# List of top-scoring protein chains for t04-100-30-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.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 2fneA 117 1.92e-16 2fe5A 94 1.60e-15 2fcfA 103 5.53e-15 1tp5A 119 6.25e-15 1be9A 119 7.32e-15 1pdr b.36.1.1 24774 1g9oA 91 9.93e-15 1pdr b.36.1.1 60400 1qavA 90 2.45e-14 1qauA b.36.1.1 24777 1ihjA 98 5.62e-14 1pdr b.36.1.1 62382 2f0aA 98 3.03e-13 2h2bA 107 3.06e-13 1l6oA 95 3.71e-13 b.36.1.1 84534 1n7eA 97 3.74e-13 b.36.1.1 91691 1n7fA 97 5.20e-13 b.36.1.1 91692 1mfgA 95 8.50e-13 b.36.1.1 79043 2h3lA 103 1.11e-12 1qauA 112 1.37e-12 1qauA b.36.1.1 24779 1q3oA 109 2.41e-12 b.36.1.1 95700 2f5yA 91 3.31e-12 1wf7A 103 5.62e-12 1nf3C 128 6.60e-12 b.36.1.1 85596 1v5lA 103 8.14e-12 b.36.1.1 108378 1kwaA 88 1.83e-11 1kwaA b.36.1.1 24772 1r6jA 82 3.95e-10 b.36.1.1 97151 1nteA 82 9.47e-10 b.36.1.1 86163 1lcyA 325 5.52e-06 b.36.1.4,b.47.1.1 73834,73835 1fc6A 388 1.27e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 1.79e-05 1sotA 320 1.63e-04 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 8.62e-04 2a6tA 271 1.30e-01 1db3A 372 2.53e-01 1db3A c.2.1.2 29813 1yjmA 110 2.98e-01 1ujxA 119 3.85e-01 b.26.1.2 99473 1a6f 119 8.32e-01 1a6f d.14.1.2 37564 1koe 172 1.13e+00 1koe d.169.1.5 42448 2brfA 110 1.34e+00 2bh4X 134 1.63e+00 1o6dA 163 1.65e+00 c.116.1.3 92567 1fxlA 167 1.94e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1xewX 182 2.42e+00 1cot 129 2.56e+00 1ycc a.3.1.1 15899 1lw6I 64 2.85e+00 d.40.1.1 74294 1dxrH 258 3.55e+00 6prcH b.41.1.1,f.23.10.1 25456,43433 1fm0E 150 3.60e+00 1fmaE d.41.5.1 38629 3tmkA 216 3.70e+00 3tmkA c.37.1.1 31920 1vpqA 273 3.86e+00 2f51A 118 3.88e+00 1fdr 248 4.13e+00 1fdr b.43.4.2,c.25.1.1 25653,31543 1h6kA 757 4.83e+00 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 1reqB 637 4.96e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 2bhoA 130 4.98e+00 1to2I 64 5.05e+00 1k4mA 213 5.08e+00 c.26.1.3 77258 1yvcA 70 5.14e+00 1gjjA 168 5.56e+00 a.140.1.1,a.140.1.1 83291,83292 1rlhA 173 5.70e+00 d.256.1.1 97646 2d4pA 141 5.78e+00 2bshA 125 5.78e+00 1kw4A 89 6.50e+00 a.60.1.2 73077 1dg6A 191 6.72e+00 1d4vB b.22.1.1 23883 1l3iA 192 7.23e+00 c.66.1.22 77676 2bsjA 133 7.52e+00 1sflA 238 7.58e+00 1h2vC 771 8.07e+00 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 1q7hA 153 8.89e+00 b.122.1.1,d.17.6.2 96042,96043 1rz2A 254 8.94e+00 b.100.1.1 105130 1z5yE 149 9.03e+00 1ad3A 452 9.07e+00 1ad3A c.82.1.1 35335 1f3z 161 9.14e+00 1gpr b.84.3.1 28273 1r6xA 395 9.29e+00 b.122.1.3,c.26.1.5 97167,97168 1pk1B 89 9.42e+00 1sfjA 238 9.56e+00 1rypH 205 9.69e+00 d.153.1.4 41876 1uzcA 71 9.78e+00 a.159.2.1 100222 1unkA 87 9.99e+00 1cei a.28.2.1 16935 2aa4A 289 1.03e+01 1zuoA 186 1.04e+01 1vj0A 380 1.06e+01 b.35.1.2,c.2.1.1 100786,100787 1unlD 208 1.08e+01 1js8A 394 1.10e+01 a.86.1.1,b.112.1.1 67219,67220 1x24A 180 1.13e+01 1mkmA 249 1.13e+01 a.4.5.33,d.110.2.2 79242,79243 1qyaA 307 1.15e+01 d.21.1.2,d.21.1.2 104653,104654 2b4aA 138 1.16e+01 1evlA 401 1.28e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1nz0A 118 1.30e+01 d.14.1.2 86433 2bw3A 534 1.33e+01 1oroA 213 1.37e+01 1opr c.61.1.1 34093 1jhfA 202 1.45e+01 a.4.5.2,b.87.1.1 63057,63058 1bx4A 345 1.46e+01 1bx4A c.72.1.1 34935 1h05A 146 1.48e+01 c.23.13.1 76433 1nmeA 146 1.48e+01 c.17.1.1 85874 1xo5A 183 1.52e+01 1n0qA 93 1.52e+01 k.37.1.1 79754 1zckA 154 1.55e+01 1cei 94 1.55e+01 1cei a.28.2.1 16939 1sdjA 310 1.55e+01 d.21.1.2,d.21.1.2 98807,98808 1uc2A 481 1.61e+01 d.261.1.1 99161 1v5iB 76 1.66e+01 1yf3A 259 1.67e+01 1cq3A 233 1.73e+01 1cq3A b.27.1.1 23923 1t9iA 163 1.78e+01 1yeyA 444 1.78e+01 1ifyA 49 1.81e+01 a.5.2.1 71207 1kk1A 410 1.82e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1hssA 124 1.85e+01 1bea a.52.1.2 17819 1mzbA 136 1.86e+01 a.4.5.42 91497 1d4oA 184 1.86e+01 1d4oA c.31.1.4 31748 1csh 435 1.87e+01 1csh a.103.1.1 18880 1jvwA 167 1.89e+01 d.26.1.1 71907 1qw2A 102 1.90e+01 d.249.1.1 96456 1q0sA 259 1.91e+01 c.66.1.28 95509 1f9aA 168 1.93e+01 1f9aA c.26.1.3 31602 1ujqA 305 1.96e+01 c.1.12.7 99463 2c9wA 169 1.97e+01 2d9iA 96 2.00e+01 2gm5A 139 2.00e+01 1mq7A 154 2.00e+01 b.85.4.1 79404 2aefA 234 2.01e+01 1h9oA 112 2.06e+01 1qadA d.93.1.1 60837 1t6t1 118 2.07e+01 2cu5A 129 2.08e+01 1rxdA 159 2.12e+01 1rrmA 386 2.17e+01 e.22.1.2 105081 1nykA 165 2.18e+01 b.33.1.1 86408 1xewY 172 2.19e+01 2bikB 313 2.21e+01 1dvoA 152 2.22e+01 1dvoA a.136.1.1 19623 1tif 78 2.23e+01 1tif d.15.8.1 37836 1rutX 188 2.25e+01 1yezA 68 2.29e+01 1at0 145 2.34e+01 1at0 b.86.1.1 28374 2dhqA 146 2.44e+01 2dhqA c.23.13.1 31382 1gpr 162 2.46e+01 1gpr b.84.3.1 28267 1r13A 148 2.48e+01 d.169.1.1,h.1.1.1 96782,96783 1uh5A 329 2.55e+01 c.2.1.2 107840 1ypcI 64 2.55e+01 2sniI d.40.1.1 38570 2cc0A 195 2.58e+01 1g7sA 594 2.59e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1uc8A 280 2.61e+01 c.30.1.6,d.142.1.7 99165,99166 1euwA 152 2.63e+01 1dupA b.85.4.1 28349 2bkfA 87 2.64e+01 1kjyB 36 2.66e+01 1a8vA 121 2.68e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 2gwnA 452 2.68e+01 1yb2A 275 2.68e+01 1pueE 89 2.72e+01 1awcA a.4.5.21 16165 2affA 120 2.76e+01 1a62 130 2.78e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1xbbA 291 2.80e+01 1zclA 180 2.86e+01 2c5qA 240 2.89e+01 2as0A 396 2.89e+01 1a8p 258 2.92e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 2axcA 264 2.98e+01 1zq9A 285 2.98e+01 1xwsA 313 2.98e+01 1vheA 373 3.03e+01 b.49.3.1,c.56.5.4 100669,100670 1zhvA 134 3.12e+01 1sixA 174 3.13e+01 b.85.4.1 98892 1qhlA 227 3.14e+01 1qhlA c.37.1.12 32382 1opr 213 3.22e+01 1opr c.61.1.1 34091 2ahqA 76 3.27e+01 2csbA 519 3.31e+01 2gs8A 317 3.32e+01 1cliA 345 3.34e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2gasA 307 3.45e+01 1g2hA 61 3.51e+01 1g2hA a.4.1.12 60224 1yg9A 330 3.52e+01 1l1dA 152 3.55e+01 b.88.1.3 73452 1fvrA 327 3.56e+01 d.144.1.7 60047 1uteA 313 3.57e+01 1uteA d.159.1.1 42078 1rxwA 336 3.64e+01 a.60.7.1,c.120.1.2 98059,98060 1fxkC 133 3.66e+01 1fxkC a.2.5.1 15702 1nkqA 259 3.69e+01 d.177.1.1 103862 1fr3A 67 3.82e+01 1fr3A b.40.6.1 25436 2f5tX 233 3.83e+01 1wvqA 167 3.83e+01 1fhgA 154 3.84e+01 1tlk b.1.1.4 21706 1p7hL 286 3.90e+01 b.1.18.1,b.2.5.3 94271,94272 1tlk 154 3.90e+01 1tlk b.1.1.4 21707 2cw8A 537 3.97e+01 1ej2A 181 4.02e+01 1f9aA c.26.1.3 59414 1txvB 440 4.04e+01 1u8vA 490 4.05e+01 1ufkA 254 4.07e+01 c.66.1.39 99340 1ejfA 125 4.11e+01 1ejfA b.15.1.2 23683 1ww7A 160 4.14e+01 1x6vA 630 4.19e+01 1viuA 203 4.21e+01 d.113.1.1 100771 1zyeA 220 4.23e+01 1wdiA 345 4.23e+01 1iq8A 582 4.24e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 2b18A 164 4.25e+01 1se8A 301 4.25e+01 b.40.4.3 105448 1r0vA 305 4.25e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1l0lB 439 4.26e+01 d.185.1.1,d.185.1.1 84484,84485 1nwbA 124 4.28e+01 b.124.1.1 86296 1ppjB 439 4.43e+01 d.185.1.1,d.185.1.1 104254,104255 1ex2A 189 4.44e+01 1ex2A c.51.4.2 33225 2btvA 901 4.46e+01 2btvA e.28.1.1 43376 1r61A 207 4.49e+01 c.8.8.1 97138 1xv2A 237 4.50e+01 1um0A 365 4.54e+01 d.258.1.1 107942 2a2pA 129 4.60e+01 1iruK 201 4.63e+01 d.153.1.4 71362 1zn8A 180 4.64e+01 1ycoA 279 4.68e+01 1viaA 175 4.69e+01 c.37.1.2 100754 1h4lD 147 4.70e+01 a.74.1.1 70873 1earA 147 4.71e+01 b.107.1.1,d.58.38.1 64875,64876 1yi9A 309 4.71e+01 1wqsA 173 4.73e+01 2db1A 118 4.73e+01 2c4xA 260 4.75e+01 2g3kA 94 4.78e+01 2bneA 241 4.83e+01 1jjtA 228 4.86e+01 1a7tA d.157.1.1 63139 2c26A 260 4.87e+01 1u6bA 98 4.88e+01 d.58.7.1 107703 1vekA 84 4.91e+01 1pgvA 197 4.92e+01 c.10.1.1 88073 1qo0D 196 5.01e+01 1qo0D c.23.1.3 31125 1ztdA 133 5.07e+01 1b65A 375 5.07e+01 1b65A d.154.1.1 42020 2fhqA 141 5.08e+01 1xs1A 193 5.11e+01 1m8jA 181 5.14e+01 c.26.1.3 84875 2napA 723 5.16e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1wolA 122 5.17e+01 1iz0A 302 5.20e+01 b.35.1.2,c.2.1.1 83821,83822 1a8y 367 5.23e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1pswA 348 5.28e+01 c.87.1.7 88287 1j1qA 261 5.30e+01 d.165.1.1 90768 1bxaA 105 5.39e+01 1aac b.6.1.1 22839 3ertA 261 5.40e+01 3erdA a.123.1.1 19292 1jnyA 435 5.40e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1x3mA 415 5.44e+01 2bwbA 46 5.50e+01 1rypL 212 5.61e+01 d.153.1.4 41880 1a79A 171 5.61e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 1aac 105 5.61e+01 1aac b.6.1.1 22838 1yg2A 179 5.63e+01 1flmA 122 5.68e+01 1axj b.45.1.1 25747 1l2mA 118 5.69e+01 d.89.1.4 77657 2bsyA 278 5.78e+01 1ti6A 875 5.86e+01 b.52.2.2,c.81.1.1 106974,106975 1rd5A 262 5.89e+01 1zxxA 319 5.92e+01 1fyxA 149 6.06e+01 1fyvA c.23.2.1 31128 1w9gA 104 6.07e+01 2bnfB 241 6.15e+01 1zh1A 163 6.15e+01 1wi9A 72 6.17e+01 1sv6A 269 6.18e+01 d.177.1.1 106043 1eo6A 117 6.25e+01 1eo6A d.15.1.3 37609 2cq2A 114 6.26e+01 1sfdA 105 6.28e+01 b.6.1.1 105480 1z1dA 103 6.32e+01 1h3gA 601 6.34e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1t3qB 788 6.43e+01 d.41.1.1,d.133.1.1 106369,106370 1txvA 452 6.44e+01 2gu3A 136 6.50e+01 1yloA 348 6.52e+01 1y8oB 128 6.58e+01 1gnuA 117 6.62e+01 d.15.1.3 65403 1ug8A 87 6.64e+01 d.68.7.1 107825 1rwzA 245 6.70e+01 d.131.1.2,d.131.1.2 98005,98006 1bxeA 113 6.70e+01 1bxeA d.55.1.1 38898 1e79A 510 6.82e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 2a8eA 220 6.83e+01 1zrjA 50 6.95e+01 1bb9 115 6.96e+01 1bb9 b.34.2.1 24554 1xsvA 113 7.07e+01 1wmhA 89 7.09e+01 8rucI 123 7.16e+01 1rboC d.73.1.1 39629 1lh0A 213 7.18e+01 c.61.1.1 73896 2b4lA 268 7.40e+01 1tuaA 191 7.43e+01 d.51.1.1,d.51.1.1 107321,107322 1fgkA 310 7.45e+01 1fgkA d.144.1.7 41693 1nuuA 252 7.45e+01 c.26.1.3 86209 1y7lA 316 7.51e+01 1p99A 295 7.56e+01 c.94.1.1 94384 1wfxA 186 7.56e+01 1ml8A 134 7.60e+01 d.227.1.2 85013 2fojA 155 7.63e+01 1g8fA 511 7.64e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1llnA 262 7.69e+01 d.165.1.1 84625 1ibyA 112 7.75e+01 1ibzA b.6.1.4 62233 1fbnA 230 7.75e+01 1fbnA c.66.1.3 34181 1s5uA 138 7.75e+01 d.38.1.1 98573 2h00A 254 7.82e+01 1umuA 116 7.83e+01 1umuA b.87.1.1 28382 1njkA 156 7.86e+01 d.38.1.1 85818 1xebA 150 7.88e+01 1obfO 335 7.88e+01 c.2.1.3,d.81.1.1 86768,86769 1sw5A 275 7.89e+01 c.94.1.1 106069 1yy6A 155 7.92e+01 1cc8A 73 7.93e+01 1cc8A d.58.17.1 39343 1ojhA 65 7.95e+01 a.214.1.1 103976 1wmaA 276 7.95e+01 1s4iA 175 8.01e+01 2bv5A 282 8.09e+01 1augA 215 8.15e+01 1a2zA c.56.4.1 33798 2evwX 166 8.26e+01 1semA 58 8.26e+01 1ckaA b.34.2.1 24544 1id2A 106 8.29e+01 1aac b.6.1.1 62288 1xv5A 401 8.31e+01 1fo8A 343 8.33e+01 1foaA c.68.1.10 59927 1h8eA 510 8.35e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 2ajfA 597 8.37e+01 1diiC 80 8.40e+01 1diiC a.3.1.1 15925 1sknP 92 8.42e+01 1sknP a.37.1.1 17127 1rwrA 301 8.47e+01 b.80.1.11 97990 1bo1A 416 8.47e+01 1bo1A d.143.1.2 41591 1ucaA 190 8.48e+01 d.124.1.1 88462 1gky 187 8.49e+01 1gky c.37.1.1 31839 1eudB 396 8.51e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1he1A 135 8.54e+01 1he1A a.24.11.1 16641 1phm 310 8.57e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1ccwB 483 8.58e+01 1cb7B c.1.19.2 29646 2gk4A 232 8.59e+01 1dpuA 99 8.60e+01 1dpuA a.4.5.16 16150 1wr1B 58 8.69e+01 1c1lA 136 8.69e+01 1c1lA b.29.1.3 24219 1o63A 219 8.72e+01 c.94.1.1 92540 1lngA 87 8.73e+01 d.201.1.1 74045 1c3pA 375 8.73e+01 1c3pA c.42.1.2 32606 2gsaA 432 8.75e+01 2gsaA c.67.1.4 34446 1sw5B 275 8.76e+01 c.94.1.1 106070 2f7fA 494 8.80e+01 1wkvA 389 8.94e+01 2d1pC 95 8.96e+01 1x1oA 286 8.98e+01