# List of top-scoring protein chains for t06-100-30-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 4.78e-19 2fcfA 103 2.16e-17 2fe5A 94 5.01e-17 1tp5A 119 8.73e-17 1qavA 90 2.27e-16 1qauA b.36.1.1 24777 1g9oA 91 2.73e-16 1pdr b.36.1.1 60400 2h2bA 107 9.10e-16 1ihjA 98 1.19e-15 1pdr b.36.1.1 62382 2f0aA 98 4.49e-15 1q3oA 109 4.74e-15 b.36.1.1 95700 1n7eA 97 8.76e-15 b.36.1.1 91691 1n7fA 97 1.16e-14 b.36.1.1 91692 1qauA 112 1.47e-14 1qauA b.36.1.1 24779 2h3lA 103 2.82e-14 1mfgA 95 3.47e-14 b.36.1.1 79043 2f5yA 91 4.62e-14 1nf3C 128 5.63e-14 b.36.1.1 85596 1wf7A 103 6.59e-14 1kwaA 88 9.92e-14 1kwaA b.36.1.1 24772 1r6jA 82 1.63e-12 b.36.1.1 97151 1fc6A 388 2.37e-08 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 1.52e-07 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 2.78e-07 1y8tA 324 7.18e-05 2a6tA 271 4.55e-02 1vpqA 273 2.71e-01 1reqB 637 5.53e-01 1reqB c.1.19.1,c.23.6.1 29621,31248 1o6dA 163 6.22e-01 c.116.1.3 92567 2bh4X 134 8.55e-01 1fm0E 150 9.30e-01 1fmaE d.41.5.1 38629 2bhoA 130 1.40e+00 3tmkA 216 1.51e+00 3tmkA c.37.1.1 31920 2gm5A 139 1.59e+00 2bsjA 133 1.75e+00 1l3iA 192 1.89e+00 c.66.1.22 77676 1to2I 64 2.04e+00 1cq3A 233 2.06e+00 1cq3A b.27.1.1 23923 1koe 172 2.33e+00 1koe d.169.1.5 42448 1k8wA 327 2.46e+00 b.122.1.1,d.265.1.2 83094,90388 2f51A 118 2.81e+00 1dg6A 191 2.94e+00 1d4vB b.22.1.1 23883 1bx4A 345 3.39e+00 1bx4A c.72.1.1 34935 1h6kA 757 3.41e+00 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2bw3A 534 3.56e+00 1vj0A 380 3.57e+00 b.35.1.2,c.2.1.1 100786,100787 2brfA 110 3.62e+00 2d4pA 141 3.68e+00 1zq9A 285 3.78e+00 1a62 130 3.84e+00 1a62 a.140.3.1,b.40.4.5 64708,64709 1zn8A 180 3.91e+00 1t6t1 118 4.06e+00 1mzbA 136 4.16e+00 a.4.5.42 91497 1l1dA 152 4.35e+00 b.88.1.3 73452 1gjjA 168 4.59e+00 a.140.1.1,a.140.1.1 83291,83292 1unkA 87 4.70e+00 1cei a.28.2.1 16935 1nz0A 118 4.72e+00 d.14.1.2 86433 1wi0A 113 4.92e+00 1z8gA 372 4.93e+00 2bsyA 278 4.93e+00 1kw4A 89 5.04e+00 a.60.1.2 73077 1nmeA 146 5.20e+00 c.17.1.1 85874 1sflA 238 5.22e+00 1uc2A 481 5.24e+00 d.261.1.1 99161 1xtmA 175 5.35e+00 1h05A 146 5.38e+00 c.23.13.1 76433 2cc0A 195 5.58e+00 1h3gA 601 5.74e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1s4iA 175 5.84e+00 1pk1B 89 6.19e+00 1xewX 182 6.62e+00 1dxrH 258 6.67e+00 6prcH b.41.1.1,f.23.10.1 25456,43433 1js8A 394 6.96e+00 a.86.1.1,b.112.1.1 67219,67220 1pueE 89 7.10e+00 1awcA a.4.5.21 16165 1qw2A 102 7.26e+00 d.249.1.1 96456 2rslA 140 7.32e+00 2rslA c.53.1.1 33345 1kk1A 410 7.52e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1yvcA 70 7.88e+00 1rypH 205 8.09e+00 d.153.1.4 41876 1yb2A 275 8.17e+00 1evlA 401 8.28e+00 1qf6A c.51.1.1,d.104.1.1 33202,40751 2axcA 264 8.52e+00 1uc8A 280 8.75e+00 c.30.1.6,d.142.1.7 99165,99166 2c5qA 240 8.82e+00 1fxlA 167 8.97e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1cv8 174 8.99e+00 1cv8 d.3.1.1 37089 1a8y 367 9.10e+00 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1r6xA 395 9.11e+00 b.122.1.3,c.26.1.5 97167,97168 2cw8A 537 9.12e+00 2c9wA 169 9.16e+00 1vqqA 646 9.34e+00 1cliA 345 9.34e+00 1cliA d.79.4.1,d.139.1.1 39816,41459 1rrmA 386 9.85e+00 e.22.1.2 105081 1ti6A 875 1.01e+01 b.52.2.2,c.81.1.1 106974,106975 1h9oA 112 1.02e+01 1qadA d.93.1.1 60837 1u8vA 490 1.04e+01 1fdr 248 1.05e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 2aefA 234 1.08e+01 1qhlA 227 1.08e+01 1qhlA c.37.1.12 32382 1csh 435 1.09e+01 1csh a.103.1.1 18880 2ahqA 76 1.13e+01 1yeyA 444 1.13e+01 1yf3A 259 1.18e+01 1n0qA 93 1.20e+01 k.37.1.1 79754 1qb7A 236 1.23e+01 1qb7A c.61.1.1 34087 1jmuB 666 1.27e+01 1xv5A 401 1.29e+01 1jvwA 167 1.30e+01 d.26.1.1 71907 1z5yE 149 1.34e+01 1fgkA 310 1.40e+01 1fgkA d.144.1.7 41693 1zuoA 186 1.40e+01 1jhfA 202 1.43e+01 a.4.5.2,b.87.1.1 63057,63058 1xewY 172 1.44e+01 1rz2A 254 1.46e+01 b.100.1.1 105130 1rxdA 159 1.48e+01 1t9iA 163 1.49e+01 1mkmA 249 1.55e+01 a.4.5.33,d.110.2.2 79242,79243 2b4aA 138 1.63e+01 1g7sA 594 1.65e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1fr3A 67 1.67e+01 1fr3A b.40.6.1 25436 1w9gA 104 1.72e+01 1g2hA 61 1.76e+01 1g2hA a.4.1.12 60224 2fhqA 141 1.81e+01 1zhvA 134 1.89e+01 1txvA 452 1.91e+01 2gjsA 176 1.93e+01 1y0bA 197 1.94e+01 2gu3A 136 1.94e+01 1wdiA 345 1.96e+01 1q67A 231 1.99e+01 b.55.1.7 95960 1k4mA 213 2.00e+01 c.26.1.3 77258 7taa 478 2.02e+01 7taa b.71.1.1,c.1.8.1 27778,28765 2bwbA 46 2.06e+01 1sixA 174 2.09e+01 b.85.4.1 98892 1ufkA 254 2.10e+01 c.66.1.39 99340 1wqsA 173 2.12e+01 2gk4A 232 2.14e+01 2as0A 396 2.18e+01 1i36A 264 2.19e+01 a.100.1.8,c.2.1.6 71108,71109 1q7hA 153 2.21e+01 b.122.1.1,d.17.6.2 96042,96043 1yi9A 309 2.23e+01 1wvqA 167 2.23e+01 1axn 323 2.25e+01 1avc a.65.1.1 18149 1rutX 188 2.26e+01 1unlD 208 2.28e+01 1r62A 160 2.29e+01 d.122.1.3 104816 1d4oA 184 2.32e+01 1d4oA c.31.1.4 31748 1yloA 348 2.35e+01 1ztdA 133 2.36e+01 1at0 145 2.38e+01 1at0 b.86.1.1 28374 1zxxA 319 2.39e+01 2bkfA 87 2.39e+01 2fi0A 81 2.42e+01 1ww7A 160 2.43e+01 1ycoA 279 2.46e+01 1wi9A 72 2.48e+01 1hssA 124 2.48e+01 1bea a.52.1.2 17819 1se8A 301 2.53e+01 b.40.4.3 105448 2a2pA 129 2.53e+01 1xvqA 175 2.54e+01 1sfdA 105 2.56e+01 b.6.1.1 105480 1oi2A 366 2.58e+01 c.119.1.2 103802 1sv6A 269 2.62e+01 d.177.1.1 106043 1nkqA 259 2.62e+01 d.177.1.1 103862 1e0tA 470 2.75e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1o88A 353 2.77e+01 b.80.1.1 81178 2f5tX 233 2.79e+01 1cruA 454 2.83e+01 1c9uA b.68.2.1 27617 2d9iA 96 2.83e+01 1tif 78 2.84e+01 1tif d.15.8.1 37836 1viaA 175 2.84e+01 c.37.1.2 100754 1uh5A 329 2.87e+01 c.2.1.2 107840 1yy6A 155 2.93e+01 1fxkC 133 2.93e+01 1fxkC a.2.5.1 15702 1sknP 92 3.02e+01 1sknP a.37.1.1 17127 2fojA 155 3.02e+01 1vekA 84 3.15e+01 1l2mA 118 3.19e+01 d.89.1.4 77657 1pgvA 197 3.23e+01 c.10.1.1 88073 1p99A 295 3.26e+01 c.94.1.1 94384 2csbA 519 3.26e+01 1jnyA 435 3.27e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1dvoA 152 3.31e+01 1dvoA a.136.1.1 19623 1earA 147 3.32e+01 b.107.1.1,d.58.38.1 64875,64876 1xsvA 113 3.33e+01 1ci9A 392 3.34e+01 e.3.1.1 64767 1r61A 207 3.36e+01 c.8.8.1 97138 1jjtA 228 3.38e+01 1a7tA d.157.1.1 63139 2abwA 227 3.51e+01 1pswA 348 3.57e+01 c.87.1.7 88287 1wkvA 389 3.58e+01 1r0vA 305 3.59e+01 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1iq8A 582 3.59e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1gky 187 3.60e+01 1gky c.37.1.1 31839 1wmaA 276 3.63e+01 1u2cA 246 3.65e+01 b.1.6.2,d.272.1.1 107610,107611 1v5iB 76 3.66e+01 1tr8A 102 3.67e+01 2evwX 166 3.71e+01 1fo8A 343 3.80e+01 1foaA c.68.1.10 59927 1yg2A 179 3.84e+01 1vzyA 291 3.92e+01 1id2A 106 3.92e+01 1aac b.6.1.1 62288 1umzA 278 3.96e+01 b.29.1.2 99639 1b65A 375 4.01e+01 1b65A d.154.1.1 42020 1ojhA 65 4.03e+01 a.214.1.1 103976 1ryp1 222 4.07e+01 1ryp1 2db1A 118 4.10e+01 1rxwA 336 4.10e+01 a.60.7.1,c.120.1.2 98059,98060 1repC 251 4.13e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1h3qA 140 4.16e+01 d.110.4.3 76652 1y96A 86 4.18e+01 1l0bA 229 4.28e+01 c.15.1.3,c.15.1.3 73391,73392 1z1dA 103 4.29e+01 1r1qA 100 4.29e+01 d.93.1.1 104763 8rucI 123 4.32e+01 1rboC d.73.1.1 39629 1z08A 170 4.33e+01 1zrjA 50 4.37e+01 1sw5A 275 4.44e+01 c.94.1.1 106069 1v9mA 323 4.45e+01 f.40.1.1 100543 1oeyA 83 4.47e+01 d.15.2.2 92800 1xebA 150 4.52e+01 1cc8A 73 4.54e+01 1cc8A d.58.17.1 39343 1nykA 165 4.57e+01 b.33.1.1 86408 2bneA 241 4.64e+01 1bouA 139 4.69e+01 1bouA a.88.1.1 18521 1gpr 162 4.75e+01 1gpr b.84.3.1 28267 1tkkA 366 4.81e+01 c.1.11.2,d.54.1.1 107089,107090 1b8aA 438 4.83e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1z96A 40 4.85e+01 1x1oA 286 4.85e+01 2napA 723 4.86e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1ypvA 313 4.86e+01 1czfA 362 4.89e+01 1czfA b.80.1.3 28031 1b43A 340 4.96e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 2fp4B 395 4.96e+01 1zpwX 90 4.96e+01 1sw5B 275 5.00e+01 c.94.1.1 106070 1jpaA 312 5.06e+01 d.144.1.7 67011 1ex2A 189 5.06e+01 1ex2A c.51.4.2 33225 1pyoA 167 5.09e+01 c.17.1.1 95370 1ebfA 358 5.15e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1iruK 201 5.16e+01 d.153.1.4 71362 1y7lA 316 5.27e+01 1eo6A 117 5.31e+01 1eo6A d.15.1.3 37609 2ffuA 501 5.31e+01 2aa4A 289 5.35e+01 1rypL 212 5.44e+01 d.153.1.4 41880 2btvA 901 5.46e+01 2btvA e.28.1.1 43376 1he1A 135 5.48e+01 1he1A a.24.11.1 16641 1xv2A 237 5.53e+01 1vjyA 303 5.55e+01 d.144.1.7 108633 1ex7A 186 5.56e+01 1gky c.37.1.1 59537 1gk8I 140 5.58e+01 d.73.1.1 65242 1vkiA 181 5.62e+01 d.116.1.1 108664 1qd1A 325 5.62e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1x3mA 415 5.62e+01 1gk8A 475 5.63e+01 c.1.14.1,d.58.9.1 65234,65235 2fsxA 148 5.65e+01 1xo5A 183 5.67e+01 1bb9 115 5.67e+01 1bb9 b.34.2.1 24554 1mvoA 136 5.68e+01 c.23.1.1 79513 1h3fA 432 5.69e+01 c.26.1.1,d.66.1.4 76631,76632 1ve0A 134 5.69e+01 1ppjB 439 5.70e+01 d.185.1.1,d.185.1.1 104254,104255 1flmA 122 5.83e+01 1axj b.45.1.1 25747 1ir21 140 5.83e+01 1s3cA 141 5.91e+01 1i4jA 110 5.95e+01 d.55.1.1 76734 2f3yA 148 5.95e+01 1wfxA 186 5.97e+01 1wmhA 89 5.98e+01 1kgdA 180 5.99e+01 c.37.1.1 68582 1lvaA 258 6.07e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1wvhA 134 6.09e+01 2f9fA 177 6.10e+01 1i1qB 192 6.18e+01 1qdlB c.23.16.1 61544 1ghpA 258 6.31e+01 1btl e.3.1.1 60520 1iscA 192 6.36e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1t3iA 420 6.41e+01 c.67.1.3 106354 1rypK 198 6.42e+01 d.153.1.4 41879 2fr1A 486 6.43e+01 1iqqA 200 6.53e+01 d.124.1.1 66274 1rwrA 301 6.53e+01 b.80.1.11 97990 1lngA 87 6.53e+01 d.201.1.1 74045 1xtqA 177 6.61e+01 1d9uA 154 6.62e+01 1am7A d.2.1.4 59111 1st9A 143 6.62e+01 c.47.1.10 98987 1gmxA 108 6.66e+01 c.46.1.3 65355 1rd5A 262 6.75e+01 1k1vA 41 6.78e+01 a.37.1.1 71999 1dpe 507 6.83e+01 1dpe c.94.1.1 35799 2a8eA 220 6.87e+01 2an3A 289 6.88e+01 1a8l 226 6.88e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1kk8B 139 6.89e+01 a.39.1.5 77430 1mspA 126 6.99e+01 1mspA b.1.11.2 22333 1xpjA 126 6.99e+01 1g5tA 196 7.05e+01 1g5rA c.37.1.11 32366 2g7zA 282 7.09e+01 1ay7B 89 7.10e+01 1ay7B c.9.1.1 30836 1cex 214 7.19e+01 1cex c.69.1.30 31285 2bikB 313 7.28e+01 1y8oB 128 7.29e+01 1fpzA 212 7.32e+01 1fpzA c.45.1.1 59976 1fkmA 396 7.33e+01 1fkmA a.69.2.1,a.69.2.1 18315,18316 1oh4A 179 7.34e+01 b.18.1.18 92978 2fe7A 166 7.37e+01 2b4lA 268 7.40e+01 1tmy 120 7.40e+01 1dbwA c.23.1.1 31083 1vqvA 306 7.44e+01 1zavA 180 7.45e+01 1oxxK 353 7.55e+01 b.40.6.3,c.37.1.12 93715,93716 1um0A 365 7.58e+01 d.258.1.1 107942 1m6yA 301 7.62e+01 a.60.13.1,c.66.1.23 78716,78717 2c71A 216 7.63e+01 1k4iA 233 7.64e+01 d.115.1.2 72056 2c60A 111 7.69e+01 1bdfA 235 7.77e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1l1qA 186 7.78e+01 c.61.1.1 77653 2cq2A 114 7.81e+01 2g76A 335 7.83e+01 2bi7A 384 7.97e+01 2b0vA 153 8.09e+01 1exrA 148 8.10e+01 1cll a.39.1.5 17299 2b8eA 273 8.12e+01 1yb3A 175 8.15e+01 1xbbA 291 8.18e+01 1llnA 262 8.24e+01 d.165.1.1 84625 1w94A 156 8.29e+01 1a2yB 116 8.37e+01 1gc1H b.1.1.1 19927 1vi6A 208 8.46e+01 c.23.15.1 100736 1nuuA 252 8.48e+01 c.26.1.3 86209 1nnhA 294 8.53e+01 d.104.1.1 92005 1bxvA 91 8.59e+01 1aac b.6.1.1 22875 1o54A 277 8.73e+01 c.66.1.13 92482 1yqfA 203 8.81e+01 1z85A 234 8.86e+01 1zoxA 113 8.88e+01 2bkyX 89 8.92e+01 1zj6A 187 8.95e+01 1qynA 153 9.00e+01 d.33.1.1 96597