# 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 1gmyA 261 7.52e-02 d.3.1.1 76236 1un3A 123 5.24e-01 d.5.1.1 99646 2bibA 547 1.34e+00 1ekgA 127 1.42e+00 1dlxA d.82.2.1 40021 1s3cA 141 1.61e+00 1agi 125 2.09e+00 7rsa d.5.1.1 37303 1el5A 389 2.39e+00 1b3mA c.3.1.2,d.16.1.3 30369,37937 2bgcA 238 2.51e+00 1oh0A 131 2.64e+00 d.17.4.3 87004 1xfsA 178 3.14e+00 d.129.3.5 109589 2cokA 113 3.46e+00 1iloA 77 3.51e+00 c.47.1.1 66205 2gxfA 142 4.03e+00 2fk9A 157 4.27e+00 1vj7A 393 4.30e+00 a.211.1.1,d.218.1.8 100801,100802 2d13A 227 4.69e+00 2bj0A 203 4.83e+00 2f1fA 164 4.98e+00 2b4hA 254 5.13e+00 1tzyD 103 5.17e+00 a.22.1.1 107533 2fug5 207 5.24e+00 1yqfA 203 5.27e+00 2ck3A 510 5.35e+00 1ut7A 171 5.36e+00 b.143.1.1 99906 1v8hA 107 5.40e+00 1gxuA 91 5.51e+00 d.58.10.1 76378 2g76A 335 6.20e+00 1tif 78 6.23e+00 1tif d.15.8.1 37836 1dq3A 454 6.28e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1y96A 86 6.42e+00 2blnA 305 6.44e+00 1vqoT 120 6.50e+00 1tp6A 128 6.72e+00 d.17.4.12 107184 1h8eA 510 7.36e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1io1A 398 7.57e+00 1io1A e.32.1.1 62611 1wsrA 375 7.92e+00 2bynA 227 8.28e+00 1zvnA 99 8.92e+00 2bwkA 121 8.95e+00 1g5cA 170 9.28e+00 1g5cA c.53.2.1 60264 2gfaA 119 9.37e+00 1wfxA 186 9.45e+00 1yllA 200 9.59e+00 2a7mA 250 9.63e+00 1p5dX 463 9.75e+00 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 1r26A 125 1.07e+01 c.47.1.1 96847 2basA 431 1.07e+01 1qwdA 177 1.09e+01 b.60.1.1 96471 1dzaA 129 1.12e+01 7rsa d.5.1.1 37275 1j7gA 144 1.13e+01 c.110.1.1 84130 1ul7A 102 1.14e+01 d.129.6.1 99540 2bl0C 142 1.14e+01 1zxkA 98 1.16e+01 1jkeA 145 1.20e+01 c.110.1.1 66791 1bxoA 323 1.20e+01 2er7E b.50.1.2 26805 1n4xH 120 1.21e+01 b.1.1.1 85324 1nf2A 268 1.22e+01 c.108.1.10 91849 1whsB 153 1.24e+01 1whtB 1m98A 317 1.26e+01 a.175.1.1,d.17.4.6 78866,78867 2arhA 203 1.28e+01 1yu0A 381 1.35e+01 2c4bA 143 1.37e+01 1dxrH 258 1.37e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1xk7A 408 1.39e+01 2ca6A 386 1.39e+01 1l0qA 391 1.40e+01 b.1.3.1,b.69.2.3 77644,77645 1dgwA 178 1.42e+01 1dgwA b.82.1.2 28090 1o6sB 105 1.47e+01 b.1.6.1 81096 1hyxH 224 1.50e+01 1igtB b.1.1.1,b.1.1.2 20167,21191 2f1lA 187 1.54e+01 1kkeA 210 1.57e+01 b.21.1.2,b.83.1.2 68669,68670 1v6tA 255 1.60e+01 1dg6A 191 1.61e+01 1d4vB b.22.1.1 23883 1ht6A 405 1.65e+01 b.71.1.1,c.1.8.1 83629,83630 1upiA 225 1.67e+01 b.82.1.1 99757 2g6fX 59 1.67e+01 1zt2B 212 1.74e+01 1l3kA 196 1.74e+01 d.58.7.1,d.58.7.1 73539,73540 1h05A 146 1.74e+01 c.23.13.1 76433 2d1uA 104 1.75e+01 1mhnA 59 1.78e+01 b.34.9.1 84964 2ey4C 82 1.81e+01 1rifA 282 1.81e+01 c.37.1.23 97507 2cdpA 160 1.81e+01 1vl5A 260 1.82e+01 c.66.1.41 108720 2ai4A 119 1.84e+01 1dcfA 136 1.84e+01 1dcfA c.23.1.2 31124 1mvfA 135 1.85e+01 b.1.1.1 85141 1wcwA 261 1.88e+01 1xovA 326 1.92e+01 1eylA 186 1.95e+01 1wba b.42.4.1 25593 1lfpA 249 1.96e+01 e.39.1.1 73885 1wy5A 317 2.00e+01 2ghpA 292 2.00e+01 1ryaA 160 2.01e+01 d.113.1.5 105122 1guiA 155 2.01e+01 b.18.1.14 76351 1x99A 145 2.01e+01 1qsgA 265 2.05e+01 1eny c.2.1.2 29935 1y9wA 140 2.12e+01 1h4rA 314 2.17e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1u0qA 125 2.17e+01 1mqoA 227 2.18e+01 d.157.1.1 103846 1xfpA 142 2.23e+01 b.1.1.1 109587 1jbeA 128 2.25e+01 3chy c.23.1.1 62845 1a4pA 96 2.25e+01 1b4cA a.39.1.2 17176 2bj7A 138 2.26e+01 1uuzA 137 2.28e+01 d.233.1.1 100024 1jm1A 204 2.28e+01 b.33.1.1 71745 1o4wA 147 2.40e+01 c.120.1.1 86629 1k07A 263 2.44e+01 d.157.1.1 77218 1wd7A 261 2.47e+01 1qhtA 775 2.47e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 2cveA 191 2.47e+01 1rq6A 62 2.54e+01 2f5gA 133 2.55e+01 1uu1A 335 2.56e+01 c.67.1.1 99993 1k4nA 192 2.57e+01 d.32.1.5 72059 1snnA 227 2.61e+01 d.115.1.2 105821 1w85I 49 2.63e+01 1aba 87 2.64e+01 1aba c.47.1.1 32760 1mqkH 127 2.67e+01 b.1.1.1 85053 1nz0A 118 2.69e+01 d.14.1.2 86433 2fyxA 143 2.69e+01 1mw7A 240 2.72e+01 e.39.1.1 79557 1dd9A 338 2.73e+01 1dd9A e.13.1.1 43254 1jl0A 334 2.74e+01 1jenA d.156.1.1 63155 1jssA 224 2.75e+01 d.129.3.2 71844 1h6lA 353 2.75e+01 b.68.3.1 60687 1nycA 111 2.79e+01 b.61.2.2 92336 1w4tA 299 2.79e+01 1a62 130 2.80e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1odkA 235 2.82e+01 c.56.2.1 86863 1x1rA 178 2.83e+01 2g7jA 124 2.85e+01 1oaqH 121 2.86e+01 b.1.1.1 92707 2msbA 115 2.90e+01 1rtm1 d.169.1.1 42355 1vkcA 158 2.92e+01 2aq4A 434 2.92e+01 1rsy 152 2.95e+01 1rsy b.7.1.2 23192 3daaA 277 2.97e+01 1daaA e.17.1.1 43272 1xer 103 2.99e+01 1xer d.58.1.3 38990 1lgpA 116 3.00e+01 b.26.1.2 73890 1g79A 218 3.01e+01 1ci0A b.45.1.1 25752 1nmeA 146 3.10e+01 c.17.1.1 85874 1ospO 257 3.10e+01 1ospO b.76.1.1 27971 1i4uA 181 3.10e+01 b.60.1.1 61732 1u6tA 121 3.14e+01 1v32A 101 3.14e+01 a.42.1.1 100277 1fxlA 167 3.21e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1ohpA 125 3.22e+01 1s6lA 212 3.23e+01 1qo3C 137 3.23e+01 1qo3C d.169.1.1 42350 1dqiA 124 3.23e+01 1do6A b.1.13.1 22357 1a2yB 116 3.23e+01 1gc1H b.1.1.1 19927 1uv7A 110 3.29e+01 d.67.4.1 100040 1r0pA 312 3.30e+01 d.144.1.7 96734 1sqhA 312 3.31e+01 d.108.1.5 98966 1tjxA 159 3.33e+01 1dp4A 435 3.42e+01 1dp4A c.93.1.1 35710 1pk6C 129 3.46e+01 b.22.1.1 94803 1iq4A 179 3.48e+01 1iq4A d.77.1.1 62641 1jjtA 228 3.51e+01 1a7tA d.157.1.1 63139 1u69A 163 3.51e+01 d.32.1.7 107699 1feuA 206 3.53e+01 1feuA b.53.1.1 59801 1vr5A 547 3.57e+01 1p5vA 235 3.58e+01 b.1.11.1,b.7.2.1 87812,87813 1q5yA 85 3.62e+01 d.58.18.4 95950 1go3E 187 3.65e+01 b.40.4.5,d.230.1.1 83054,83055 1erw 105 3.66e+01 1erv c.47.1.1 32745 1g1tA 157 3.66e+01 d.169.1.1,g.3.11.1 65104,65105 1z2wA 192 3.71e+01 1ti6B 274 3.72e+01 b.3.5.1,d.58.1.5 106976,106977 1i8kB 124 3.72e+01 b.1.1.1 71131 1lb6A 160 3.73e+01 b.8.1.1 73798 1y7mA 164 3.74e+01 1kt6A 183 3.80e+01 b.60.1.1 84466 1l7mA 211 3.82e+01 c.108.1.4 73664 2ch4A 320 3.83e+01 1sqgA 429 3.84e+01 a.79.1.3,c.66.1.38 105912,105913 1i9zA 347 3.87e+01 1i9yA d.151.1.2 62102 1zybA 232 3.87e+01 1xh3A 276 3.92e+01 1k8kC 372 3.94e+01 b.69.4.1 68308 2f7fA 494 4.01e+01 1vloA 381 4.02e+01 b.44.2.1,d.250.1.1 108838,108839 1lkdA 297 4.10e+01 d.32.1.3,d.32.1.3 78059,78060 1gxrA 337 4.11e+01 b.69.4.1 70722 2pii 112 4.14e+01 2pii d.58.5.1 39071 1mkyA 439 4.17e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1vr6A 350 4.20e+01 1pvtA 238 4.28e+01 c.74.1.1 95189 1wdcC 156 4.29e+01 1wdcC a.39.1.5 17317 2ao9A 155 4.32e+01 1pm3A 78 4.33e+01 b.41.1.2 94889 1widA 130 4.33e+01 1ywqA 200 4.34e+01 1oz9A 150 4.37e+01 d.92.1.15 93808 1iukA 140 4.37e+01 c.2.1.8 83712 1bb8 71 4.38e+01 2bb8 d.10.1.1 37478 1dp7P 76 4.39e+01 1dp7P a.4.5.20 16159 1tuhA 156 4.40e+01 d.17.4.11 107345 1s6cA 183 4.43e+01 a.39.1.5 98594 1kopA 223 4.51e+01 2cba b.74.1.1 27966 2aotA 292 4.51e+01 1qxoA 388 4.54e+01 d.258.1.1 96539 1rzhH 260 4.56e+01 b.41.1.1,f.23.10.1 98162,98163 1oj5A 132 4.58e+01 d.110.3.8 93087 1lk2A 274 4.61e+01 b.1.1.2,d.19.1.1 91056,91057 1jmxB 349 4.63e+01 b.69.2.2 66906 1lyvA 306 4.71e+01 c.45.1.2 74348 1z3eA 132 4.72e+01 1m2xA 223 4.73e+01 d.157.1.1 84764 1fe0A 68 4.75e+01 1cc8A d.58.17.1 39345 1k1eA 180 4.78e+01 c.108.1.5 67995 2g6bA 180 4.82e+01 1rloA 271 4.83e+01 1e19A 314 4.87e+01 1b7bA c.73.1.1 34967 2b8wA 328 4.88e+01 1qw1A 121 4.88e+01 1p7tA 731 4.89e+01 c.1.13.1 94319 1f15A 218 4.91e+01 1f15B b.121.4.5 23320 2a8jA 420 4.91e+01 2f2gA 221 4.92e+01 1js8A 394 4.92e+01 a.86.1.1,b.112.1.1 67219,67220 1o4sA 389 4.93e+01 c.67.1.1 86620 1aoy 78 4.95e+01 1aoy a.4.5.3 16087 1gheA 177 4.97e+01 d.108.1.1 76222 1wp5A 323 4.97e+01 2cq2A 114 5.02e+01 2bxxA 134 5.03e+01 2dfkA 402 5.04e+01 1sbxA 106 5.08e+01 a.6.1.4 105414 2g5dA 422 5.08e+01 1gy6A 127 5.13e+01 d.17.4.2 70736 1vfgA 390 5.19e+01 a.173.1.1,d.218.1.4 108570,108571 1fh0A 221 5.21e+01 1cs8A d.3.1.1 59832 1cojA 212 5.23e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1v5vA 401 5.23e+01 1oeyA 83 5.24e+01 d.15.2.2 92800 1w41A 101 5.27e+01 1x0pA 143 5.30e+01 1i58A 189 5.30e+01 1b3qA d.122.1.3 61773 1nrgA 261 5.31e+01 b.45.1.1 80694 2f8yA 223 5.32e+01 1mp9A 198 5.33e+01 d.129.1.1,d.129.1.1 91385,91386 1z5bA 469 5.38e+01 1tu1A 148 5.38e+01 d.107.1.3 107316 1st9A 143 5.43e+01 c.47.1.10 98987 1l8rA 101 5.47e+01 a.6.1.4 73700 1w4vA 119 5.47e+01 1t2jA 116 5.47e+01 2b9eA 303 5.47e+01 2fauA 341 5.50e+01 1gudA 288 5.51e+01 c.93.1.1 83326 1ugpB 226 5.52e+01 b.34.4.4 107832 1t4oA 117 5.53e+01 d.50.1.1 106425 2g3aA 152 5.55e+01 1tu6A 215 5.58e+01 d.3.1.1 107318 1vavA 222 5.59e+01 b.29.1.18 108472 1c3pA 375 5.59e+01 1c3pA c.42.1.2 32606 1nox 205 5.60e+01 1nox d.90.1.1 40242 1erv 105 5.61e+01 1erv c.47.1.1 32743 1vmhA 144 5.63e+01 1gouA 116 5.64e+01 d.1.1.2 65429 1qg3A 195 5.64e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1aisA 182 5.64e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1p0hA 318 5.65e+01 d.108.1.1 93866 1a2pA 110 5.67e+01 1b20A d.1.1.2 36140 2a5jA 191 5.70e+01 1jqlB 140 5.72e+01 c.37.1.20 63234 1vmfA 145 5.75e+01 1wwkA 307 5.76e+01 1uv4A 293 5.76e+01 2f57A 317 5.77e+01 1rz4A 226 5.81e+01 a.4.5.53,a.118.1.18 105131,105132 2aioA 269 5.86e+01 1ollA 188 5.86e+01 b.1.1.4,b.1.1.4 93313,93314 1ecsA 126 5.87e+01 1ecsA d.32.1.2 59407 1jp4A 308 5.92e+01 1jp4A e.7.1.1 63223 1lniA 96 5.92e+01 d.1.1.2 74046 1f5nA 592 5.93e+01 1dg3A a.114.1.1,c.37.1.8 19077,32152 1uacH 114 5.94e+01 b.1.1.1 99132 1rdo1 113 5.94e+01 1rtm1 1l4dB 122 5.96e+01 d.15.5.1 77684 1hlvA 131 5.97e+01 a.4.1.7,a.4.1.7 65854,65855 1pmzA 86 6.00e+01 a.39.1.10 104195 1wr8A 231 6.05e+01 1k5nA 276 6.08e+01 b.1.1.2,d.19.1.1 77266,77267 1aqcA 172 6.09e+01 1x11A b.55.1.2 26983 1gyhA 318 6.12e+01 b.67.2.1 70757 1oo0B 110 6.13e+01 d.58.7.1 87183 1u0sA 86 6.14e+01 d.58.24.1 107565 2bvcA 486 6.15e+01 1lvwA 295 6.17e+01 c.68.1.6 84723 2a15A 139 6.20e+01 2acaA 189 6.22e+01 1ro7A 259 6.23e+01 c.130.1.1 97667 1tafB 70 6.25e+01 1tafB a.22.1.3 16482 1yhpA 212 6.26e+01 1fm4A 159 6.26e+01 1bv1 d.129.3.1 76186 1f89A 291 6.30e+01 d.160.1.1 64988 1y96B 85 6.33e+01 1jogA 146 6.34e+01 a.24.16.2 77142 1lfwA 470 6.35e+01 c.56.5.4,d.58.19.1 77942,77943 8tlnE 316 6.38e+01 1hyt d.92.1.2 59075 1nnxA 109 6.43e+01 b.40.10.1 92013 2bu3A 254 6.46e+01 1rwhA 757 6.47e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 1kuuA 202 6.52e+01 d.153.2.1 73019 1ffyA 917 6.59e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1uj0A 62 6.60e+01 b.34.2.1 99449 1t9bA 677 6.62e+01 2al6A 375 6.68e+01 1t95A 240 6.72e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1j58A 385 6.73e+01 b.82.1.2 71531 1qtnA 164 6.74e+01 1pauA c.17.1.1 30999 1xd8A 289 6.75e+01 1ejxC 567 6.75e+01 b.92.1.1,c.1.9.2 83184,83185 1dy5A 124 6.79e+01 7rsa d.5.1.1 37163 2amxA 376 6.80e+01 1tuzA 118 6.82e+01 1npeA 267 6.84e+01 b.68.5.1 92032 1o7fA 469 6.88e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 1u7lA 392 6.90e+01 1ebfA 358 6.95e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 2au3A 407 6.97e+01 1xjcA 169 6.99e+01 1u8fO 335 7.01e+01 1yphC 131 7.08e+01 1h8eD 482 7.11e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1y2tA 142 7.12e+01 1w2tA 432 7.15e+01 1w1oA 534 7.15e+01 d.58.32.4,d.145.1.1 109071,109072 1s4bP 674 7.17e+01 d.92.1.5 105252 2cn3A 737 7.18e+01 1f1eA 154 7.19e+01 a.22.1.2 64927 2fi0A 81 7.21e+01 1hq8A 123 7.21e+01 1b6e d.169.1.1 61127 1mn8A 100 7.22e+01 a.61.1.6 79318 1l8aA 886 7.24e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1wloA 136 7.25e+01 1dnlA 199 7.26e+01 1ci0A b.45.1.1 25753 1t4nA 94 7.28e+01 d.50.1.1 106424 1kk8B 139 7.29e+01 a.39.1.5 77430 1c7qA 445 7.35e+01 2pgi c.80.1.2 35307 1o5uA 101 7.35e+01 b.82.1.8 92518 1twiA 434 7.37e+01 b.49.2.3,c.1.6.1 107399,107400 2gjgA 248 7.37e+01 1vl7A 157 7.43e+01 b.45.1.1 108732 1ogaD 215 7.45e+01 b.1.1.1,b.1.1.2 86990,86991 1dun 134 7.47e+01 1dun b.85.4.1 28371 1t0fA 276 7.49e+01 1hgxA 183 7.56e+01 1tc1A c.61.1.1 34027 1x82A 190 7.58e+01 1vqoN 187 7.60e+01 2be3A 226 7.60e+01 1qexA 288 7.62e+01 1qexA b.32.1.1 24425 1lbvA 252 7.69e+01 e.7.1.1 73813 1vr3A 191 7.71e+01 1e8pA 46 7.76e+01 g.55.1.1 59385 1gsoA 431 7.77e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1ofdA 1520 7.78e+01 b.80.4.1,c.1.4.1,d.153.1.1 86935,86936,86937 1ii5A 233 7.83e+01 c.94.1.1 62412 1q15A 503 7.86e+01 c.26.2.1,d.153.1.1 95538,95539 1r7aA 504 7.87e+01 b.71.1.1,c.1.8.1 97192,97193 1tt8A 164 7.88e+01 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