+01 1o3uA 135 6.33e+01 a.24.16.3 86615 1cuk 203 6.39e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1tm9A 137 6.41e+01 a.225.1.1 107150 1bg1A 722 6.45e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1oe4A 247 6.48e+01 c.18.1.3 86895 2csbA 519 6.50e+01 1bs0A 384 6.50e+01 1bs0A c.67.1.4 34490 1an0A 190 6.58e+01 1ctqA c.37.1.8 32066 2u2fA 85 6.63e+01 2u2fA d.58.7.1 39167 1ovqA 138 6.68e+01 c.55.3.8 93607 1o7xC 377 6.78e+01 a.103.1.1 81173 1k8kE 178 6.78e+01 a.148.1.1 68311 1wj5A 120 6.80e+01 1hdiA 413 6.93e+01 16pk c.86.1.1 60964 1jffA 451 6.94e+01 c.32.1.1,d.79.2.1 62932,62933 1qh5A 260 7.02e+01 1qh5A d.157.1.2 42057 1or3A 165 7.04e+01 1nfn a.24.1.1 16522 2hmx 133 7.06e+01 1hiwA a.61.1.1 18129 1nqkA 381 7.06e+01 c.1.16.4 92050 1ucpA 91 7.09e+01 a.77.1.5 99186 1vquA 374 7.10e+01 1de4C 640 7.12e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1hw5A 210 7.21e+01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1ynuA 473 7.45e+01 1b0lA 691 7.49e+01 1cb6A c.94.1.2,c.94.1.2 35847,35848 1mh1 186 7.57e+01 1eesA c.37.1.8 32002 1joa 447 7.76e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30563,30564,40203 1eyrA 228 7.76e+01 1eyrA c.68.1.13 34514 1efuA 385 7.78e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1dofA 403 7.83e+01 1c3cA a.127.1.1 19429 1tw6A 133 7.85e+01 2amhA 207 7.85e+01 2aplA 157 7.85e+01 1vggA 161 7.96e+01 1kl9A 182 7.96e+01 b.40.4.5 72681 1iqpA 327 7.99e+01 a.80.1.1,c.37.1.20 62649,62650 1eg7A 557 8.07e+01 1eg7A c.37.1.10 32241 1cx8A 639 8.10e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17782,30763,33851 1cb6A 691 8.11e+01 1cb6A c.94.1.2,c.94.1.2 35840,35841 2g3bA 208 8.17e+01 1ddt 535 8.17e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22379,42241,43384 1b0yA 85 8.17e+01 1ckuA g.35.1.1 44980 1dmwA 307 8.27e+01 4pah d.178.1.1 42580 1g5hA 454 8.42e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1oeyJ 107 8.43e+01 d.15.2.2 92804 1m13A 316 8.57e+01 a.123.1.1 84746 1noe 86 8.73e+01 g.35.1.1 44987 1lcf 691 8.77e+01 1cb6A c.94.1.2,c.94.1.2 35838,35839 2d2sA 235 8.86e+01 1vddA 228 8.89e+01 e.49.1.1 108519 1o7xB 377 8.94e+01 a.103.1.1 81172 1zu4A 320 8.96e+01 2bkrA 212 8.99e+01