# 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 2.32e-18 1tp5A 119 1.20e-16 2fcfA 103 1.29e-16 1be9A 119 1.31e-16 1pdr b.36.1.1 24774 2fe5A 94 1.97e-16 1qavA 90 6.28e-16 1qauA b.36.1.1 24777 1g9oA 91 7.56e-16 1pdr b.36.1.1 60400 2h2bA 107 5.06e-15 1ihjA 98 5.15e-15 1pdr b.36.1.1 62382 2f0aA 98 2.38e-14 1l6oA 95 3.12e-14 b.36.1.1 84534 1n7eA 97 3.37e-14 b.36.1.1 91691 1mfgA 95 4.83e-14 b.36.1.1 79043 2h3lA 103 5.64e-14 1n7fA 97 6.45e-14 b.36.1.1 91692 1qauA 112 6.59e-14 1qauA b.36.1.1 24779 1q3oA 109 7.53e-14 b.36.1.1 95700 1nf3C 128 2.14e-13 b.36.1.1 85596 1wf7A 103 2.88e-13 1v5lA 103 3.05e-13 b.36.1.1 108378 1kwaA 88 5.32e-13 1kwaA b.36.1.1 24772 2f5yA 91 6.89e-13 1r6jA 82 2.12e-11 b.36.1.1 97151 1nteA 82 4.40e-11 b.36.1.1 86163 1lcyA 325 1.64e-06 b.36.1.4,b.47.1.1 73834,73835 1fc6A 388 1.79e-06 1fc6A b.36.1.3,c.14.1.2 64738,64739 1te0A 318 4.68e-06 1sotA 320 8.92e-05 b.36.1.4,b.47.1.1 105852,105853 1y8tA 324 1.07e-03 2a6tA 271 2.96e-02 1db3A 372 3.31e-01 1db3A c.2.1.2 29813 1a6f 119 4.17e-01 1a6f d.14.1.2 37564 1vpqA 273 4.63e-01 1o6dA 163 7.28e-01 c.116.1.3 92567 1lw6I 64 1.09e+00 d.40.1.1 74294 1fm0E 150 1.28e+00 1fmaE d.41.5.1 38629 2bh4X 134 1.32e+00 1reqB 637 1.85e+00 1reqB c.1.19.1,c.23.6.1 29621,31248 2bsyA 278 1.95e+00 1to2I 64 2.06e+00 1zn8A 180 2.60e+00 1cot 129 2.78e+00 1ycc a.3.1.1 15899 1nz0A 118 2.82e+00 d.14.1.2 86433 1yjmA 110 2.86e+00 2bshA 125 3.07e+00 1ujxA 119 3.26e+00 b.26.1.2 99473 1h6kA 757 3.46e+00 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2bhoA 130 3.70e+00 1kk1A 410 3.98e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1l3iA 192 4.14e+00 c.66.1.22 77676 1jhfA 202 4.21e+00 a.4.5.2,b.87.1.1 63057,63058 1k8wA 327 4.49e+00 b.122.1.1,d.265.1.2 83094,90388 1sflA 238 4.71e+00 3tmkA 216 4.88e+00 3tmkA c.37.1.1 31920 2brfA 110 4.90e+00 1xewX 182 5.06e+00 1xtmA 175 5.08e+00 2bsjA 133 5.55e+00 2bw3A 534 5.71e+00 1s4iA 175 5.77e+00 1yezA 68 5.97e+00 1z8gA 372 6.11e+00 1rypH 205 6.24e+00 d.153.1.4 41876 2d4pA 141 6.35e+00 2gm5A 139 6.44e+00 1koe 172 6.64e+00 1koe d.169.1.5 42448 1a62 130 6.82e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1h2vC 771 6.83e+00 a.118.1.14,a.118.1.14,a.118.1.14 76592,76593,76594 2f51A 118 6.94e+00 2cc0A 195 6.95e+00 1dg6A 191 7.03e+00 1d4vB b.22.1.1 23883 1xtlA 175 7.17e+00 1sfjA 238 7.28e+00 1r6xA 395 7.46e+00 b.122.1.3,c.26.1.5 97167,97168 1vj0A 380 7.84e+00 b.35.1.2,c.2.1.1 100786,100787 1cq3A 233 8.12e+00 1cq3A b.27.1.1 23923 1yvcA 70 8.44e+00 1l1dA 152 8.59e+00 b.88.1.3 73452 1txvA 452 8.66e+00 1ypcI 64 8.95e+00 2sniI d.40.1.1 38570 1gjjA 168 9.04e+00 a.140.1.1,a.140.1.1 83291,83292 1bx4A 345 9.30e+00 1bx4A c.72.1.1 34935 1t9iA 163 9.74e+00 1mzbA 136 1.03e+01 a.4.5.42 91497 1uc2A 481 1.04e+01 d.261.1.1 99161 1fxlA 167 1.05e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1rrmA 386 1.10e+01 e.22.1.2 105081 1pk1B 89 1.12e+01 1xv5A 401 1.15e+01 2axcA 264 1.19e+01 1h9oA 112 1.23e+01 1qadA d.93.1.1 60837 1unlD 208 1.24e+01 1kw4A 89 1.25e+01 a.60.1.2 73077 1uzcA 71 1.25e+01 a.159.2.1 100222 1fdr 248 1.25e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1h05A 146 1.26e+01 c.23.13.1 76433 1unkA 87 1.28e+01 1cei a.28.2.1 16935 1xewY 172 1.29e+01 1mkmA 249 1.31e+01 a.4.5.33,d.110.2.2 79242,79243 1k4mA 213 1.41e+01 c.26.1.3 77258 1dxrH 258 1.43e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1r13A 148 1.44e+01 d.169.1.1,h.1.1.1 96782,96783 1nmeA 146 1.47e+01 c.17.1.1 85874 1o88A 353 1.49e+01 b.80.1.1 81178 1yeyA 444 1.53e+01 1r61A 207 1.56e+01 c.8.8.1 97138 1x24A 180 1.62e+01 1ujqA 305 1.63e+01 c.1.12.7 99463 1q7hA 153 1.70e+01 b.122.1.1,d.17.6.2 96042,96043 1z5yE 149 1.71e+01 1air 353 1.75e+01 1air b.80.1.1 28018 1uh5A 329 1.75e+01 c.2.1.2 107840 2cw8A 537 1.77e+01 1g7sA 594 1.81e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 2c9wA 169 1.84e+01 1csh 435 1.85e+01 1csh a.103.1.1 18880 1yf3A 259 1.89e+01 1wi0A 113 1.93e+01 1q0sA 259 1.94e+01 c.66.1.28 95509 2b4aA 138 1.95e+01 1evlA 401 1.97e+01 1qf6A c.51.1.1,d.104.1.1 33202,40751 1rz2A 254 1.98e+01 b.100.1.1 105130 1zq9A 285 1.99e+01 1zckA 154 2.01e+01 1y0bA 197 2.02e+01 1ci9A 392 2.02e+01 e.3.1.1 64767 1js8A 394 2.03e+01 a.86.1.1,b.112.1.1 67219,67220 1sw5A 275 2.04e+01 c.94.1.1 106069 1n0qA 93 2.05e+01 k.37.1.1 79754 1cei 94 2.08e+01 1cei a.28.2.1 16939 1pgvA 197 2.09e+01 c.10.1.1 88073 1cliA 345 2.10e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1v5iB 76 2.12e+01 1yi9A 309 2.13e+01 1a8vA 121 2.14e+01 1a62 a.140.3.1,b.40.4.5 64712,64713 1sw5B 275 2.14e+01 c.94.1.1 106070 1ti6A 875 2.15e+01 b.52.2.2,c.81.1.1 106974,106975 2dhqA 146 2.16e+01 2dhqA c.23.13.1 31382 1eo6A 117 2.18e+01 1eo6A d.15.1.3 37609 1ifyA 49 2.27e+01 a.5.2.1 71207 1mq7A 154 2.28e+01 b.85.4.1 79404 1pueE 89 2.28e+01 1awcA a.4.5.21 16165 1p57B 255 2.30e+01 b.47.1.2 94126 1txvB 440 2.31e+01 1xo5A 183 2.35e+01 2c5qA 240 2.38e+01 1rypL 212 2.38e+01 d.153.1.4 41880 1u6bA 98 2.39e+01 d.58.7.1 107703 1ad3A 452 2.41e+01 1ad3A c.82.1.1 35335 1ww7A 160 2.51e+01 2gk4A 232 2.53e+01 1zyeA 220 2.54e+01 1uc8A 280 2.60e+01 c.30.1.6,d.142.1.7 99165,99166 1yb2A 275 2.62e+01 1qw2A 102 2.64e+01 d.249.1.1 96456 1jmuB 666 2.69e+01 1a8y 367 2.70e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 2gs8A 317 2.73e+01 1hssA 124 2.76e+01 1bea a.52.1.2 17819 1p99A 295 2.76e+01 c.94.1.1 94384 7taa 478 2.90e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1qhlA 227 3.04e+01 1qhlA c.37.1.12 32382 1fvrA 327 3.05e+01 d.144.1.7 60047 1rxdA 159 3.06e+01 2ahqA 76 3.08e+01 1urnA 97 3.13e+01 1urnA d.58.7.1 39153 1qb7A 236 3.17e+01 1qb7A c.61.1.1 34087 1jjtA 228 3.21e+01 1a7tA d.157.1.1 63139 1iq8A 582 3.22e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1x1oA 286 3.28e+01 1jvwA 167 3.30e+01 d.26.1.1 71907 2evwX 166 3.32e+01 1hu4A 288 3.34e+01 1hu4A 1y96A 86 3.42e+01 1d4oA 184 3.46e+01 1d4oA c.31.1.4 31748 1n5dA 288 3.47e+01 c.2.1.2 80030 1vheA 373 3.55e+01 b.49.3.1,c.56.5.4 100669,100670 1t6t1 118 3.58e+01 1rutX 188 3.66e+01 2as0A 396 3.67e+01 1zhvA 134 3.68e+01 1x6vA 630 3.69e+01 1ycoA 279 3.70e+01 1flmA 122 3.71e+01 1axj b.45.1.1 25747 1tif 78 3.77e+01 1tif d.15.8.1 37836 1wdiA 345 3.81e+01 1fgkA 310 3.86e+01 1fgkA d.144.1.7 41693 1bxeA 113 3.88e+01 1bxeA d.55.1.1 38898 1wkvA 389 3.89e+01 1g2hA 61 3.89e+01 1g2hA a.4.1.12 60224 1l1qA 186 3.92e+01 c.61.1.1 77653 1ztdA 133 3.97e+01 1wqsA 173 4.00e+01 2affA 120 4.01e+01 1aac 105 4.01e+01 1aac b.6.1.1 22838 1dvoA 152 4.03e+01 1dvoA a.136.1.1 19623 1zclA 180 4.05e+01 1bxaA 105 4.07e+01 1aac b.6.1.1 22839 1vekA 84 4.13e+01 2d9iA 96 4.13e+01 2ajfA 597 4.14e+01 1oi2A 366 4.16e+01 c.119.1.2 103802 1phm 310 4.19e+01 1phm b.121.1.2,b.121.1.2 59015,59016 1wmaA 276 4.19e+01 2btvA 901 4.21e+01 2btvA e.28.1.1 43376 1f9aA 168 4.24e+01 1f9aA c.26.1.3 31602 1vqqA 646 4.24e+01 2db1A 118 4.26e+01 1sixA 174 4.29e+01 b.85.4.1 98892 1fr3A 67 4.31e+01 1fr3A b.40.6.1 25436 1id2A 106 4.33e+01 1aac b.6.1.1 62288 2gu3A 136 4.35e+01 1fyxA 149 4.36e+01 1fyvA c.23.2.1 31128 1oroA 213 4.39e+01 1opr c.61.1.1 34093 1a79A 171 4.46e+01 1a79A c.52.2.1,d.75.1.1 33340,39739 2rslA 140 4.50e+01 2rslA c.53.1.1 33345 1at0 145 4.52e+01 1at0 b.86.1.1 28374 1viuA 203 4.58e+01 d.113.1.1 100771 1sfdA 105 4.62e+01 b.6.1.1 105480 1yloA 348 4.63e+01 2f7fA 494 4.68e+01 1g5tA 196 4.71e+01 1g5rA c.37.1.11 32366 1qo0D 196 4.71e+01 1qo0D c.23.1.3 31125 1u8vA 490 4.71e+01 1h4lD 147 4.73e+01 a.74.1.1 70873 1fxkC 133 4.76e+01 1fxkC a.2.5.1 15702 1kjyB 36 4.78e+01 1zxxA 319 4.82e+01 1e0tA 470 4.84e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 2aa4A 289 4.91e+01 1z1dA 103 5.01e+01 1p7hL 286 5.02e+01 b.1.18.1,b.2.5.3 94271,94272 1xpjA 126 5.06e+01 1u3nA 162 5.06e+01 1o63A 219 5.09e+01 c.94.1.1 92540 1f3z 161 5.12e+01 1gpr b.84.3.1 28273 1he1A 135 5.19e+01 1he1A a.24.11.1 16641 1se8A 301 5.21e+01 b.40.4.3 105448 1pswA 348 5.24e+01 c.87.1.7 88287 1kk8B 139 5.25e+01 a.39.1.5 77430 1xsvA 113 5.25e+01 2csbA 519 5.28e+01 1yg2A 179 5.33e+01 2cq2A 114 5.36e+01 1sdwA 314 5.38e+01 b.121.1.2,b.121.1.2 98810,98811 1iruK 201 5.39e+01 d.153.1.4 71362 2g3kA 94 5.46e+01 1yy6A 155 5.47e+01 1l0lB 439 5.49e+01 d.185.1.1,d.185.1.1 84484,84485 1xv2A 237 5.50e+01 1uwdA 103 5.51e+01 1jpaA 312 5.55e+01 d.144.1.7 67011 1jnyA 435 5.57e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1avaC 181 5.60e+01 1avaC b.42.4.1 25604 2bikB 313 5.62e+01 1r1qA 100 5.67e+01 d.93.1.1 104763 2fojA 155 5.73e+01 1a8p 258 5.76e+01 1fdr b.43.4.2,c.25.1.1 25654,31544 1ko7A 314 5.78e+01 c.98.2.1,c.91.1.2 72797,72798 1x3mA 415 5.78e+01 1vi6A 208 5.80e+01 c.23.15.1 100736 1r62A 160 5.84e+01 d.122.1.3 104816 1cv8 174 5.86e+01 1cv8 d.3.1.1 37089 1wvhA 134 5.89e+01 1zuoA 186 5.90e+01 1llnA 262 5.91e+01 d.165.1.1 84625 1t3qB 788 5.96e+01 d.41.1.1,d.133.1.1 106369,106370 1w9gA 104 5.98e+01 1l7bA 92 6.01e+01 c.15.1.2 91053 1q67A 231 6.02e+01 b.55.1.7 95960 2bkfA 87 6.12e+01 1rxwA 336 6.14e+01 a.60.7.1,c.120.1.2 98059,98060 1obfO 335 6.14e+01 c.2.1.3,d.81.1.1 86768,86769 1tm0A 350 6.17e+01 d.21.1.3 107147 2b8eA 273 6.22e+01 1ufkA 254 6.29e+01 c.66.1.39 99340 1zpwX 90 6.33e+01 1xebA 150 6.43e+01 1wi9A 72 6.44e+01 2a2pA 129 6.49e+01 1g8fA 511 6.50e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1fo8A 343 6.50e+01 1foaA c.68.1.10 59927 1drw 273 6.57e+01 1drw c.2.1.3,d.81.1.3 30057,39972 2bwbA 46 6.58e+01 1sv6A 269 6.79e+01 d.177.1.1 106043 2f5tX 233 6.80e+01 1qj2C 285 6.89e+01 1qj2C 2astC 69 6.89e+01 1ml8A 134 6.90e+01 d.227.1.2 85013 1u0sY 118 6.90e+01 c.23.1.1 107566 1rd5A 262 6.94e+01 1py5A 326 7.00e+01 d.144.1.7 104389 1w30A 201 7.03e+01 1wvqA 167 7.12e+01 1h3gA 601 7.16e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1earA 147 7.16e+01 b.107.1.1,d.58.38.1 64875,64876 1eudB 396 7.22e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 1r0vA 305 7.26e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1mvwB 145 7.30e+01 i.15.1.1 79524 1k4iA 233 7.31e+01 d.115.1.2 72056 1l2mA 118 7.45e+01 d.89.1.4 77657 1viaA 175 7.49e+01 c.37.1.2 100754 1c3pA 375 7.53e+01 1c3pA c.42.1.2 32606 1srrA 124 7.54e+01 1dz3A c.23.1.1 31110 1m6yA 301 7.54e+01 a.60.13.1,c.66.1.23 78716,78717 1qqgA 264 7.61e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 1a8l 226 7.64e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1ojhA 65 7.68e+01 a.214.1.1 103976 3ertA 261 7.69e+01 3erdA a.123.1.1 19292 1oiaA 95 7.86e+01 d.58.7.1 87051 2fhqA 141 7.87e+01 1dpuA 99 7.87e+01 1dpuA a.4.5.16 16150 2gwnA 452 7.89e+01 1tp6A 128 7.91e+01 d.17.4.12 107184 1nkqA 259 7.96e+01 d.177.1.1 103862 1g6oA 330 7.97e+01 1g6oA c.37.1.11 32430 1f61A 429 8.08e+01 1dquA c.1.12.7 29319 2b0vA 153 8.21e+01 1w94A 156 8.23e+01 2f9fA 177 8.26e+01 2gsaA 432 8.28e+01 2gsaA c.67.1.4 34446 1ir21 140 8.34e+01 2fp4B 395 8.45e+01 1lba 146 8.46e+01 1lba d.118.1.1 41062 1lngA 87 8.48e+01 d.201.1.1 74045 1xhdA 173 8.49e+01 1xvqA 175 8.54e+01 1ug6A 431 8.57e+01 c.1.8.4 88490 1diiC 80 8.58e+01 1diiC a.3.1.1 15925 1qynA 153 8.61e+01 d.33.1.1 96597 2fr1A 486 8.64e+01 1hvyA 288 8.68e+01 1bkpA d.117.1.1 41049 1ppjB 439 8.69e+01 d.185.1.1,d.185.1.1 104254,104255 1hr6B 443 8.77e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1fbnA 230 8.80e+01 1fbnA c.66.1.3 34181 1b8aA 438 8.97e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1g8sA 230 8.99e+01 c.66.1.3 90507