# List of top-scoring protein chains for t06-100-40-40-str2+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 2ge3A 170 1.46e-21 1yvoA 172 3.58e-20 1tiqA 180 1.14e-19 d.108.1.1 107010 1vhsA 175 1.52e-19 d.108.1.1 100698 2cy2A 174 7.42e-19 2ae6A 166 2.79e-18 1yreA 197 1.03e-17 2fckA 181 1.18e-17 1gheA 177 2.65e-17 d.108.1.1 76222 1wwzA 159 3.46e-17 1s7kA 182 4.59e-17 1z4eA 153 1.66e-16 1s3zA 165 4.02e-16 d.108.1.1 105250 2beiA 170 9.26e-16 2fe7A 166 1.37e-15 1i12A 160 6.77e-15 1i21A d.108.1.1 61515 2bswA 146 8.15e-15 1n71A 180 9.64e-15 d.108.1.1 85370 1cjwA 166 2.34e-14 1cjwA d.108.1.1 40818 2b5gA 171 1.45e-13 1qsmA 152 2.05e-13 1qsmA d.108.1.1 40808 2c27A 315 2.23e-13 1vkcA 158 2.36e-13 1on0A 158 3.14e-13 d.108.1.1 87095 1p0hA 318 3.74e-13 d.108.1.1 93866 2fsrA 195 4.19e-13 2fl4A 149 6.22e-13 1mk4A 157 1.07e-12 d.108.1.1 84979 1qstA 160 2.25e-12 1yghA d.108.1.1 40804 1q2yA 140 3.62e-12 d.108.1.1 95655 1z4rA 168 1.75e-11 1xebA 150 2.28e-11 1yx0A 159 2.83e-11 1yk3A 210 3.62e-11 1y9wA 140 2.22e-10 1y7rA 133 3.57e-10 2atrA 138 7.81e-10 2ganA 190 8.03e-10 1bo4A 168 1.25e-09 1bo4A d.108.1.1 40798 1m4iA 181 1.69e-09 d.108.1.1 74457 2g3aA 152 2.64e-09 1sqhA 312 2.86e-09 d.108.1.5 98966 2d4pA 141 3.40e-09 2aj6A 159 2.44e-08 1bob 320 1.00e-07 1bob d.108.1.1 40816 1ro5A 201 2.33e-07 d.108.1.3 105023 1lrzA 426 3.96e-05 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1kzfA 230 4.08e-05 d.108.1.3 73354 1yleA 342 4.98e-05 1iicA 422 5.07e-05 1nmtA d.108.1.2,d.108.1.2 62422,62423 1ne9A 335 1.14e-04 d.108.1.4,d.108.1.4 91839,91840 1xmtA 103 1.11e-03 2arhA 203 1.12e-02 2b8eA 273 1.51e-02 2cxaA 256 1.87e-02 1vhwA 253 3.63e-02 c.56.2.1 100706 1fy7A 278 4.06e-02 1fy7A d.108.1.1 40817 1rxyA 253 8.10e-02 c.56.2.1 98065 1fjgK 129 9.98e-02 1fjfK c.55.4.1 33733 1wnaA 131 1.07e-01 2givA 295 1.22e-01 1lkdA 297 1.28e-01 d.32.1.3,d.32.1.3 78059,78060 2bkyX 89 2.10e-01 1o50A 157 2.50e-01 d.37.1.1,d.37.1.1 92478,92479 1f1uA 323 2.67e-01 d.32.1.3,d.32.1.3 83200,83201 2f9zC 159 4.11e-01 1kcfA 258 4.16e-01 a.140.2.1,c.55.3.7 68434,68435 1y2qA 143 4.25e-01 1v93A 296 4.47e-01 c.1.23.1 100532 1odkA 235 4.69e-01 c.56.2.1 86863 2d5cA 263 4.71e-01 1ss4A 153 5.39e-01 d.32.1.6 105976 1hqsA 423 5.46e-01 1iso c.77.1.1 61154 1wdtA 665 5.58e-01 1cqxA 403 5.92e-01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1zhhB 242 7.88e-01 1pbjA 125 8.17e-01 d.37.1.1,d.37.1.1 94414,94415 1vmaA 306 8.18e-01 a.24.13.1,c.37.1.10 108887,108888 1usyA 275 8.29e-01 1g2qA 187 8.29e-01 c.61.1.1 65117 1vp8A 201 8.36e-01 1zo0A 126 8.71e-01 1f9zA 135 8.79e-01 1qipA d.32.1.1 38484 1qipA 183 9.40e-01 1qipA d.32.1.1 38470 1vicA 262 9.52e-01 c.68.1.13 100756 1xuqA 212 1.05e+00 1kw3B 292 1.06e+00 d.32.1.3,d.32.1.3 77549,77550 2g84A 197 1.09e+00 1o13A 136 1.14e+00 c.55.5.1 80762 1xreA 217 1.14e+00 1ei5A 520 1.16e+00 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1vq2A 193 1.19e+00 1kblA 873 1.23e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 2gwdA 449 1.25e+00 1vk9A 151 1.31e+00 c.139.1.1 108640 1nkiA 135 1.31e+00 d.32.1.2 91941 1f7uA 607 1.32e+00 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2awpA 198 1.44e+00 1o0xA 262 1.44e+00 d.127.1.1 80755 1npyA 271 1.47e+00 c.2.1.7,c.58.1.5 85995,85996 1j3wA 163 1.52e+00 d.110.7.1 90833 1sjyA 159 1.53e+00 d.113.1.1 98900 2fhxA 246 1.55e+00 1twfB 1224 1.66e+00 2au3A 407 1.70e+00 1iscA 192 1.78e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1m6kA 251 1.81e+00 e.3.1.1 78695 2b18A 164 1.88e+00 1ydgA 211 1.88e+00 1zp4A 304 1.90e+00 1txlA 215 1.90e+00 b.60.1.4 107429 1my6A 199 1.97e+00 a.2.11.1,d.44.1.1 85232,85233 1iznB 277 1.97e+00 e.43.1.2 83848 1xtaA 221 2.03e+00 1n0uA 842 2.05e+00 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1zyoA 191 2.13e+00 1vheA 373 2.18e+00 b.49.3.1,c.56.5.4 100669,100670 2frnA 278 2.18e+00 1ysjA 404 2.20e+00 1gx1A 160 2.25e+00 d.79.5.1 70675 1jpzA 473 2.26e+00 a.104.1.1 67069 1y81A 138 2.31e+00 1otjA 283 2.34e+00 b.82.2.5 93517 1ykdA 398 2.34e+00 1nf2A 268 2.37e+00 c.108.1.10 91849 1r6xA 395 2.41e+00 b.122.1.3,c.26.1.5 97167,97168 1wjgA 137 2.43e+00 1ry9A 145 2.53e+00 d.198.1.1 98094 1wteA 272 2.60e+00 1qz5A 375 2.65e+00 c.55.1.1,c.55.1.1 96614,96615 1f1xA 322 2.68e+00 d.32.1.3,d.32.1.3 83208,83209 2bl9A 238 2.69e+00 1cydA 244 2.72e+00 1cydA c.2.1.2 29825 1h5rA 293 2.74e+00 c.68.1.6 65623 1jftA 340 2.83e+00 a.35.1.5,c.93.1.1 66652,66653 2bd0A 244 2.85e+00 1ugjA 141 2.85e+00 b.41.1.3 107826 1qr0A 228 2.90e+00 1qr0A d.150.1.1,d.150.1.1 59038,59039 1ls1A 295 3.10e+00 a.24.13.1,c.37.1.10 78170,78171 1x1iA 752 3.11e+00 1xkzA 255 3.18e+00 1e19A 314 3.39e+00 1b7bA c.73.1.1 34967 1r45A 204 3.52e+00 1je0A 236 3.56e+00 c.56.2.1 66581 1xdzA 240 3.67e+00 1zmaA 118 3.71e+00 1qysA 106 3.78e+00 k.41.1.1 96603 1l3kA 196 3.78e+00 d.58.7.1,d.58.7.1 73539,73540 1h7eA 245 3.79e+00 c.68.1.13 60717 1zjcA 418 3.81e+00 1hdoA 206 3.88e+00 1he2A c.2.1.2 60965 2b0tA 738 3.92e+00 1pvmA 184 4.07e+00 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1q7lA 198 4.11e+00 c.56.5.4 96044 1p0zA 131 4.13e+00 d.110.6.1 93882 1wy7A 207 4.16e+00 1e8gA 560 4.20e+00 1qltA d.58.32.1,d.145.1.1 39455,41718 1zn8A 180 4.24e+00 2fvgA 340 4.30e+00 1ars 396 4.33e+00 1ajsA c.67.1.1 34287 1tzfA 259 4.53e+00 c.68.1.13 107476 1ypvA 313 4.57e+00 1x6vA 630 4.62e+00 1zczA 464 4.70e+00 1xfiA 367 4.81e+00 e.50.1.1 109584 2a9dA 372 4.82e+00 1vm0A 130 4.83e+00 d.68.6.2 108873 1ojqA 212 4.83e+00 d.166.1.1 93146 1jysA 242 4.91e+00 c.56.2.1 77216 2h3bA 494 5.13e+00 2dri 271 5.13e+00 2dri c.93.1.1 35637 1vdmA 153 5.23e+00 2b5hA 200 5.28e+00 2a40B 260 5.32e+00 1anf 370 5.44e+00 4mbp c.94.1.1 35776 2fxuA 375 5.47e+00 1pot 325 5.64e+00 1pot c.94.1.1 35807 1pea 385 5.68e+00 1pea c.93.1.1 35662 1um5H 217 5.70e+00 1p7gA 222 5.73e+00 a.2.11.1,d.44.1.1 94223,94224 2d1yA 256 5.76e+00 1uc8A 280 5.81e+00 c.30.1.6,d.142.1.7 99165,99166 1js8A 394 5.82e+00 a.86.1.1,b.112.1.1 67219,67220 1bupA 386 5.85e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1fmtA 314 5.87e+00 1fmtA b.46.1.1,c.65.1.1 25758,34174 2bcqA 335 5.89e+00 1gpjA 404 5.99e+00 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1ve6A 582 6.00e+00 1ytvA 366 6.08e+00 1zfjA 491 6.20e+00 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1bsmA 201 6.22e+00 1avmA a.2.11.1,d.44.1.1 15780,38743 1wruA 379 6.31e+00 1kyfA 247 6.33e+00 b.1.10.1,d.105.1.1 73220,73221 1xfjA 261 6.33e+00 d.194.1.2 109585 1gk8I 140 6.50e+00 d.73.1.1 65242 1cvl 319 6.52e+00 1cvl c.69.1.18 34786 1uz8B 212 6.54e+00 b.1.1.1,b.1.1.2 108168,108169 2akoA 251 6.56e+00 1wzcA 249 6.60e+00 1u14A 172 6.61e+00 c.51.4.3 107579 1yspA 181 6.79e+00 1ir21 140 6.84e+00 2bhmA 164 7.05e+00 1rkuA 206 7.05e+00 c.108.1.11 97627 2d9iA 96 7.17e+00 1yfsA 465 7.18e+00 1zceA 155 7.22e+00 2byoA 207 7.24e+00 1gs5A 258 7.35e+00 c.73.1.2 70395 1wkcA 184 7.35e+00 2hbtA 247 7.48e+00 1ksiA 642 7.58e+00 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1l3iA 192 7.63e+00 c.66.1.22 77676 1t1vA 93 7.65e+00 c.47.1.14 106278 1mkiA 330 7.68e+00 e.3.1.2 84994 1g24A 211 7.73e+00 1g24A d.166.1.1 42270 1fxoA 293 7.74e+00 1g0rA c.68.1.6 34524 1v3yA 192 7.82e+00 1tuaA 191 7.88e+00 d.51.1.1,d.51.1.1 107321,107322 1y0yA 353 7.97e+00 1jndA 420 8.16e+00 c.1.8.5,d.26.3.1 71757,71758 1z8gA 372 8.25e+00 8abp 306 8.32e+00 8abp c.93.1.1 35647 1y4tA 322 8.46e+00 1r8eA 278 8.46e+00 a.6.1.3,d.60.1.1 104843,104844 2fr1A 486 8.54e+00 2culA 232 8.68e+00 1jc4A 148 8.70e+00 1jc4A d.32.1.4 62863 2g19A 244 8.76e+00 1qo7A 394 8.77e+00 1qo7A c.69.1.11 34697 1tib 269 8.82e+00 3tgl c.69.1.17 34738 8rucI 123 8.85e+00 1rboC d.73.1.1 39629 1w5tA 412 9.07e+00 1a99A 344 9.11e+00 1pot c.94.1.1 35812 1xv2A 237 9.14e+00 2c4nA 250 9.22e+00 1zkjA 359 9.23e+00 1bywA 110 9.35e+00 1bywA d.110.3.6 40912 1vcoA 550 9.35e+00 c.23.16.1,c.37.1.10 108508,108509 1dbqA 289 9.40e+00 1qpzA c.93.1.1 35666 1rtqA 299 9.41e+00 c.56.5.4 97819 1t2jA 116 9.42e+00 2bz1A 196 9.54e+00 1v74A 107 9.58e+00 d.243.1.1 100442 1uehA 253 9.71e+00 c.101.1.1 99259 1m4jA 142 9.71e+00 d.109.1.2 78602 1jhdA 396 9.79e+00 b.122.1.3,c.26.1.5 66712,66713 1ehiA 377 9.89e+00 1iow c.30.1.2,d.142.1.1 31716,41484 1wyzA 242 1.00e+01 1w94A 156 1.00e+01 1zzmA 259 1.02e+01 1whzA 70 1.02e+01 1qh4A 380 1.03e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1orrA 347 1.03e+01 c.2.1.2 93460 1wk2A 121 1.04e+01 1wkyA 464 1.05e+01 1uslA 170 1.07e+01 c.121.1.1 99871 1ockA 412 1.07e+01 c.117.1.1 86802 1oacA 727 1.07e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1y0bA 197 1.08e+01 1si6X 282 1.08e+01 1w0mA 226 1.08e+01 c.1.1.1 109027 1ys1X 320 1.08e+01 1s2oA 244 1.09e+01 1kllA 130 1.09e+01 d.32.1.2 72720 1zzgA 415 1.09e+01 2a8nA 144 1.09e+01 1uesA 191 1.10e+01 a.2.11.1,d.44.1.1 107798,107799 1mpgA 282 1.11e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 2ggcA 263 1.11e+01 1tqnA 486 1.12e+01 a.104.1.1 107238 1g4wR 383 1.13e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1q9rB 222 1.13e+01 b.1.1.1,b.1.1.2 96307,96308 1zk7A 467 1.13e+01 1vr6A 350 1.16e+01 1uayA 242 1.16e+01 c.2.1.2 88390 1jyeA 349 1.16e+01 c.93.1.1 67455 1nv8A 284 1.18e+01 c.66.1.30 86224 1wv2A 265 1.19e+01 1omhA 293 1.19e+01 d.89.1.5 93348 1vb3A 428 1.19e+01 2a1rA 430 1.21e+01 1zu4A 320 1.21e+01 1rz3A 201 1.23e+01 c.37.1.6 98132 1fpzA 212 1.23e+01 1fpzA c.45.1.1 59976 2b3gA 123 1.23e+01 1zjjA 263 1.24e+01 2ew8A 249 1.25e+01 1vhoA 346 1.27e+01 b.49.3.1,c.56.5.4 100694,100695 1dqaA 467 1.27e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 2b3hA 329 1.27e+01 2hc1A 291 1.27e+01 2bh1A 250 1.28e+01 1o59A 355 1.31e+01 b.18.1.22,b.18.1.22 92495,92496 1svdM 110 1.31e+01 1w4rA 195 1.32e+01 1zwyA 185 1.32e+01 2ex4A 241 1.33e+01 1i0vA 104 1.33e+01 9rnt d.1.1.4 36054 1ppjB 439 1.34e+01 d.185.1.1,d.185.1.1 104254,104255 1cvrA 435 1.34e+01 1cvrA b.1.18.12,c.17.1.2 21949,31006 1m4tA 392 1.36e+01 c.95.1.1,c.95.1.1 78617,78618 2cfeA 162 1.36e+01 2g5dA 422 1.37e+01 1wkqA 164 1.37e+01 c.97.1.2 109393 2blnA 305 1.37e+01 1vefA 395 1.38e+01 1bif 469 1.40e+01 1bif c.37.1.7,c.60.1.4 31961,34003 2a3nA 355 1.40e+01 1m6pA 152 1.41e+01 1m6pA b.64.1.1 27519 1wzlA 585 1.42e+01 1jp4A 308 1.43e+01 1jp4A e.7.1.1 63223 1hi9A 274 1.44e+01 1hi9A c.99.1.1 61063 1q52A 314 1.45e+01 c.14.1.3 95846 1wcwA 261 1.45e+01 1ve1A 304 1.46e+01 1st9A 143 1.47e+01 c.47.1.10 98987 1b06A 210 1.47e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1ig3A 263 1.48e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1k3iA 656 1.50e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1mngA 203 1.52e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1jihA 531 1.52e+01 d.240.1.1,e.8.1.7 90374,90375 1jcfA 344 1.52e+01 c.55.1.1,c.55.1.1 62878,62879 1ix9A 205 1.53e+01 a.2.11.1,d.44.1.1 76899,76900 1ea7A 310 1.53e+01 c.41.1.1 70086 1qahA 136 1.54e+01 d.79.1.1 96338 1fp2A 352 1.55e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1usgA 346 1.56e+01 c.93.1.1 99864 1ooeA 236 1.57e+01 c.2.1.2 87196 1yfnA 118 1.57e+01 1oj5A 132 1.59e+01 d.110.3.8 93087 1zy9A 564 1.59e+01 2hgsA 474 1.60e+01 2hgsA c.30.1.4,d.142.1.6 31722,75997 1yqyA 523 1.60e+01 1eljA 381 1.61e+01 4mbp c.94.1.1 35791 1mla 309 1.62e+01 1mla c.19.1.1,d.58.23.1 31031,39383 2aexA 346 1.63e+01 2gp5A 349 1.64e+01 1po5A 476 1.65e+01 a.104.1.1 94963 1t62A 166 1.66e+01 b.122.1.4 106541 1sn4A 64 1.68e+01 1aho g.3.7.1 44136 1nzyA 269 1.69e+01 1nzyA c.14.1.3 30903 1rz2A 254 1.70e+01 b.100.1.1 105130 1wb0A 445 1.70e+01 1flcA 432 1.71e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1tjyA 316 1.71e+01 c.93.1.1 107062 1bhtA 176 1.73e+01 1bhtA g.10.1.1,g.14.1.1 44603,44663 1wddS 128 1.73e+01 1ou8A 111 1.73e+01 b.136.1.1 93543 1rk6A 496 1.75e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1jnyA 435 1.76e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1rloA 271 1.76e+01 1g5hA 454 1.76e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1t0aA 159 1.78e+01 1xs1A 193 1.78e+01 1uacH 114 1.79e+01 b.1.1.1 99132 1v1aA 309 1.84e+01 c.72.1.1 100249 1kdgA 546 1.86e+01 c.3.1.2,d.16.1.1 77337,77338 1u7eB 154 1.86e+01 1s4bP 674 1.86e+01 d.92.1.5 105252 1o7fA 469 1.86e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1xnzA 264 1.87e+01 1u6rA 380 1.88e+01 1n4xH 120 1.88e+01 b.1.1.1 85324 1vf8A 377 1.88e+01 1zx1A 231 1.90e+01 1eexB 224 1.91e+01 1dioB c.51.3.1 33213 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