# 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 1pft 50 3.75e-02 1pft g.41.3.1 45206 2gatA 66 4.96e-01 1gatA g.39.1.1 45102 3gatA 66 8.10e-01 1gatA g.39.1.1 45103 1bc8C 93 1.43e+00 1awcA a.4.5.21 16168 1gnf 46 1.82e+00 1gatA g.39.1.1 45107 1wggA 96 2.74e+00 1gatA 60 2.78e+00 1gatA g.39.1.1 45106 1rlyA 60 3.46e+00 g.41.3.1 104988 2cklA 108 3.53e+00 1ip0A 50 4.36e+00 g.3.11.1 71253 2ct7A 86 4.58e+00 1hbxG 157 4.75e+00 1awcA a.4.5.21 60934 1vqoZ 83 4.85e+00 1vk6A 269 5.87e+00 d.113.1.4,d.113.1.4 100851,100852 1pm6A 72 6.29e+00 a.6.1.7 94894 1dl6A 58 8.12e+00 1dl6A g.41.3.1 45207 1lv3A 68 8.21e+00 g.39.1.9 78231 1faq 52 8.35e+00 1far g.49.1.1 45352 2a8jA 420 8.58e+00 1llmC 88 8.78e+00 g.37.1.1,g.37.1.1 91059,91060 1hn6A 110 9.36e+00 g.61.1.1 76721 1s72Z 73 9.57e+00 g.41.8.1 105345 1wd2A 60 9.60e+00 g.44.1.1 109232 1tr9A 341 9.77e+00 4gatA 66 1.04e+01 1gatA g.39.1.1 45100 2a8mA 420 1.07e+01 1m1qA 91 1.08e+01 a.138.1.3 74419 1p9rA 418 1.09e+01 c.37.1.11 94399 2a20A 62 1.13e+01 1far 52 1.19e+01 1far g.49.1.1 45351 1ijgA 309 1.27e+01 1fouA e.27.1.1 62493 1ur6B 52 1.29e+01 g.44.1.1 99812 1vd4A 62 1.34e+01 1e4uA 78 1.37e+01 1e4uA g.44.1.1 59231 2bwfA 77 1.40e+01 1s7bA 110 1.48e+01 f.39.1.1 98634 1wjvA 79 1.55e+01 1b8tA 192 1.57e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 4tgf 50 1.62e+01 3tgf g.3.11.1 44294 1zv1A 65 1.66e+01 1fouA 309 1.75e+01 1fouA e.27.1.1 43364 1n9dA 199 1.80e+01 a.26.1.1 85464 1y88A 199 2.13e+01 2fqpA 97 2.17e+01 1bor 56 2.18e+01 1bor g.44.1.1 45324 1odhA 174 2.19e+01 d.239.1.1 86850 1z1zA 131 2.24e+01 1w0uA 55 2.27e+01 2ac3A 316 2.39e+01 2a1rA 430 2.45e+01 1tg6A 277 2.52e+01 2d1uA 104 2.69e+01 2ac5A 316 2.75e+01 1ffkW 73 2.82e+01 1ffkW g.41.8.1 45315 2avuE 192 2.85e+01 1hm9A 468 2.95e+01 b.81.1.4,c.68.1.5 65866,65867 1jagA 241 2.97e+01 c.37.1.1 66463 2sttA 96 3.07e+01 1awcA a.4.5.21 16163 1moxC 50 3.08e+01 g.3.11.1 91380 1lm5A 214 3.10e+01 d.211.2.1 74029 1afp 51 3.11e+01 1afp g.26.1.1 44947 2fclA 169 3.11e+01 1kezA 300 3.12e+01 c.69.1.22 68546 1ctl 85 3.13e+01 g.39.1.3,g.39.1.3 45133,45134 1jn5B 250 3.13e+01 d.17.4.2 66922 1kekA 1231 3.21e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1ypvA 313 3.25e+01 1yuf 50 3.28e+01 3tgf g.3.11.1 44295 1oapA 109 3.29e+01 d.79.7.1 92706 1xseA 295 3.32e+01 1hcnA 92 3.38e+01 1hcnA g.17.1.4 44809 1b0pA 1231 3.38e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 31831,31832,33104,34157,39003 1dz7A 92 3.43e+01 1hcnA g.17.1.4 44815 1jm7A 112 3.46e+01 g.44.1.1 66880 1e53A 59 3.47e+01 1e53A g.49.1.2 45356 2c30A 321 3.50e+01 1g47A 77 3.50e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1vq0A 302 3.52e+01 1g25A 65 3.52e+01 1g25A g.44.1.1 45325 1ln1A 214 3.57e+01 d.129.3.2 74038 3tgf 50 3.71e+01 3tgf g.3.11.1 44292 2csvA 72 3.79e+01 1dx8A 70 3.88e+01 1rb9 g.41.5.1 45243 1h5wA 309 3.92e+01 e.27.1.1 65635 1rutX 188 3.98e+01 1yopA 83 4.03e+01 1mr1C 99 4.05e+01 d.217.1.2 79420 2c3mA 1231 4.12e+01 1so2A 420 4.18e+01 a.211.1.2 98936 1dv1A 449 4.25e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1a8h 500 4.27e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1ee8A 266 4.28e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1tw6A 133 4.35e+01 2f2mA 113 4.40e+01 1jkgB 250 4.47e+01 d.17.4.2 66796 2tgf 50 4.56e+01 3tgf g.3.11.1 44291 2fua 215 4.64e+01 2fua c.74.1.1 34977 1rfs 139 4.78e+01 1rfs b.33.1.1 24434 1ps2 60 4.82e+01 2pspA g.16.1.1 44746 1z6uA 150 4.92e+01 1e0eA 55 4.94e+01 1wjcA a.4.10.1 59147 1mo2A 294 5.05e+01 c.69.1.22 79331 1d0qA 103 5.24e+01 1d0qA g.41.3.2 45208 1dl0A 37 5.27e+01 1dl0A g.3.6.2 44112 2fb7A 95 5.27e+01 1w8kA 447 5.33e+01 1xd3A 230 5.41e+01 2ftrA 108 5.51e+01 1woyA 500 5.53e+01 1x31D 99 5.56e+01 1l8dA 112 5.61e+01 h.4.12.1 73687 1uch 230 5.63e+01 1uch d.3.1.6 37129 1aye 401 5.68e+01 1aye c.56.5.1,d.58.3.1 33824,39065 2azqA 311 6.02e+01 1gk8I 140 6.05e+01 d.73.1.1 65242 2bx9A 53 6.15e+01 1vziA 126 6.16e+01 b.1.13.1,g.41.5.2 108967,108968 1fsoA 139 6.24e+01 1rhoA b.1.18.8 60007 1extA 162 6.30e+01 1extA g.24.1.1,g.24.1.1,g.24.1.1 44900,44901,44902 1r1a1 287 6.34e+01 1aym1 1z60A 59 6.39e+01 1qxfA 66 6.48e+01 g.41.8.4 96527 1hfi 62 6.62e+01 1hfh g.18.1.1 44819 1cokA 68 6.78e+01 1cokA a.60.1.2 17945 1ywsA 82 6.85e+01 1kzuA 53 6.88e+01 1kzuA f.3.1.1 43727 1wfeA 86 6.93e+01 1ka8A 100 7.03e+01 a.4.5.20 72241 1hvyA 288 7.15e+01 1bkpA d.117.1.1 41049 1ydlA 79 7.17e+01 1eziA 228 7.22e+01 1eyrA c.68.1.13 34512 1ejxA 100 7.37e+01 d.8.1.1 83182 1ajw 145 7.41e+01 1rhoA b.1.18.8 21905 1g73C 121 7.42e+01 1g3fA g.52.1.1 45375 1nkzA 53 7.43e+01 f.3.1.1 80611 1tbn 82 7.45e+01 1ptq g.49.1.1 45354 1jy2P 48 7.46e+01 h.1.8.1 67442 1zsqA 528 7.60e+01 1bncA 449 7.68e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 1i50L 70 7.70e+01 g.41.9.2 61766 1wgeA 83 7.81e+01 1i5hW 50 7.95e+01 1i5hW b.72.1.1 61785 1rhoA 145 7.95e+01 1rhoA b.1.18.8 21899 1lvfA 110 8.14e+01 a.47.2.1 74280 1dg6A 191 8.18e+01 1d4vB b.22.1.1 23883 1bjz 207 8.19e+01 2tct a.4.1.9,a.121.1.1 16065,19242 2fvhA 120 8.27e+01 1d4vB 163 8.38e+01 1d4vB b.22.1.1 23884 1dfx 125 8.52e+01 1dfx b.1.13.1,g.41.5.2 22367,45255 1rb9 53 8.72e+01 1rb9 g.41.5.1 45214 1qjpA 171 8.76e+01 1bxwA f.4.1.1 43742 1dk2A 86 8.79e+01 1bpyA a.60.6.1 18078 4rnpA 883 8.84e+01 1cezA e.8.1.3 43113 1y5mA 276 8.85e+01 1tvxB 75 8.87e+01 1tvxA d.9.1.1 37442 1jj2Y 73 8.88e+01 1ffkW g.41.8.1 63110 1q18A 332 8.89e+01 c.55.1.7,c.55.1.7 104470,104471 1ovqA 138 8.91e+01 c.55.3.8 93607 1rdg 53 8.99e+01 1rb9 g.41.5.1 45221