# List of top-scoring protein chains for t06-100-30-bys-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 3.85e-19 2fe5A 94 5.56e-17 1tp5A 119 5.81e-17 2fcfA 103 8.01e-17 1qavA 90 1.87e-16 1qauA b.36.1.1 24777 1g9oA 91 3.93e-16 1pdr b.36.1.1 60400 2h2bA 107 1.31e-15 1n7eA 97 1.78e-15 b.36.1.1 91691 1q3oA 109 3.19e-15 b.36.1.1 95700 1n7fA 97 3.39e-15 b.36.1.1 91692 2f0aA 98 7.35e-15 1ihjA 98 1.04e-14 1pdr b.36.1.1 62382 1mfgA 95 3.97e-14 b.36.1.1 79043 1wf7A 103 4.59e-14 1nf3C 128 5.26e-14 b.36.1.1 85596 2h3lA 103 8.04e-14 1qauA 112 1.27e-13 1qauA b.36.1.1 24779 2f5yA 91 1.53e-13 1kwaA 88 1.98e-13 1kwaA b.36.1.1 24772 1r6jA 82 3.02e-13 b.36.1.1 97151 1fc6A 388 1.96e-10 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 8.83e-07 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.53e-05 1y8tA 324 7.17e-04 1qb7A 236 4.46e-02 1qb7A c.61.1.1 34087 1zn8A 180 8.15e-02 1mkmA 249 4.27e-01 a.4.5.33,d.110.2.2 79242,79243 1koe 172 4.82e-01 1koe d.169.1.5 42448 1t6t1 118 8.19e-01 2d4pA 141 1.02e+00 1to2I 64 1.21e+00 1poiA 317 1.24e+00 1poiA c.124.1.2 34153 1eaxA 241 1.48e+00 b.47.1.2 64889 1cq3A 233 1.87e+00 1cq3A b.27.1.1 23923 1h3gA 601 2.04e+00 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1zsyA 357 2.20e+00 1vkmA 297 2.37e+00 c.138.1.1 108670 1kw4A 89 2.48e+00 a.60.1.2 73077 1kk1A 410 2.54e+00 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2h03A 291 2.63e+00 1yg9A 330 2.77e+00 1i4jA 110 3.00e+00 d.55.1.1 76734 1x3mA 415 3.09e+00 1bu6O 501 3.27e+00 1glcG c.55.1.4,c.55.1.4 33499,33500 2hc1A 291 3.32e+00 2fa1A 160 3.73e+00 1o6dA 163 3.81e+00 c.116.1.3 92567 2bhoA 130 3.85e+00 2ckiA 262 4.04e+00 1uc2A 481 4.07e+00 d.261.1.1 99161 1fxlA 167 4.31e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1vpqA 273 4.62e+00 1rutX 188 4.83e+00 1fr3A 67 4.92e+00 1fr3A b.40.6.1 25436 1uh5A 329 5.03e+00 c.2.1.2 107840 1x6vA 630 5.14e+00 1ypvA 313 5.19e+00 1q52A 314 6.25e+00 c.14.1.3 95846 2abwA 227 6.46e+00 2f51A 118 6.68e+00 2bsjA 133 6.69e+00 1yvcA 70 6.69e+00 1nmeA 146 7.07e+00 c.17.1.1 85874 1eceA 358 7.22e+00 1eceA c.1.8.3 28813 1ti6A 875 7.69e+00 b.52.2.2,c.81.1.1 106974,106975 1zh5A 195 7.78e+00 1w94A 156 7.97e+00 1vraB 215 8.25e+00 1ojhA 65 8.37e+00 a.214.1.1 103976 1g57A 217 8.44e+00 1g57A d.115.1.2 60253 1g38A 393 9.04e+00 2admA c.66.1.27 60235 1zm8A 259 9.08e+00 1f28A 297 9.51e+00 1bkpA d.117.1.1 59608 1yb2A 275 9.97e+00 1bouA 139 1.01e+01 1bouA a.88.1.1 18521 2cc0A 195 1.01e+01 2a6cA 83 1.02e+01 1gjjA 168 1.11e+01 a.140.1.1,a.140.1.1 83291,83292 1v93A 296 1.12e+01 c.1.23.1 100532 2gwnA 452 1.16e+01 1vdmA 153 1.20e+01 1ex7A 186 1.22e+01 1gky c.37.1.1 59537 1w99A 558 1.23e+01 1y7lA 316 1.24e+01 2a6hC 1119 1.25e+01 2g76A 335 1.26e+01 1z85A 234 1.29e+01 1wi5A 119 1.30e+01 2fuqA 747 1.31e+01 1qzzA 374 1.40e+01 a.4.5.29,c.66.1.12 96719,96720 2ptd 298 1.41e+01 2plc c.1.18.2 29605 1xkzA 255 1.41e+01 1jmuB 666 1.44e+01 1rlyA 60 1.46e+01 g.41.3.1 104988 1fm0E 150 1.47e+01 1fmaE d.41.5.1 38629 1gky 187 1.48e+01 1gky c.37.1.1 31839 1jnyA 435 1.51e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2ahqA 76 1.51e+01 2bw3A 534 1.56e+01 1l1dA 152 1.56e+01 b.88.1.3 73452 1ebfA 358 1.58e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1hnjA 317 1.59e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2g0qA 173 1.61e+01 1ci9A 392 1.65e+01 e.3.1.1 64767 1z1dA 103 1.65e+01 1ueoA 63 1.73e+01 j.107.1.1 99269 1earA 147 1.74e+01 b.107.1.1,d.58.38.1 64875,64876 1h1dA 221 1.80e+01 c.66.1.1 83452 1zuoA 186 1.82e+01 1sknP 92 1.85e+01 1sknP a.37.1.1 17127 1xv5A 401 1.87e+01 2a9gA 418 1.89e+01 1t6eX 381 1.93e+01 b.50.1.2 106564 1nkqA 259 1.95e+01 d.177.1.1 103862 1v7lA 163 1.96e+01 2bsyA 278 1.98e+01 2d1pC 95 2.02e+01 1js8A 394 2.04e+01 a.86.1.1,b.112.1.1 67219,67220 2aefA 234 2.04e+01 1d7oA 297 2.07e+01 1enp c.2.1.2 29907 1avaC 181 2.11e+01 1avaC b.42.4.1 25604 1b25A 619 2.14e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1id2A 106 2.22e+01 1aac b.6.1.1 62288 2frgP 106 2.25e+01 1lvoA 302 2.28e+01 b.47.1.4 74284 2bh8A 101 2.29e+01 1t3qB 788 2.32e+01 d.41.1.1,d.133.1.1 106369,106370 2ghpA 292 2.34e+01 2a6zA 222 2.34e+01 2c6cA 707 2.34e+01 1r6wA 322 2.38e+01 c.1.11.2,d.54.1.1 97165,97166 2as0A 396 2.38e+01 1vcoA 550 2.41e+01 c.23.16.1,c.37.1.10 108508,108509 1f60A 458 2.42e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 2gaeA 346 2.50e+01 1tygB 87 2.53e+01 d.15.3.2 107455 2cw9A 194 2.57e+01 1iznB 277 2.59e+01 e.43.1.2 83848 2biwA 490 2.60e+01 1zq9A 285 2.60e+01 2g8mA 264 2.61e+01 1vs0A 310 2.64e+01 1l3iA 192 2.67e+01 c.66.1.22 77676 1wxxA 382 2.69e+01 1zczA 464 2.69e+01 1cliA 345 2.77e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1z96A 40 2.77e+01 1vqqA 646 2.81e+01 2g6fX 59 2.81e+01 1kqwA 134 2.82e+01 b.60.1.2 72887 1shxA 138 2.82e+01 1nulA 152 2.87e+01 1nulA c.61.1.1 34011 1htrB 329 2.87e+01 1smrA 1eexA 554 2.88e+01 1dioA c.1.19.3 29650 1rrmA 386 2.89e+01 e.22.1.2 105081 2fvgA 340 2.90e+01 1x1oA 286 2.94e+01 1xdnA 277 3.01e+01 1oqvA 192 3.05e+01 d.24.1.2 87320 1eyqA 222 3.13e+01 1eypA d.36.1.1 38534 1i8dA 213 3.13e+01 b.43.4.3,b.43.4.3 61953,61954 1hh1A 143 3.14e+01 1gefA c.52.1.18 61036 1sfdA 105 3.15e+01 b.6.1.1 105480 1at0 145 3.16e+01 1at0 b.86.1.1 28374 1rxdA 159 3.21e+01 1u1iA 392 3.21e+01 c.2.1.3,d.81.1.3 107582,107583 1rxwA 336 3.22e+01 a.60.7.1,c.120.1.2 98059,98060 2d9iA 96 3.26e+01 1h05A 146 3.28e+01 c.23.13.1 76433 1mngA 203 3.34e+01 1avmA a.2.11.1,d.44.1.1 15776,38701 1a8l 226 3.35e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1vc3B 97 3.38e+01 1oktA 211 3.43e+01 a.45.1.1,c.47.1.5 93272,93273 1lvaA 258 3.51e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1bxvA 91 3.56e+01 1aac b.6.1.1 22875 1bx4A 345 3.56e+01 1bx4A c.72.1.1 34935 2ae0X 345 3.59e+01 1g6hA 257 3.72e+01 1gajA c.37.1.12 60318 2bneA 241 3.76e+01 2g8oA 264 3.77e+01 1lba 146 3.78e+01 1lba d.118.1.1 41062 1vj0A 380 3.78e+01 b.35.1.2,c.2.1.1 100786,100787 1pk1B 89 3.79e+01 1dzfA 215 3.81e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1wkvA 389 3.82e+01 1o88A 353 3.87e+01 b.80.1.1 81178 1m45A 148 3.93e+01 a.39.1.5 78598 1sw5A 275 3.94e+01 c.94.1.1 106069 1h72C 296 3.95e+01 d.14.1.5,d.58.26.1 60712,60713 2b7uA 257 4.07e+01 2anuA 255 4.08e+01 1dljA 402 4.13e+01 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1k1vA 41 4.16e+01 a.37.1.1 71999 1dkuA 317 4.16e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1l2mA 118 4.18e+01 d.89.1.4 77657 2fhqA 141 4.21e+01 1w2iA 91 4.23e+01 d.58.10.1 109127 1sdjA 310 4.27e+01 d.21.1.2,d.21.1.2 98807,98808 1j1lA 290 4.27e+01 b.82.1.12 90766 2fxqA 264 4.27e+01 1yrrA 382 4.27e+01 2cxaA 256 4.29e+01 1h6kA 757 4.32e+01 a.118.1.14,a.118.1.14,a.118.1.14 60675,60676,60677 2apr 325 4.34e+01 2er7E b.50.1.2 26819 3tmkA 216 4.35e+01 3tmkA c.37.1.1 31920 1tr8A 102 4.35e+01 1es9A 232 4.38e+01 1wab c.23.10.3 31340 1umzA 278 4.40e+01 b.29.1.2 99639 2fojA 155 4.41e+01 2a6tA 271 4.41e+01 2bhvA 246 4.42e+01 1wkyA 464 4.43e+01 1w5tA 412 4.44e+01 1egpA 45 4.44e+01 1egpA d.40.1.1 38561 1k32A 1045 4.44e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2brfA 110 4.56e+01 1n0qA 93 4.58e+01 k.37.1.1 79754 2csbA 519 4.63e+01 1uheA 97 4.70e+01 1zyiA 171 4.70e+01 1rz3A 201 4.73e+01 c.37.1.6 98132 1w78A 422 4.77e+01 1repC 251 4.79e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1xe1A 116 4.86e+01 b.43.3.1 109571 1h30A 422 4.88e+01 b.29.1.4,b.29.1.4 76604,76605 1o57A 291 4.94e+01 a.4.5.40,c.61.1.1 92483,92484 1k8wA 327 4.97e+01 b.122.1.1,d.265.1.2 83094,90388 1t3iA 420 4.99e+01 c.67.1.3 106354 1sw5B 275 5.00e+01 c.94.1.1 106070 1sv6A 269 5.02e+01 d.177.1.1 106043 2bkfA 87 5.03e+01 2f02A 323 5.09e+01 1yy6A 155 5.09e+01 1m1hA 248 5.09e+01 b.114.1.1,d.58.42.1 78415,78416 1mpp 361 5.09e+01 2rmpA b.50.1.2 26856 1txvA 452 5.15e+01 1o12A 376 5.16e+01 b.92.1.5,c.1.9.10 80758,80759 1ctf 74 5.18e+01 1ctf d.45.1.1 38759 1wlsA 328 5.18e+01 1mqiA 263 5.20e+01 c.94.1.1 91398 1dcjA 81 5.23e+01 1dcjA d.68.3.3 59115 2gfhA 260 5.24e+01 1jyhA 157 5.26e+01 d.60.1.3 71956 1xodA 118 5.31e+01 1unkA 87 5.35e+01 1cei a.28.2.1 16935 1f8fA 371 5.38e+01 b.35.1.2,c.2.1.1 83246,83247 1fjgK 129 5.41e+01 1fjfK c.55.4.1 33733 1s2oA 244 5.43e+01 1jysA 242 5.44e+01 c.56.2.1 77216 1q7hA 153 5.47e+01 b.122.1.1,d.17.6.2 96042,96043 1vqvA 306 5.48e+01 1yqfA 203 5.48e+01 1lam 484 5.51e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1iscA 192 5.52e+01 1avmA a.2.11.1,d.44.1.1 15733,38726 1rwrA 301 5.53e+01 b.80.1.11 97990 2rslA 140 5.57e+01 2rslA c.53.1.1 33345 1hw1A 239 5.59e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1rypH 205 5.59e+01 d.153.1.4 41876 1m9xC 146 5.61e+01 a.73.1.1 84907 1a62 130 5.61e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1z3eA 132 5.61e+01 1i2kA 269 5.62e+01 e.17.1.1 90661 1oxxK 353 5.63e+01 b.40.6.3,c.37.1.12 93715,93716 1jndA 420 5.64e+01 c.1.8.5,d.26.3.1 71757,71758 1sv0C 82 5.71e+01 a.60.1.1 106037 2c5qA 240 5.72e+01 1vlgA 176 5.75e+01 a.25.1.1 108816 1gpr 162 5.77e+01 1gpr b.84.3.1 28267 1f5nA 592 5.80e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1fjrA 195 5.81e+01 1fjrA b.102.1.1 59855 1kqpA 271 5.82e+01 c.26.2.1 72883 1m65A 245 5.85e+01 c.6.3.1 84847 1o91A 178 5.90e+01 b.22.1.1 92656 1hgxA 183 5.91e+01 1tc1A c.61.1.1 34027 1yz7A 188 5.93e+01 1mk4A 157 5.95e+01 d.108.1.1 84979 2b69A 343 5.98e+01 2h0uA 217 6.05e+01 2b18A 164 6.06e+01 1fgkA 310 6.08e+01 1fgkA d.144.1.7 41693 1y7rA 133 6.09e+01 1srrA 124 6.12e+01 1dz3A c.23.1.1 31110 1sflA 238 6.14e+01 1q1rA 431 6.15e+01 c.3.1.5,c.3.1.5,d.87.1.1 95600,95601,95602 1csh 435 6.16e+01 1csh a.103.1.1 18880 1kmvA 186 6.25e+01 c.71.1.1 72757 2fi0A 81 6.30e+01 1bkzA 135 6.33e+01 1a3k b.29.1.3 24202 1o50A 157 6.33e+01 d.37.1.1,d.37.1.1 92478,92479 1zmoA 244 6.40e+01 2bhmA 164 6.41e+01 1exrA 148 6.45e+01 1cll a.39.1.5 17299 2gm5A 139 6.48e+01 2c9wA 169 6.48e+01 2f3yA 148 6.50e+01 1ef8A 261 6.52e+01 1ef8A c.14.1.3 30921 1v0eA 666 6.58e+01 1nqjA 119 6.64e+01 b.23.2.1 86031 2cyjA 118 6.72e+01 1ex0A 731 6.79e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2d8aA 348 6.82e+01 1r61A 207 6.87e+01 c.8.8.1 97138 1ugmA 125 6.93e+01 d.15.1.3 107827 1ggzA 148 6.93e+01 a.39.1.5 70176 1mzbA 136 6.96e+01 a.4.5.42 91497 1yloA 348 7.02e+01 1s29A 92 7.02e+01 a.4.5.46 98373 1yb3A 175 7.05e+01 1gvhA 396 7.10e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1hz6A 72 7.12e+01 2ptl d.15.7.1 61429 1xjvA 294 7.16e+01 1g31A 111 7.16e+01 1g31A b.35.1.1 24656 2cu3A 64 7.20e+01 1q7zA 566 7.22e+01 c.1.21.2,c.1.26.1 96090,96091 2f9hA 129 7.31e+01 1a8y 367 7.31e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1vplA 256 7.45e+01 1zybA 232 7.45e+01 1cv8 174 7.48e+01 1cv8 d.3.1.1 37089 1ym5A 300 7.58e+01 1yz4A 160 7.63e+01 2axwA 134 7.72e+01 1g0cA 364 7.72e+01 7a3hA c.1.8.3 60165 2f6uA 234 7.78e+01 1z82A 335 7.79e+01 1px5A 349 7.79e+01 a.160.1.2,d.218.1.6 95277,95278 1rhcA 330 7.93e+01 c.1.16.3 97468 1rqtA 37 7.98e+01 a.108.1.1 97771 1tif 78 8.03e+01 1tif d.15.8.1 37836 1rm6A 769 8.03e+01 1oalA 151 8.07e+01 b.1.8.1 86739 1wmiA 90 8.12e+01 2h88A 621 8.13e+01 1iq8A 582 8.28e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1xx6A 191 8.35e+01 1trb 320 8.36e+01 1trb c.3.1.5,c.3.1.5 30529,30530 2coeA 120 8.38e+01 1zmmA 33 8.39e+01 1ri9A 102 8.45e+01 b.34.2.1 97506 1zpdA 568 8.63e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1g3qA 237 8.67e+01 1hyqA c.37.1.10 60237 1m15A 357 8.67e+01 a.83.1.1,d.128.1.2 78368,78369 1neyA 247 8.68e+01 c.1.1.1 80449 1i27A 73 8.68e+01 1i27A a.4.5.30 61555 1o54A 277 8.68e+01 c.66.1.13 92482 1wc3A 219 8.68e+01 1hbkA 94 8.80e+01 1aca a.11.1.1 60887 1z4eA 153 8.84e+01 1s50A 259 8.86e+01 2plc 274 8.86e+01 2plc c.1.18.2 29614 1t4bA 367 8.91e+01 c.2.1.3,d.81.1.1 106406,106407 1y0bA 197 8.97e+01 1zowA 313 8.98e+01 1uc7A 125 8.98e+01 c.47.1.1 99163