# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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.soe.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 2gboA 104 1.45e-01 a.23.6.1 134923 2ivyA 101 1.70e+00 d.58.58.1 147817 3lofA 113 1.73e+00 6mhtA 327 2.15e+00 6mhtA c.66.1.26 34226 1mxsA 225 2.45e+00 c.1.10.1 91494 2bzbA 62 2.46e+00 a.30.7.1 129556 1envA 123 3.41e+00 1envA h.3.2.1 45726 2hxsA 178 3.48e+00 1pcxA 810 4.11e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 3lvuA 258 4.25e+00 3dlcA 219 4.28e+00 1dd5A 185 4.65e+00 1dd5A d.67.3.1 39564 2c7pA 327 4.80e+00 c.66.1.26 130080 1kfcA 268 4.96e+00 c.1.2.4 77371 2ovrB 445 5.16e+00 a.158.1.1,b.69.4.1 145735,145736 3krnA 222 5.23e+00 1vr5A 547 5.28e+00 c.94.1.1 120437 3hnwA 138 6.74e+00 2tysA 268 7.03e+00 2tysA c.1.2.4 28572 1g73A 162 7.12e+00 1fewA a.7.4.1 16332 1i84S 1184 7.39e+00 1lvk i.15.1.1 61940 2oc5A 244 7.94e+00 a.25.1.6 148720 2ev0A 142 8.93e+00 a.4.5.24,a.76.1.1 132413,132414 1gd2G 70 9.32e+00 1gd2G h.1.3.1 45530 1iseA 185 9.50e+00 d.67.3.1 90691 1gd2E 70 9.83e+00 1gd2G h.1.3.1 45528 1tafB 70 1.10e+01 1tafB a.22.1.3 16482 1twfF 155 1.10e+01 a.143.1.2 112731 1xq8A 140 1.10e+01 h.7.1.1 115834 2vd3A 289 1.11e+01 1on2A 142 1.14e+01 a.4.5.24,a.76.1.1 87103,87104 2ke4A 98 1.20e+01 1ek8A 185 1.21e+01 1ek8A d.67.3.1 59444 3crvA 551 1.22e+01 2kbiA 97 1.25e+01 1yfqA 342 1.30e+01 b.69.4.2 116680 1vhcA 224 1.31e+01 c.1.10.1 100661 1fjrA 195 1.35e+01 1fjrA b.102.1.1 59855 1qnf 484 1.38e+01 1qnf 1x4tA 92 1.42e+01 a.2.15.1 121698 1tezA 474 1.43e+01 a.99.1.1,c.28.1.1 112409,112410 1ypxA 375 1.53e+01 3dagA 358 1.58e+01 3bc9A 599 1.67e+01 1owlA 484 1.68e+01 a.99.1.1,c.28.1.1 93647,93648 2etsA 128 1.72e+01 a.24.26.1 132371 1s0pA 176 1.74e+01 a.192.1.1 98300 1wzaA 488 1.76e+01 b.71.1.1,c.1.8.1 121489,121490 1gxrA 337 1.77e+01 b.69.4.1 70722 3fk4A 414 1.78e+01 1l9vA 317 1.82e+01 d.13.2.1,d.216.1.1 73760,73761 1t3wA 148 1.92e+01 a.236.1.1 112233 3greA 437 1.96e+01 2b0jA 358 1.99e+01 a.100.1.11,c.2.1.6 127639,127640 9gafA 295 2.01e+01 1apyA d.153.1.5 42008 2novA 496 2.10e+01 2ql2B 60 2.15e+01 1wrdA 103 2.18e+01 a.7.8.1 144565 3f47A 358 2.19e+01 2nnnA 140 2.21e+01 1p4kA 295 2.21e+01 d.153.1.5 87772 2p32A 120 2.28e+01 3ilkA 244 2.33e+01 1wqgA 185 2.35e+01 d.67.3.1 145821 2kavA 129 2.36e+01 2i6vA 87 2.37e+01 b.36.1.5 147530 1fo1A 271 2.48e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 1i4nA 251 2.56e+01 c.1.2.4 71114 1d6bA 42 2.59e+01 1b8wA g.9.1.1 44594 2kl6A 114 2.59e+01 1is1A 185 2.62e+01 d.67.3.1 83704 2d4xA 248 2.64e+01 3h87C 73 2.64e+01 2pbiB 354 2.70e+01 1gsa 316 2.91e+01 1gsa 1gsaA 316 2.92e+01 c.30.1.3,d.142.1.1 31718,41477 2ri7A 174 2.96e+01 2r7jA 317 2.98e+01 d.13.2.1,d.216.1.1 151645,151646 2d4yA 463 3.10e+01 2b9eA 303 3.16e+01 c.66.1.38 128124 2rc5A 314 3.20e+01 1pl8A 356 3.23e+01 b.35.1.2,c.2.1.1 94878,94879 1lb2B 84 3.39e+01 a.60.3.1 77871 2qwwA 154 3.44e+01 1s94A 180 3.49e+01 a.47.2.1 98738 1u5pA 216 3.62e+01 a.7.1.1,a.7.1.1 113046,113047 1by0A 27 3.63e+01 h.4.6.1 45795 1no5A 114 3.65e+01 d.218.1.5 92014 1xjzA 233 3.66e+01 a.132.1.1 122049 1ydnA 295 3.68e+01 1yyvA 131 3.70e+01 a.4.5.69 124254 2odmA 91 3.72e+01 2nuwA 288 3.99e+01 1sknP 92 4.02e+01 1sknP a.37.1.1 17127 2gd5A 179 4.03e+01 1fmtA 314 4.11e+01 1fmtA b.46.1.1,c.65.1.1 25758,34174 2d69A 430 4.14e+01 c.1.14.1,d.58.9.1 131292,131293 1jfiA 98 4.21e+01 1jfiA a.22.1.3 62936 2h14A 317 4.27e+01 1qhhC 115 4.28e+01 1pjr 2nw2B 243 4.31e+01 1tiiC 53 4.32e+01 1tiiC 1g4yB 101 4.45e+01 1g4yB f.15.1.1 60251 1u4cA 349 4.52e+01 b.69.4.2 107666 1dkzA 219 4.58e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1dowA 205 4.65e+01 1dovA a.24.9.1 16626 1erjA 393 4.68e+01 1erjA b.69.4.1 27660 3cu5A 141 4.69e+01 3emhA 318 4.70e+01 1sedA 117 4.73e+01 a.219.1.1 105449 2fsaA 174 4.76e+01 1zkeA 83 4.77e+01 a.30.6.1 125186 1lvfA 110 4.81e+01 a.47.2.1 74280 1jadA 251 4.82e+01 h.4.10.1 66461 3bgyA 237 4.84e+01 1oqvA 192 4.87e+01 d.24.1.2 87320 1zmtA 254 4.97e+01 c.2.1.2 125363 1zw0A 66 5.14e+01 1dc7A 124 5.14e+01 1dbwA c.23.1.1 31093 1nxhA 126 5.22e+01 a.200.1.1 92300 2zosA 249 5.22e+01 2gnqA 336 5.24e+01 1pwxA 254 5.25e+01 c.2.1.2 95262 1lj9A 144 5.32e+01 a.4.5.28 78035 1p22A 435 5.34e+01 a.158.1.1,b.69.4.1 87715,87716 1tt8A 164 5.35e+01 d.190.1.1 112635 3gfjA 146 5.39e+01 1t3jA 96 5.45e+01 h.4.16.1 106356 1m0dA 138 5.47e+01 c.52.1.17 74354 2f6mA 65 5.49e+01 a.2.17.1 133051 1jb7B 260 5.54e+01 1otcB b.40.4.3 62839 3ma5A 100 5.58e+01 1vgjA 184 5.61e+01 2gxgA 146 5.70e+01 3ip4C 100 5.73e+01 1wmiB 67 5.76e+01 a.137.13.1 121046 1hy0A 466 5.80e+01 1auwA a.127.1.1 61392 3k12A 122 5.94e+01 2og5A 357 6.14e+01 3a8uX 449 6.20e+01 1w85A 368 6.25e+01 c.36.1.11 114335 2wwxA 175 6.26e+01 3crnA 132 6.26e+01 2ec4A 178 6.53e+01 1yemA 179 6.57e+01 d.63.1.2 116646 3e8tA 220 6.59e+01 1khtA 192 6.66e+01 c.37.1.1 84401 3a1gA 80 6.71e+01 1sgwA 214 6.76e+01 c.37.1.12 105541 2axcA 264 6.88e+01 1wr6A 111 6.89e+01 a.7.8.1 144561 2oemA 413 6.89e+01 2q3sA 206 6.96e+01 c.55.3.5 139802 1fzrA 138 6.97e+01 1fzrA c.52.1.17 33336 2qikA 285 6.98e+01 3k21A 191 7.00e+01 2q8vA 63 7.15e+01 1x79B 112 7.21e+01 h.1.27.2 114925 2nvaA 372 7.35e+01 1utuA 108 7.40e+01 a.283.1.1 145784 3gflA 146 7.47e+01 3fgxA 114 7.48e+01 2d27A 149 7.48e+01 d.52.10.1 146449 1wzcA 249 7.56e+01 c.108.1.10 121491 3iduA 127 7.58e+01 3h0gF 142 7.62e+01 1qopA 268 7.72e+01 2tysA c.1.2.4 28570 3d9rA 135 7.74e+01 d.17.4.27 157459 3cexA 172 7.76e+01 3ktbA 106 7.77e+01 1dkxA 219 7.79e+01 1dkzA a.8.4.1,b.130.1.1 90339,90340 3gfmA 146 7.83e+01 1xvjA 109 7.87e+01 1pl4A 198 7.89e+01 a.2.11.1,d.44.1.1 94854,94855