# 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 2f4qA 346 8.74e-02 2a2pA 129 1.29e-01 1vq2A 193 1.66e-01 1yaxA 153 2.51e-01 2cr5A 109 5.49e-01 2fa8A 105 6.29e-01 1vjfA 180 8.88e-01 d.116.1.1 100809 1qy1A 174 1.25e+00 b.60.1.1 96568 1rvkA 382 1.27e+00 c.1.11.2,d.54.1.1 97928,97929 2fhxA 246 1.33e+00 1lktA 104 1.40e+00 1lktA b.90.1.1 28398 1zndA 174 1.51e+00 1e2wA 251 1.73e+00 1hcz b.2.6.1,b.84.2.2 22466,28252 1llnA 262 2.03e+00 d.165.1.1 84625 1iscA 192 2.36e+00 1avmA a.2.11.1,d.44.1.1 15733,38726 1tqzA 133 2.55e+00 1ztcA 221 2.99e+00 2c3vA 102 3.06e+00 2fq9A 225 3.09e+00 1uhvA 500 3.21e+00 b.71.1.2,c.1.8.3 99402,99403 1c96A 753 3.24e+00 1amj c.8.2.1,c.83.1.1 30727,35403 1iow 306 3.26e+00 1iow c.30.1.2,d.142.1.1 31713,41481 1ttzA 87 3.34e+00 c.47.1.1 107309 1v74A 107 3.35e+00 d.243.1.1 100442 1q0qA 406 3.38e+00 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1xfsA 178 3.39e+00 d.129.3.5 109589 1cqyA 99 3.55e+00 1b9zA b.3.1.1 22527 1vr9A 213 4.03e+00 1r6wA 322 4.06e+00 c.1.11.2,d.54.1.1 97165,97166 1pm1X 180 4.26e+00 b.60.1.1 104189 1kyfA 247 4.69e+00 b.1.10.1,d.105.1.1 73220,73221 1cdq 77 4.70e+00 1cds g.7.1.3 44459 2a25A 193 5.30e+00 1vqoS 85 5.61e+00 1qhoA 686 5.76e+00 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1ffyA 917 5.83e+00 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1vcdA 126 5.86e+00 3nul 130 5.97e+00 3nul d.110.1.1 40891 1tp6A 128 5.99e+00 d.17.4.12 107184 1voqa 90 6.08e+00 2dg5B 190 6.10e+00 1vkcA 158 6.19e+00 1q32A 544 6.22e+00 d.136.1.3,d.136.1.3 104507,104508 1bywA 110 6.45e+00 1bywA d.110.3.6 40912 1khbA 625 6.57e+00 c.91.1.1,c.109.1.1 68606,68607 1u7pA 164 7.28e+00 2bjfA 329 7.31e+00 1zkdA 387 7.36e+00 1p57A 114 7.38e+00 d.170.1.2 94125 1wrvA 308 8.08e+00 1vemA 516 8.42e+00 1rkd 309 8.44e+00 1rkd c.72.1.1 34928 1ec7A 446 8.58e+00 1bqg c.1.11.2,d.54.1.1 29218,38862 1kllA 130 8.66e+00 d.32.1.2 72720 1m93C 41 8.83e+00 1wi1A 126 8.84e+00 2gdqA 382 8.87e+00 2fv7A 331 8.87e+00 1pylA 97 8.90e+00 d.1.1.2 104391 1wdvA 152 8.98e+00 1h9oA 112 9.29e+00 1qadA d.93.1.1 60837 1k55A 246 9.39e+00 e.3.1.1 68156 1vybA 238 9.54e+00 d.151.1.1 108897 1uwzA 136 9.57e+00 c.97.1.1 108081 1sgvA 316 9.63e+00 b.122.1.1,d.265.1.2 98858,98859 1uesA 191 1.03e+01 a.2.11.1,d.44.1.1 107798,107799 2gaiA 633 1.04e+01 2bs3A 656 1.04e+01 1x6oA 174 1.06e+01 b.34.5.2,b.40.4.5 109493,109494 2hayA 224 1.07e+01 1qveA 126 1.08e+01 d.24.1.1 104594 1um5H 217 1.09e+01 1dcjA 81 1.10e+01 1dcjA d.68.3.3 59115 1zupA 315 1.12e+01 2dg5A 366 1.15e+01 1xvqA 175 1.15e+01 1lf7A 182 1.16e+01 b.60.1.1 73878 1lfdA 87 1.17e+01 1lfdA d.15.1.5 37622 2c82A 413 1.17e+01 1ukfA 188 1.19e+01 d.3.1.10 99488 1ako 268 1.21e+01 1ako d.151.1.1 41779 1xvsA 126 1.22e+01 1tzzA 392 1.23e+01 1r9fA 136 1.27e+01 d.255.1.1 97257 1o7nA 449 1.34e+01 b.33.1.2,d.129.3.3 81162,81163 2cxvA 219 1.35e+01 1mqeA 207 1.35e+01 d.113.1.1 91394 1r77A 103 1.36e+01 1l6rA 227 1.36e+01 c.108.1.10 77768 1ju2A 536 1.38e+01 c.3.1.2,d.16.1.1 77169,77170 1tt8A 164 1.39e+01 1w4tA 299 1.40e+01 1xqaA 113 1.40e+01 1y8qB 640 1.44e+01 1ri9A 102 1.44e+01 b.34.2.1 97506 1yvoA 172 1.44e+01 1h6hA 143 1.44e+01 d.189.1.1 65681 1hynP 379 1.45e+01 1hynP d.112.1.2 61408 1tyv 542 1.45e+01 1tyv b.80.1.6 28038 2fh5A 185 1.46e+01 1g5aA 628 1.54e+01 b.71.1.1,c.1.8.1 65152,65153 2gu3A 136 1.55e+01 2ap1A 327 1.56e+01 1rewC 135 1.56e+01 g.7.1.3 97336 1lf6A 684 1.56e+01 a.102.1.5,b.30.5.5 77918,77919 1wkqA 164 1.60e+01 c.97.1.2 109393 2bgiA 272 1.62e+01 2bryA 497 1.62e+01 1h3qA 140 1.62e+01 d.110.4.3 76652 1fnd 314 1.64e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 3il8 72 1.65e+01 1tvxA d.9.1.1 37356 1oe8A 211 1.69e+01 a.45.1.1,c.47.1.5 86905,86906 1ayaA 101 1.69e+01 1qadA d.93.1.1 40460 2dcnA 311 1.69e+01 1p0zA 131 1.70e+01 d.110.6.1 93882 2b3yA 888 1.71e+01 1qmvA 197 1.73e+01 1qq2A c.47.1.10 33066 1gmuA 143 1.74e+01 b.107.1.1,d.58.38.1 65335,65336 1p2hA 571 1.76e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1j5wA 298 1.77e+01 d.104.1.1 71589 1xc3A 302 1.80e+01 1z47A 355 1.84e+01 1aisA 182 1.84e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1nytA 271 1.86e+01 c.2.1.7,c.58.1.5 86417,86418 1je0A 236 1.87e+01 c.56.2.1 66581 2dchX 216 1.90e+01 2f9zC 159 1.93e+01 2gfoA 396 1.95e+01 1jjtA 228 1.98e+01 1a7tA d.157.1.1 63139 1mai 131 1.99e+01 1mai b.55.1.1 26951 1ryaA 160 2.02e+01 d.113.1.5 105122 1gw5S 142 2.03e+01 d.110.4.2 70633 2a9sA 171 2.03e+01 1wb0A 445 2.04e+01 1p6oA 161 2.04e+01 c.97.1.2 94185 1bx1A 314 2.05e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1s4iA 175 2.08e+01 1y88A 199 2.08e+01 1z4vA 532 2.09e+01 2fkcA 247 2.12e+01 1me4A 215 2.13e+01 d.3.1.1 79023 1kq1A 77 2.13e+01 b.38.1.2 72848 1ctt 294 2.16e+01 1ctt c.97.1.1,c.97.1.1 36022,36023 1fo0B 112 2.18e+01 1kb5B b.1.1.1 20631 1xe7A 203 2.22e+01 2fl7A 232 2.25e+01 1gqzA 274 2.25e+01 d.21.1.1,d.21.1.1 83311,83312 1gy6A 127 2.26e+01 d.17.4.2 70736 1qhvA 195 2.29e+01 1qhvA b.21.1.1 23842 1o7zA 77 2.31e+01 d.9.1.1 86660 1n1tA 641 2.34e+01 b.29.1.15,b.68.1.1 79821,79822 1wn5A 130 2.34e+01 2essA 248 2.35e+01 1ui0A 205 2.39e+01 c.18.1.2 99411 1tkkA 366 2.39e+01 c.1.11.2,d.54.1.1 107089,107090 1b9wA 89 2.41e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1b3aA 67 2.44e+01 1b3aA d.9.1.1 37410 1sqeA 109 2.48e+01 d.58.4.5 105908 1od3A 168 2.51e+01 b.18.1.10 86825 1s9jA 341 2.51e+01 1kicA 339 2.57e+01 c.70.1.1 72510 1q87A 221 2.58e+01 e.47.1.1 96192 1mdl 359 2.61e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1xxqA 161 2.61e+01 1bqsA 209 2.61e+01 1bqsA b.1.1.4,b.1.1.4 21704,21705 1itbB 315 2.64e+01 1itbB b.1.1.4,b.1.1.4,b.1.1.4 21720,21721,21722 1musA 477 2.65e+01 c.55.3.4 79494 1yx1A 264 2.68e+01 1zdnA 158 2.69e+01 2ew0A 192 2.72e+01 2bmoA 447 2.79e+01 1npsA 88 2.83e+01 1prs b.11.1.1 23622 1nwzA 125 2.85e+01 d.110.3.1 86370 1ri5A 298 2.92e+01 c.66.1.34 97502 1cv8 174 2.95e+01 1cv8 d.3.1.1 37089 1ne9A 335 2.95e+01 d.108.1.4,d.108.1.4 91839,91840 1vqoA 240 2.99e+01 1ro5A 201 3.05e+01 d.108.1.3 105023 2aq2B 237 3.06e+01 2gcc 70 3.06e+01 2gcc d.10.1.2 37484 1n13A 52 3.07e+01 d.155.1.2 85248 1bupA 386 3.07e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 2db1A 118 3.07e+01 1ko3A 230 3.14e+01 d.157.1.1 90974 1hjrA 158 3.18e+01 1hjrA c.55.3.6 33727 1epfA 191 3.20e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1qnaA 200 3.20e+01 1ytbA d.129.1.1,d.129.1.1 41226,41227 1vetA 124 3.20e+01 d.110.7.1 108553 2hglA 136 3.22e+01 1m6iA 493 3.22e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2oatA 439 3.22e+01 2dkb c.67.1.4 34452 1regX 122 3.24e+01 1regX d.58.27.1 39406 1xrkA 124 3.25e+01 1vjvA 415 3.29e+01 d.3.1.9 108632 1lq9A 112 3.33e+01 d.58.4.3 78129 1bu6O 501 3.33e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1mucA 373 3.34e+01 1mucA c.1.11.2,d.54.1.1 29236,38880 1y9wA 140 3.37e+01 2c6cA 707 3.38e+01 1jofA 365 3.51e+01 b.69.10.1 71775 1n13B 113 3.56e+01 2cfuA 658 3.66e+01 2cx5A 158 3.70e+01 1xuqA 212 3.73e+01 2fafA 608 3.74e+01 1ka9H 200 3.75e+01 c.23.16.1 77308 1gj7B 253 3.82e+01 1fecA 490 3.82e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1wduA 245 3.83e+01 d.151.1.1 109286 1feuA 206 3.86e+01 1feuA b.53.1.1 59801 1wm3A 72 3.87e+01 1ifqA 138 3.99e+01 1ifqA d.110.4.1 62350 1x8qA 184 4.01e+01 1xipA 388 4.02e+01 1c44A 123 4.03e+01 1qndA d.106.1.1 40795 1fjgP 88 4.04e+01 1emwA d.27.1.1 38444 1xyiA 66 4.04e+01 1rkqA 282 4.08e+01 c.108.1.10 97621 1sc6A 404 4.11e+01 1k7jA 206 4.11e+01 d.115.1.1 72103 1npyA 271 4.13e+01 c.2.1.7,c.58.1.5 85995,85996 1q8rA 120 4.14e+01 d.79.6.1 96225 1sr9A 644 4.15e+01 a.5.7.1,c.1.10.5,d.270.1.1 105960,105961,105962 1v6tA 255 4.15e+01 1q4uA 151 4.26e+01 d.38.1.5 95828 2a15A 139 4.28e+01 1rzhH 260 4.29e+01 b.41.1.1,f.23.10.1 98162,98163 1l2mA 118 4.33e+01 d.89.1.4 77657 1cs8A 316 4.38e+01 1cs8A d.3.1.1 37065 1u58A 253 4.44e+01 2ghrA 302 4.44e+01 2ge3A 170 4.47e+01 1t0fA 276 4.51e+01 1lu4A 136 4.51e+01 c.47.1.10 91124 1z8gA 372 4.58e+01 1js1X 324 4.60e+01 c.78.1.1,c.78.1.1 71834,71835 1twfK 120 4.60e+01 1u9tA 354 4.65e+01 1ir21 140 4.65e+01 1h80A 464 4.69e+01 b.80.1.8 65714 1nlbH 218 4.69e+01 b.1.1.1,b.1.1.2 80621,80622 1kngA 156 4.71e+01 c.47.1.10 72777 1whzA 70 4.73e+01 1op3H 225 4.74e+01 b.1.1.1,b.1.1.2 87208,87209 1e0bA 68 4.78e+01 1e0bA b.34.13.2 37476 1nwwA 149 4.79e+01 d.17.4.8 86306 1qwyA 291 4.79e+01 b.84.3.2 96509 1b7yA 350 4.80e+01 1pysA d.104.1.1 40776 2b5nA 323 4.81e+01 1qx4A 274 4.83e+01 b.43.4.2,c.25.1.1 104624,104625 1jidA 128 4.87e+01 d.201.1.1 66735 1btn 106 4.88e+01 1btn b.55.1.1 26952 1i4jA 110 4.89e+01 d.55.1.1 76734 1huxA 270 4.90e+01 1huxA c.55.1.5 61278 2a84A 300 4.92e+01 1p3dA 475 4.94e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1zd0A 150 4.98e+01 1xtoA 311 5.00e+01 1vcc 77 5.04e+01 1vcc d.121.1.1 41092 1wluA 136 5.05e+01 1dc1A 323 5.13e+01 1dc1A c.52.1.11 33321 1z54A 132 5.13e+01 1qqp1 213 5.15e+01 1qqp1 1f0xA 571 5.21e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1r6fA 310 5.22e+01 e.46.1.1 97149 1xkgA 312 5.22e+01 1fh0A 221 5.25e+01 1cs8A d.3.1.1 59832 1uliB 187 5.31e+01 d.17.4.4 107923 1lp9E 194 5.32e+01 b.1.1.1,b.1.1.2 91086,91087 1iznB 277 5.33e+01 e.43.1.2 83848 1x8bA 289 5.33e+01 2cb5A 453 5.34e+01 3gcb d.3.1.1 37035 1t0qC 86 5.41e+01 d.15.12.1 106222 2b59B 172 5.46e+01 1gk8I 140 5.48e+01 d.73.1.1 65242 1v8hA 107 5.49e+01 1byrA 155 5.52e+01 1byrA d.136.1.1 41450 1uxaA 194 5.58e+01 b.21.1.1 108091 2awfA 172 5.60e+01 1w9hA 427 5.69e+01 2hlcA 230 5.71e+01 5ptp b.47.1.2 26074 1earA 147 5.71e+01 b.107.1.1,d.58.38.1 64875,64876 1nrlA 316 5.77e+01 a.123.1.1 92091 1jndA 420 5.79e+01 c.1.8.5,d.26.3.1 71757,71758 3tss 194 5.80e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1jatA 155 5.80e+01 1u9aA d.20.1.1 62818 1whrA 124 5.81e+01 1am2 199 5.84e+01 1am2 b.86.1.2 28381 1f08A 148 5.86e+01 1f08A d.89.1.2 59564 1umkA 275 5.88e+01 1mp9A 198 5.90e+01 d.129.1.1,d.129.1.1 91385,91386 1j1qA 261 5.92e+01 d.165.1.1 90768 1iq6A 134 5.92e+01 d.38.1.4 76755 1zmaA 118 5.96e+01 1vg0A 650 5.98e+01 c.3.1.3,d.16.1.6 108596,108597 2d5cA 263 6.01e+01 1g5hA 454 6.04e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2cwrA 103 6.05e+01 1vr6A 350 6.08e+01 1yt5A 258 6.11e+01 1ecfA 504 6.16e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ykjA 394 6.16e+01 1a8y 367 6.18e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1yj7A 171 6.22e+01 1ms9A 648 6.23e+01 b.29.1.15,b.68.1.1 85088,85089 1thtA 305 6.28e+01 1thtA c.69.1.13 34711 1cl8A 276 6.32e+01 1ckqA c.52.1.1 33230 8rucI 123 6.32e+01 1rboC d.73.1.1 39629 1lgpA 116 6.33e+01 b.26.1.2 73890 3pcgA 200 6.35e+01 3pchA b.3.6.1 22647 1hw6A 278 6.35e+01 1frb c.1.7.1 61296 1js8A 394 6.41e+01 a.86.1.1,b.112.1.1 67219,67220 1m0wA 491 6.43e+01 c.30.1.4,d.142.1.6 78363,78364 2bynA 227 6.43e+01 1pm3A 78 6.50e+01 b.41.1.2 94889 1sdjA 310 6.50e+01 d.21.1.2,d.21.1.2 98807,98808 1wmhB 86 6.51e+01 2grrB 170 6.53e+01 1j1yA 136 6.54e+01 d.38.1.5 90776 1gmyA 261 6.55e+01 d.3.1.1 76236 1mqoA 227 6.57e+01 d.157.1.1 103846 1wmdA 434 6.59e+01 b.18.1.20,c.41.1.1 109408,109409 2basA 431 6.62e+01 1pvmA 184 6.63e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1pmnA 364 6.65e+01 d.144.1.7 94907 2b95A 106 6.66e+01 1tib 269 6.66e+01 3tgl c.69.1.17 34738 1z02A 446 6.67e+01 2ffyA 358 6.67e+01 1w4sA 174 6.68e+01 1qauA 112 6.69e+01 1qauA b.36.1.1 24779 1yfuA 174 6.74e+01 2cveA 191 6.78e+01 2g6fX 59 6.89e+01 1x0rA 249 6.91e+01 1gnuA 117 6.92e+01 d.15.1.3 65403 1sh0A 510 6.94e+01 e.8.1.4 98876 1n9lA 109 6.96e+01 d.110.3.6 85468 1ugxA 133 6.97e+01 1xtmA 175 7.02e+01 1kblA 873 7.02e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1r7mA 235 7.02e+01 1ej0A 180 7.04e+01 1ej0A c.66.1.2 34179 1pea 385 7.06e+01 1pea c.93.1.1 35662 1w6sA 599 7.07e+01 1h9dB 134 7.08e+01 2jhbA b.54.1.1 60822 1vjqA 79 7.09e+01 k.43.1.1 100830 2b8eA 273 7.10e+01 1qb5D 99 7.12e+01 b.40.2.1 88357 2gshA 414 7.14e+01 1aba 87 7.15e+01 1aba c.47.1.1 32760 1x7dA 350 7.15e+01 1hq8A 123 7.18e+01 1b6e d.169.1.1 61127 1n4wA 504 7.18e+01 c.3.1.2,d.16.1.1 91676,91677 2a6cA 83 7.21e+01 1x8hA 228 7.21e+01 1h8eG 272 7.23e+01 1e79G c.49.2.1 60756 1wddS 128 7.24e+01 1g8kA 825 7.25e+01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1n2eA 300 7.34e+01 c.26.1.4 85268 1mo1A 87 7.34e+01 d.94.1.1 91363 1ycoA 279 7.36e+01 1xuvA 178 7.38e+01 1jb7A 495 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