# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1zn8A 180 1.24e-01 1uebA 184 3.14e-01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1z0sA 278 3.24e-01 1suwA 249 3.24e-01 e.52.1.1 106027 1d2eA 397 3.91e-01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25701,25741,32136 2ait 74 9.34e-01 1hoe b.5.1.1 22837 1yhfA 115 1.08e+00 3ait 74 1.09e+00 1hoe b.5.1.1 22835 1hoe 74 1.24e+00 1hoe b.5.1.1 22833 1ok0A 74 1.24e+00 b.5.1.1 93191 1efcA 393 1.82e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1efuA 385 1.83e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 2fs2A 151 2.49e+00 1eft 405 2.49e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1psuA 140 2.84e+00 d.38.1.5 88285 1yhpA 212 3.59e+00 2c78A 405 3.65e+00 1ha3A 405 3.82e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1ifrA 121 4.17e+00 b.1.16.1 71203 1a6vL 110 4.66e+00 1mfa b.1.1.1 20256 1a6wL 109 5.37e+00 1mfa b.1.1.1 20252 1oaqL 120 5.90e+00 b.1.1.1 92708 1v6fA 151 6.36e+00 d.109.1.2 108395 1exmA 405 6.70e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1m2xA 223 7.59e+00 d.157.1.1 84764 1fs0E 138 7.96e+00 1aqt a.2.10.1,b.93.1.1 59997,59998 1a6uL 108 8.15e+00 1mfa b.1.1.1 20254 1h6yA 170 9.10e+00 b.18.1.7 70904 1k9vF 201 9.23e+00 c.23.16.1 68365 1kk1A 410 9.26e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1m8aA 70 9.32e+00 d.9.1.1 74579 1v70A 105 9.36e+00 1aipA 405 9.53e+00 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1gpwB 201 9.66e+00 c.23.16.1 65461 1xx0A 127 9.93e+00 1e8pA 46 1.10e+01 g.55.1.1 59385 1e3aB 560 1.11e+01 1ajqB 2aw2A 120 1.13e+01 3mefA 69 1.13e+01 1mjc b.40.4.5 25320 1v88A 130 1.16e+01 b.55.1.1 108423 1gm7B 557 1.16e+01 1aipE 405 1.17e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1tbuA 118 1.18e+01 1cd8 114 1.25e+01 1cd8 b.1.1.1 19714 2aynA 404 1.29e+01 1gm9B 557 1.31e+01 1gkfB 557 1.36e+01 1gk9B 557 1.36e+01 1pz4A 116 1.37e+01 d.106.1.1 95400 1ajqB 557 1.40e+01 1ajqB 1qhaA 917 1.41e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33467,33468,33469,33470 1o4tA 133 1.49e+01 b.82.1.9 86622 1dd6A 228 1.52e+01 1a7tA d.157.1.1 42054 1o9yA 84 1.57e+01 b.139.1.1 92692 1xn5A 146 1.60e+01 1bmc 221 1.64e+01 1a7tA d.157.1.1 42038 1y7rA 133 1.67e+01 1neu 124 1.68e+01 1neu b.1.1.1 19704 1ao5A 237 1.68e+01 5ptp b.47.1.2 26334 1qcsA 211 1.70e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1zm0A 114 1.77e+01 1pnkB 557 1.81e+01 1ajqB 1o97C 264 1.84e+01 c.26.2.3 81232 1vhzA 198 1.92e+01 d.113.1.1 100718 1ojqA 212 1.93e+01 d.166.1.1 93146 1akjD 120 1.97e+01 1cd8 b.1.1.1 19712 1zkiA 133 1.99e+01 1azzA 226 2.02e+01 5ptp b.47.1.2 26072 2bc2A 227 2.03e+01 1a7tA d.157.1.1 42031 1dxkA 227 2.08e+01 1a7tA d.157.1.1 42036 1dyoA 160 2.09e+01 1dyoA b.18.1.7 23771 2d1eA 248 2.10e+01 1z9lA 128 2.11e+01 1vkyA 347 2.11e+01 e.53.1.1 108696 1wruA 379 2.21e+01 1mfa 247 2.21e+01 1mfa b.1.1.1,b.1.1.1 19888,19889 3mspA 126 2.35e+01 1mspA b.1.11.2 22343 1wj9A 211 2.40e+01 1csp 67 2.44e+01 1mjc b.40.4.5 25321 1aqt 138 2.47e+01 1aqt a.2.10.1,b.93.1.1 15718,28435 2bjfA 329 2.50e+01 1q87A 221 2.52e+01 e.47.1.1 96192 1mqoA 227 2.53e+01 d.157.1.1 103846 1bqk 124 2.56e+01 1bqk b.6.1.1 22889 1lu4A 136 2.57e+01 c.47.1.10 91124 1tu7A 208 2.61e+01 1mspA 126 2.77e+01 1mspA b.1.11.2 22333 1njkA 156 2.85e+01 d.38.1.1 85818 1pfl 139 2.86e+01 1pne d.110.1.1 40877 1jchA 551 2.87e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1jchC 551 2.87e+01 b.101.1.1,b.110.1.1,h.4.9.1 66495,66496,66497 2a6aA 218 2.89e+01 2g8yA 385 3.05e+01 1ygtA 111 3.06e+01 1dq3A 454 3.14e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2fhxA 246 3.15e+01 1icwA 72 3.19e+01 1tvxA d.9.1.1 37357 1de4C 640 3.23e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1mjc 69 3.32e+01 1mjc b.40.4.5 25319 1am1 213 3.39e+01 1yer d.122.1.1 41095 1amw 214 3.39e+01 1yer d.122.1.1 41093 2brcA 214 3.43e+01 1ah6 220 3.43e+01 1yer d.122.1.1 41094 1qk4A 233 3.49e+01 1qk3A c.61.1.1 34037 1n12A 138 3.58e+01 b.2.3.2 79779 1jjeA 222 3.60e+01 1a7tA d.157.1.1 63117 1onxA 390 3.73e+01 b.92.1.7,c.1.9.13 87176,87177 1z54A 132 3.74e+01 1d3uA 181 3.76e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 1fil 139 3.87e+01 1pne d.110.1.1 40869 1kliH 254 3.87e+01 b.47.1.2 77435 1zhxA 438 3.91e+01 1nqeA 594 4.00e+01 f.4.3.3 86027 1eajA 126 4.03e+01 1f5wA b.1.1.1 59401 1f5wA 126 4.03e+01 1f5wA b.1.1.1 19705 1dgkN 917 4.15e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33487,33488,33489,33490 1n99A 166 4.16e+01 b.36.1.1,b.36.1.1 85459,85460 1b9mA 265 4.18e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1xruA 282 4.21e+01 1koqA 253 4.28e+01 2cba b.74.1.1 27964 1czaN 917 4.29e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1bshA 138 4.32e+01 1aqt a.2.10.1,b.93.1.1 15720,28437 1g2qA 187 4.46e+01 c.61.1.1 65117 1914 232 4.52e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1xtlA 175 4.53e+01 2bjhA 260 4.53e+01 2g1lA 104 4.57e+01 1uwcA 261 4.60e+01 c.69.1.17 100101 1kbvA 327 4.67e+01 b.6.1.3,b.6.1.3 68395,68396 1c0aA 585 4.74e+01 1c0aA b.40.4.1,d.74.4.1,d.104.1.1 25246,39731,40767 1yz1A 174 4.75e+01 1xtmA 175 4.75e+01 2bz6H 254 4.76e+01 1fvuB 125 4.81e+01 1ixxB d.169.1.1 42346 1ji6A 589 4.85e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1yrtA 364 4.87e+01 1danH 254 4.88e+01 5ptp b.47.1.2 26292 1kl9A 182 4.99e+01 b.40.4.5 72681 1hnjA 317 5.09e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1awiA 138 5.10e+01 1pne d.110.1.1 40871 1przA 252 5.17e+01 d.265.1.3 95064 1tvxB 75 5.18e+01 1tvxA d.9.1.1 37442 1tvxA 75 5.19e+01 1tvxA d.9.1.1 37441 1x05A 129 5.22e+01 1napA 70 5.25e+01 1tvxA d.9.1.1 37445 1hn9A 317 5.27e+01 1hn9A c.95.1.2,c.95.1.2 35977,35978 1eblB 317 5.33e+01 1hn9A c.95.1.2,c.95.1.2 35975,35976 1eblA 317 5.33e+01 1hn9A c.95.1.2,c.95.1.2 35973,35974 1tltA 319 5.43e+01 c.2.1.3,d.81.1.5 107135,107136 1grwA 126 5.51e+01 b.1.11.2 70391 1vazA 88 5.69e+01 d.245.1.1 100554 1mjfA 281 5.74e+01 c.66.1.17 79198 2nmbA 160 5.77e+01 2nmbA b.55.1.2 26994 1yruA 364 5.78e+01 2ajfE 180 5.78e+01 1hkbA 917 5.80e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33479,33480,33481,33482 1bk0 331 5.84e+01 1bk0 b.82.2.1 28118 1dokA 77 5.93e+01 1dokA d.9.1.1 37420 1e8oA 85 5.95e+01 1914 d.49.1.1 38773 1c01A 76 6.06e+01 1c01A b.11.1.5 23633 1jjtA 228 6.20e+01 1a7tA d.157.1.1 63139 1i88A 389 6.28e+01 c.95.1.2,c.95.1.2 66070,66071 1yqcA 170 6.31e+01 1oalA 151 6.36e+01 b.1.8.1 86739 2gimA 106 6.40e+01 2sgpE 185 6.50e+01 1qq4A b.47.1.1 25825 1e79D 482 6.56e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1uswA 260 6.71e+01 c.69.1.17 99895 1z6bA 154 6.84e+01 1earA 147 6.84e+01 b.107.1.1,d.58.38.1 64875,64876 1nqzA 194 6.87e+01 d.113.1.1 86077 2bc2B 227 6.91e+01 1a7tA d.157.1.1 42032 2sodB 152 7.07e+01 1mfmA b.1.8.1 22242 2gpzA 111 7.15e+01 1tit 98 7.20e+01 1tit b.1.1.4 21716 1k7iA 479 7.26e+01 b.80.7.1,d.92.1.6 77281,77282 1k7qA 479 7.27e+01 b.80.7.1,d.92.1.6 77283,77284 1peeA 180 7.27e+01 b.60.1.1 104126 1dkgA 197 7.37e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1o9wA 177 7.42e+01 b.2.3.5 86713 1bxrA 1073 7.47e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18570,31499,31697,31698,41542,41543 1x8mA 288 7.60e+01 b.82.1.13 109516 1bbt3 220 7.62e+01 1qqp3 1ra0A 430 7.62e+01 1z47A 355 7.67e+01 1qqp3 220 7.68e+01 1qqp3 2b3nA 159 7.71e+01 1who 96 7.75e+01 1who b.7.3.1 23215 2ae0X 345 7.79e+01 1zkkA 167 7.82e+01 2gaeA 346 7.83e+01 1ixlA 131 7.92e+01 d.38.1.5 90717 1xzpB 150 7.94e+01 2fl4A 149 7.99e+01 2hntC 70 8.06e+01 2pkaA 4htcI 65 8.07e+01 4htcI g.3.15.2 44368 2crvA 120 8.17e+01 1aisA 182 8.21e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1r94A 118 8.24e+01 b.124.1.1 97251 2cw8A 537 8.31e+01 1mgsA 73 8.32e+01 1tvxA d.9.1.1 37389 1nekA 588 8.34e+01 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1vcbC 160 8.41e+01 1vcbC b.3.3.1 22535 1z8gA 372 8.41e+01 2pcy 99 8.48e+01 1plc b.6.1.1 22849 1plc 99 8.54e+01 1plc b.6.1.1 22846 1aw9 216 8.58e+01 1gnwA a.45.1.1,c.47.1.5 17736,33030 1aotF 106 8.62e+01 1lckA d.93.1.1 40458 1e1hA 287 8.62e+01 d.92.1.7 83167 1igqA 62 8.65e+01 b.34.1.3 66130 1skyB 502 8.68e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18313,26478,32358 1llwA 1520 8.69e+01 b.80.4.1,c.1.4.1,d.153.1.1 74017,74018,74019 1sgpE 185 8.74e+01 1qq4A b.47.1.1 25816 1gnhA 206 8.83e+01 1sacA b.29.1.5 24252 1h8eD 482 8.87e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1xr4A 509 8.99e+01 1c05A 159 9.00e+01 1c05A d.66.1.2 39559