# 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 3.12e-02 1pft g.41.3.1 45206 1vqoZ 83 6.11e-01 1s72Z 73 9.19e-01 g.41.8.1 105345 1bc8C 93 1.30e+00 1awcA a.4.5.21 16168 2gatA 66 1.41e+00 1gatA g.39.1.1 45102 1gnf 46 1.41e+00 1gatA g.39.1.1 45107 1rlyA 60 2.09e+00 g.41.3.1 104988 1gatA 60 2.16e+00 1gatA g.39.1.1 45106 2ct7A 86 2.52e+00 1hbxG 157 2.67e+00 1awcA a.4.5.21 60934 3gatA 66 2.69e+00 1gatA g.39.1.1 45103 1dl6A 58 3.06e+00 1dl6A g.41.3.1 45207 1ip0A 50 3.35e+00 g.3.11.1 71253 1faq 52 4.03e+00 1far g.49.1.1 45352 2cklA 108 4.34e+00 1far 52 5.13e+00 1far g.49.1.1 45351 1vk6A 269 5.89e+00 d.113.1.4,d.113.1.4 100851,100852 2fqpA 97 6.00e+00 2a8jA 420 6.08e+00 1ffkW 73 6.65e+00 1ffkW g.41.8.1 45315 2ac3A 316 6.76e+00 1wd2A 60 6.83e+00 g.44.1.1 109232 2a8mA 420 7.70e+00 1tr9A 341 8.38e+00 1n9dA 199 8.65e+00 a.26.1.1 85464 2a20A 62 9.90e+00 4gatA 66 1.03e+01 1gatA g.39.1.1 45100 1p9rA 418 1.06e+01 c.37.1.11 94399 1vd4A 62 1.14e+01 2ac5A 316 1.15e+01 1wjvA 79 1.18e+01 1jj2Y 73 1.22e+01 1ffkW g.41.8.1 63110 1wggA 96 1.26e+01 1i5hW 50 1.31e+01 1i5hW b.72.1.1 61785 1jn5B 250 1.33e+01 d.17.4.2 66922 1w0uA 55 1.40e+01 1llmC 88 1.51e+01 g.37.1.1,g.37.1.1 91059,91060 2cjsC 62 1.53e+01 2bwfA 77 1.54e+01 1hn6A 110 1.74e+01 g.61.1.1 76721 1bor 56 1.75e+01 1bor g.44.1.1 45324 1pm6A 72 1.88e+01 a.6.1.7 94894 2a1rA 430 1.91e+01 2d1uA 104 1.96e+01 1y88A 199 1.98e+01 1jkgB 250 1.98e+01 d.17.4.2 66796 1e4uA 78 2.04e+01 1e4uA g.44.1.1 59231 1ur6B 52 2.07e+01 g.44.1.1 99812 2glfA 450 2.13e+01 1so2A 420 2.21e+01 a.211.1.2 98936 1z1zA 131 2.27e+01 1wfeA 86 2.31e+01 1oapA 109 2.32e+01 d.79.7.1 92706 2gpiA 91 2.37e+01 1m1qA 91 2.38e+01 a.138.1.3 74419 1ypvA 313 2.39e+01 1a8h 500 2.41e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1jagA 241 2.45e+01 c.37.1.1 66463 2bl1A 172 2.49e+01 2avuE 192 2.55e+01 1ps2 60 2.57e+01 2pspA g.16.1.1 44746 1g25A 65 2.59e+01 1g25A g.44.1.1 45325 4tgf 50 2.73e+01 3tgf g.3.11.1 44294 1afp 51 2.76e+01 1afp g.26.1.1 44947 1vq0A 302 2.76e+01 1ln1A 214 2.76e+01 d.129.3.2 74038 1odhA 174 2.77e+01 d.239.1.1 86850 1dsvA 31 2.97e+01 1dsvA g.40.1.1 45174 1dx8A 70 3.09e+01 1rb9 g.41.5.1 45243 2bx9A 53 3.09e+01 1z6uA 150 3.15e+01 1jm7A 112 3.16e+01 g.44.1.1 66880 1woyA 500 3.20e+01 1ijgA 309 3.32e+01 1fouA e.27.1.1 62493 1dl0A 37 3.37e+01 1dl0A g.3.6.2 44112 1w8kA 447 3.40e+01 1hfi 62 3.44e+01 1hfh g.18.1.1 44819 1yvoA 172 3.48e+01 1dv1A 449 3.48e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 2g2kA 170 3.50e+01 1se7A 83 3.60e+01 1y9wA 140 3.66e+01 1rh6A 55 3.71e+01 a.6.1.7 104935 1tbn 82 3.74e+01 1ptq g.49.1.1 45354 1lm5A 214 3.84e+01 d.211.2.1 74029 1xg1A 67 3.88e+01 2sttA 96 3.96e+01 1awcA a.4.5.21 16163 1b8tA 192 3.97e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1rdg 53 3.99e+01 1rb9 g.41.5.1 45221 1uw2A 61 4.06e+01 g.37.1.4 108064 1rb9 53 4.08e+01 1rb9 g.41.5.1 45214 1yk4A 52 4.12e+01 1zsqA 528 4.24e+01 8rxnA 52 4.31e+01 1rb9 g.41.5.1 45215 1ee8A 266 4.32e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1tw6A 133 4.34e+01 1ctl 85 4.43e+01 g.39.1.3,g.39.1.3 45133,45134 1lvfA 110 4.44e+01 a.47.2.1 74280 1iq3A 110 4.45e+01 1iq3A a.39.1.6 62640 1xakA 83 4.46e+01 2c30A 321 4.54e+01 1hvyA 288 4.54e+01 1bkpA d.117.1.1 41049 1rfs 139 4.68e+01 1rfs b.33.1.1 24434 1lx8A 55 4.76e+01 a.6.1.7 84734 1kekA 1231 4.84e+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 1moxC 50 4.90e+01 g.3.11.1 91380 1e53A 59 4.99e+01 1e53A g.49.1.2 45356 1fouA 309 5.02e+01 1fouA e.27.1.1 43364 1b0pA 1231 5.12e+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 1iro 54 5.25e+01 1rb9 g.41.5.1 45223 1kezA 300 5.37e+01 c.69.1.22 68546 1oghA 204 5.39e+01 b.85.4.1 86994 1xd3A 230 5.51e+01 1d0qA 103 5.53e+01 1d0qA g.41.3.2 45208 1pkhA 204 5.57e+01 b.85.4.1 94832 1tnrA 144 5.58e+01 2tnfA b.22.1.1 23867 1l1oC 181 5.60e+01 b.40.4.3 73480 1exkA 79 5.84e+01 1exkA g.54.1.1 45384 1tg6A 277 5.92e+01 2bcoA 350 5.95e+01 1zxtA 76 5.97e+01 2a8lA 420 6.00e+01 1rutX 188 6.12e+01 1v87A 114 6.13e+01 g.44.1.1 108422 1g47A 77 6.22e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1ufzA 83 6.22e+01 a.5.9.1 107821 2c3mA 1231 6.27e+01 4rxn 54 6.35e+01 1rb9 g.41.5.1 45226 1jkvA 266 6.40e+01 a.25.1.3 71719 1o9iA 266 6.41e+01 a.25.1.3 92671 2fvhA 120 6.45e+01 1s5lK 37 6.47e+01 2axtK 37 6.47e+01 1bncA 449 6.49e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28236,31643,41488 1zy1B 197 6.50e+01 1twfL 70 6.53e+01 1k3eA 156 6.53e+01 d.198.1.1 68103 1uch 230 6.57e+01 1uch d.3.1.6 37129 1gk4C 84 6.60e+01 h.1.20.1 70205 5rxn 54 6.64e+01 1rb9 g.41.5.1 45225 1eziA 228 6.84e+01 1eyrA c.68.1.13 34512 1kq6A 141 7.02e+01 d.189.1.1 91020 1mea 28 7.06e+01 g.41.1.1 45176 1yuf 50 7.08e+01 3tgf g.3.11.1 44295 2csvA 72 7.08e+01 1o7kA 131 7.19e+01 d.189.1.1 81144 1cokA 68 7.20e+01 1cokA a.60.1.2 17945 1gk4A 84 7.29e+01 h.1.20.1 70203 1hdlA 55 7.54e+01 g.68.1.2 65808 1ejxA 100 7.65e+01 d.8.1.1 83182 1a04A 215 7.72e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1cewI 108 7.72e+01 1cewI d.17.1.2 37999 1i50L 70 7.73e+01 g.41.9.2 61766 1gk4D 84 7.77e+01 h.1.20.1 70206 1ku1A 230 7.86e+01 a.118.3.1 72996 2ct5A 73 7.94e+01 1yovA 537 8.08e+01 1x31D 99 8.10e+01 1fsoA 139 8.15e+01 1rhoA b.1.18.8 60007 1vziA 126 8.16e+01 b.1.13.1,g.41.5.2 108967,108968 1b2jA 54 8.23e+01 1rb9 g.41.5.1 45231 1w27A 714 8.23e+01 1sp1 29 8.24e+01 g.37.1.1 45051 1dvbA 191 8.35e+01 1ryt a.25.1.1,g.41.5.1 16645,45244 1qxfA 66 8.35e+01 g.41.8.4 96527 1zxzA 197 8.44e+01 3tgf 50 8.56e+01 3tgf g.3.11.1 44292 1ycrA 109 8.62e+01 1ycqA a.42.1.1 17420 1erd 40 8.63e+01 1erd a.10.1.1 16362 1wgeA 83 8.69e+01 1ajw 145 8.76e+01 1rhoA b.1.18.8 21905 2axiA 115 8.78e+01 1qbjA 81 8.78e+01 1qbjA a.4.5.19 16155 1jy2P 48 8.82e+01 h.1.8.1 67442 1qceA 123 8.89e+01 1qbzC h.3.2.1 45750 1fwcA 100 8.91e+01 1ubpA d.8.1.1 37331 1mr1C 99 8.93e+01 d.217.1.2 79420 2d8qA 70 8.96e+01