# List of top-scoring protein chains for t04-100-40-40-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 1g9oA 91 8.32e-15 1pdr b.36.1.1 60400 2fe5A 94 9.68e-15 1tp5A 119 1.24e-14 1be9A 119 4.01e-14 1pdr b.36.1.1 24774 2fcfA 103 7.87e-14 1qavA 90 1.79e-13 1qauA b.36.1.1 24777 1n7eA 97 2.17e-13 b.36.1.1 91691 1mfgA 95 7.10e-13 b.36.1.1 79043 1ihjA 98 8.26e-13 1pdr b.36.1.1 62382 1n7fA 97 1.51e-12 b.36.1.1 91692 1q3oA 109 1.70e-12 b.36.1.1 95700 1l6oA 95 2.88e-12 b.36.1.1 84534 1kwaA 88 1.67e-11 1kwaA b.36.1.1 24772 1nf3C 128 2.74e-11 b.36.1.1 85596 2f0aA 98 3.06e-11 1wf7A 103 3.12e-11 2f5yA 91 6.76e-11 1qauA 112 7.45e-11 1qauA b.36.1.1 24779 1nteA 82 1.56e-10 b.36.1.1 86163 1r6jA 82 2.92e-10 b.36.1.1 97151 1v5lA 103 2.94e-10 b.36.1.1 108378 1fc6A 388 2.90e-06 1fc6A b.36.1.3,c.14.1.2 64738,64739 1lcyA 325 3.98e-06 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 2.01e-05 1y8tA 324 1.24e-02 1fxlA 167 1.62e-02 1b7fA d.58.7.1,d.58.7.1 39183,39184 1y9wA 140 1.55e-01 1r13A 148 8.08e-01 d.169.1.1,h.1.1.1 96782,96783 1sotA 320 9.68e-01 b.36.1.4,b.47.1.1 105852,105853 1ucyH 150 1.17e+00 1ucyH 2bhoA 130 1.39e+00 2bsjA 133 1.43e+00 1vkcA 158 1.70e+00 1y9kA 157 1.71e+00 2bshA 125 1.78e+00 1svy 114 1.97e+00 1svy d.109.1.1 40831 1y96A 86 2.00e+00 2bkfA 87 2.09e+00 1yoxA 250 2.16e+00 2c5qA 240 2.17e+00 1a79A 171 2.39e+00 1a79A c.52.2.1,d.75.1.1 33340,39739 1tllA 688 2.60e+00 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 2fe7A 166 2.90e+00 2atrA 138 2.91e+00 1i4uA 181 3.10e+00 b.60.1.1 61732 1bo4A 168 3.23e+00 1bo4A d.108.1.1 40798 1xebA 150 3.57e+00 1prtF 98 4.09e+00 1prtF b.40.2.1 25140 1ha1 184 4.18e+00 1ha1 d.58.7.1,d.58.7.1 39147,39148 1d8cA 723 4.30e+00 1d8cA c.1.13.1 29325 1y7rA 133 4.42e+00 1uheA 97 4.43e+00 1f20A 435 4.47e+00 b.43.4.1,c.25.1.4 64932,64933 1ze3H 122 4.61e+00 2affA 120 4.70e+00 2brfA 110 4.84e+00 1d4xG 126 4.85e+00 1d0nA d.109.1.1 59109 1l3kA 196 5.35e+00 d.58.7.1,d.58.7.1 73539,73540 1yjmA 110 5.39e+00 1zh5A 195 5.44e+00 2mspA 126 6.08e+00 1mspA b.1.11.2 22335 1nm1G 125 6.20e+00 d.109.1.1 80653 1r0vA 305 6.44e+00 c.52.2.1,c.52.2.1,d.75.1.1 96742,96743,96744 1p7tA 731 6.48e+00 c.1.13.1 94319 1v60A 123 6.70e+00 1se8A 301 6.74e+00 b.40.4.3 105448 1fl0A 171 6.75e+00 1eujA b.40.4.4 25315 2f4wA 187 7.01e+00 2ae6A 166 7.26e+00 1eerB 227 7.49e+00 1eerB b.1.2.1,b.1.2.1 22011,22012 1z9lA 128 7.53e+00 1qstA 160 8.23e+00 1yghA d.108.1.1 40804 1p5vB 147 8.25e+00 b.2.3.2 87814 1yvkA 163 8.26e+00 1g31A 111 8.26e+00 1g31A b.35.1.1 24656 1db3A 372 8.30e+00 1db3A c.2.1.2 29813 2aefA 234 8.47e+00 2aexA 346 8.60e+00 1nepA 130 8.91e+00 b.1.18.7 80440 1k6xA 352 8.93e+00 c.2.1.2 68238 1on0A 158 9.44e+00 d.108.1.1 87095 1mspA 126 9.77e+00 1mspA b.1.11.2 22333 1xk5A 204 9.78e+00 1fdr 248 1.00e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1xgkA 352 1.08e+01 2fvgA 340 1.08e+01 1rsy 152 1.10e+01 1rsy b.7.1.2 23192 1l0lB 439 1.10e+01 d.185.1.1,d.185.1.1 84484,84485 1uw0A 117 1.12e+01 g.39.1.12 108063 2ghpA 292 1.13e+01 1qy5A 269 1.13e+01 d.122.1.1 96573 2fl7A 232 1.14e+01 1lh0A 213 1.17e+01 c.61.1.1 73896 1k7iA 479 1.20e+01 b.80.7.1,d.92.1.6 77281,77282 1zhvA 134 1.23e+01 1lw6I 64 1.27e+01 d.40.1.1 74294 1hw7A 255 1.28e+01 1i7fA d.193.1.1 61297 1s3zA 165 1.30e+01 d.108.1.1 105250 1id0A 152 1.31e+01 d.122.1.3 66111 1viuA 203 1.31e+01 d.113.1.1 100771 1m1sA 116 1.34e+01 b.1.11.2 84747 1go7P 462 1.34e+01 b.80.7.1,d.92.1.6 76245,76246 1k32A 1045 1.35e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1rlhA 173 1.36e+01 d.256.1.1 97646 1fw9A 164 1.38e+01 1fw9A d.190.1.1 60059 1xewX 182 1.39e+01 1b7yB 785 1.41e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1th7A 81 1.43e+01 1t9fA 187 1.47e+01 b.42.6.1 106710 1h3gA 601 1.50e+01 b.1.18.2,b.71.1.1,c.1.8.1 90594,90595,90596 1zj6A 187 1.52e+01 1tluA 130 1.53e+01 d.156.1.2 107139 2f9dA 125 1.58e+01 1zh1A 163 1.59e+01 1mr3F 181 1.64e+01 c.37.1.8 79422 1vc3B 97 1.65e+01 1ti6A 875 1.66e+01 b.52.2.2,c.81.1.1 106974,106975 1eso 154 1.69e+01 1yaiA b.1.8.1 22293 1qsmA 152 1.69e+01 1qsmA d.108.1.1 40808 1rwzA 245 1.70e+01 d.131.1.2,d.131.1.2 98005,98006 1f3z 161 1.70e+01 1gpr b.84.3.1 28273 1jmuB 666 1.70e+01 1fxrA 64 1.75e+01 1fxd d.58.1.4 38993 2cy2A 174 1.75e+01 1luzA 88 1.77e+01 b.40.4.5 74271 1g7jB 116 1.78e+01 1f3rB b.1.1.1 19933 1mk4A 157 1.78e+01 d.108.1.1 84979 1to2I 64 1.84e+01 2c12A 439 1.90e+01 2d4pA 141 1.91e+01 1tt8A 164 1.92e+01 2fl4A 149 1.92e+01 1cqxA 403 1.93e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1j24A 143 1.95e+01 c.52.1.20 84008 1s1qA 145 1.95e+01 d.20.1.2 98351 1vdmA 153 1.98e+01 1io1A 398 1.99e+01 1io1A e.32.1.1 62611 1wvhA 134 2.00e+01 1vzqH 250 2.02e+01 1h8dH 260 2.03e+01 5ptp 1h3qA 140 2.04e+01 d.110.4.3 76652 1mjc 69 2.04e+01 1mjc b.40.4.5 25319 1wwtA 88 2.04e+01 1yaiA 151 2.08e+01 1yaiA b.1.8.1 22289 1i0lA 221 2.09e+01 c.61.1.1 71096 1l3iA 192 2.09e+01 c.66.1.22 77676 1kw4A 89 2.11e+01 a.60.1.2 73077 1trb 320 2.11e+01 1trb c.3.1.5,c.3.1.5 30529,30530 1wjuA 100 2.12e+01 1ok0A 74 2.13e+01 b.5.1.1 93191 1cruA 454 2.13e+01 1c9uA b.68.2.1 27617 1stzA 338 2.14e+01 a.4.5.51,d.110.2.3 106009,106010 1nqjA 119 2.15e+01 b.23.2.1 86031 1ppjB 439 2.18e+01 d.185.1.1,d.185.1.1 104254,104255 2cwpA 112 2.18e+01 1u07A 90 2.21e+01 1ad3A 452 2.22e+01 1ad3A c.82.1.1 35335 1um0A 365 2.24e+01 d.258.1.1 107942 1n3jA 119 2.26e+01 b.85.7.2 79963 1garA 212 2.26e+01 2gar c.65.1.1 34162 1o63A 219 2.30e+01 c.94.1.1 92540 1ifyA 49 2.33e+01 a.5.2.1 71207 1a2yB 116 2.33e+01 1gc1H b.1.1.1 19927 1pqhA 143 2.33e+01 b.52.2.1 95017 1l1dA 152 2.36e+01 b.88.1.3 73452 1si6X 282 2.40e+01 1o3yA 166 2.41e+01 c.37.1.8 86618 1wlsA 328 2.44e+01 1s8fA 177 2.45e+01 c.37.1.8 105370 1vheA 373 2.47e+01 b.49.3.1,c.56.5.4 100669,100670 1b87A 181 2.54e+01 1b87A d.108.1.1 40797 1rl2A 137 2.58e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1vj0A 380 2.67e+01 b.35.1.2,c.2.1.1 100786,100787 1vqwA 457 2.68e+01 2bw3A 534 2.69e+01 1tc6A 236 2.70e+01 d.122.1.1 106756 1y5eA 169 2.72e+01 1xtmA 175 2.72e+01 1a8y 367 2.73e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ii7A 333 2.77e+01 1ii7A d.159.1.4 62415 1f1zA 273 2.77e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1qg3A 195 2.80e+01 1qg3A b.1.2.1,b.1.2.1 21993,21994 1nu0A 138 2.81e+01 c.55.3.8 92165 1hoe 74 2.84e+01 1hoe b.5.1.1 22833 1zn6A 227 2.87e+01 1qw2A 102 2.88e+01 d.249.1.1 96456 1g3qA 237 2.88e+01 1hyqA c.37.1.10 60237 2fpmA 322 2.92e+01 1tlk 154 2.94e+01 1tlk b.1.1.4 21707 1sjgA 112 2.96e+01 b.33.1.1 105647 1xwwA 157 2.97e+01 2as0A 396 3.00e+01 1z4eA 153 3.00e+01 1ypcI 64 3.01e+01 2sniI d.40.1.1 38570 2prd 174 3.05e+01 2prd b.40.5.1 25435 1qsoA 149 3.08e+01 1qsmA d.108.1.1 40812 1y21A 282 3.08e+01 1ylxA 103 3.11e+01 1wv3A 238 3.14e+01 1xkpB 124 3.15e+01 1vpqA 273 3.16e+01 1nbwA 607 3.17e+01 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 1bcpF 99 3.18e+01 1prtF b.40.2.1 25142 2awaA 390 3.19e+01 1uzxA 169 3.19e+01 d.20.1.2 100238 1ten 90 3.25e+01 1ten b.1.2.1 21990 1r6vA 671 3.25e+01 1wk8A 194 3.26e+01 1qyaA 307 3.28e+01 d.21.1.2,d.21.1.2 104653,104654 1cq3A 233 3.29e+01 1cq3A b.27.1.1 23923 1rcf 169 3.30e+01 1rcf c.23.5.1 31170 1qmyA 167 3.39e+01 1qmyA d.3.1.2 37094 1jb9A 316 3.42e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1xx0A 127 3.44e+01 1ttwA 138 3.46e+01 d.198.1.1 107308 2adcA 229 3.46e+01 2cu1A 103 3.46e+01 1l7bA 92 3.47e+01 c.15.1.2 91053 1h2kA 349 3.47e+01 b.82.2.6 76572 1pmmA 466 3.48e+01 c.67.1.6 94901 1zhhB 242 3.51e+01 1r4aA 165 3.57e+01 c.37.1.8 96986 1k3eA 156 3.63e+01 d.198.1.1 68103 1ucdA 190 3.64e+01 d.124.1.1 107767 1oalA 151 3.64e+01 b.1.8.1 86739 1krhA 338 3.66e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1rxwA 336 3.67e+01 a.60.7.1,c.120.1.2 98059,98060 1wgrA 100 3.67e+01 1qcsA 211 3.69e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 2bgzA 299 3.72e+01 1wlgA 299 3.74e+01 1koe 172 3.82e+01 1koe d.169.1.5 42448 1p5vA 235 3.83e+01 b.1.11.1,b.7.2.1 87812,87813 1jnyA 435 3.83e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1kzlA 208 3.91e+01 b.43.4.3,b.43.4.3 77635,77636 1opr 213 3.91e+01 1opr c.61.1.1 34091 1ndh 272 3.94e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2ganA 190 3.95e+01 1gefA 123 3.96e+01 1gefA c.52.1.18 60465 1rk8A 165 3.96e+01 d.58.7.1 97603 1p4fA 293 4.02e+01 d.144.1.7 104063 1u9tA 354 4.03e+01 1qmvA 197 4.10e+01 1qq2A c.47.1.10 33066 1wmsA 177 4.16e+01 c.37.1.8 109414 2b06A 155 4.18e+01 2a5dA 175 4.18e+01 1tw0A 157 4.19e+01 1r62A 160 4.22e+01 d.122.1.3 104816 1l0wA 580 4.30e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1t3qB 788 4.32e+01 d.41.1.1,d.133.1.1 106369,106370 1i12A 160 4.33e+01 1i21A d.108.1.1 61515 1s9aA 257 4.39e+01 b.3.6.1 105379 2f1rA 171 4.40e+01 1u6mA 199 4.42e+01 1qlaB 239 4.54e+01 1qlaB a.1.2.1,d.15.4.2 15679,37707 1a53 247 4.56e+01 1a53 c.1.2.4 28564 1rxxA 421 4.56e+01 d.126.1.4 98061 1vbwA 68 4.59e+01 1dg9A 157 4.62e+01 1dg9A c.44.1.1 32637 1p99A 295 4.64e+01 c.94.1.1 94384 2f1wA 158 4.65e+01 1l0bA 229 4.72e+01 c.15.1.3,c.15.1.3 73391,73392 1bk7A 190 4.73e+01 1bk7A d.124.1.1 41121 1yvoA 172 4.73e+01 1i2mA 216 4.73e+01 1byuA c.37.1.8 61568 1oo0B 110 4.74e+01 d.58.7.1 87183 1xvsA 126 4.74e+01 1m4zA 238 4.75e+01 b.34.12.1 78630 1r8sA 164 4.77e+01 c.37.1.8 97247 1u9aA 160 4.81e+01 1u9aA d.20.1.1 38333 1sflA 238 4.88e+01 1yzvA 204 4.90e+01 1o50A 157 4.93e+01 d.37.1.1,d.37.1.1 92478,92479 1a62 130 4.95e+01 1a62 a.140.3.1,b.40.4.5 64708,64709 1pvmA 184 4.99e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 2a6hA 315 4.99e+01 1ikpA 613 5.02e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1pyoA 167 5.04e+01 c.17.1.1 95370 1avaC 181 5.06e+01 1avaC b.42.4.1 25604 1wnyA 186 5.10e+01 1vazA 88 5.10e+01 d.245.1.1 100554 1rm6A 769 5.11e+01 1yzgA 179 5.14e+01 1yruA 364 5.17e+01 1n0qA 93 5.26e+01 k.37.1.1 79754 1din 236 5.26e+01 1din c.69.1.9 34682 1v5tA 90 5.27e+01 d.15.1.1 108385 1obfO 335 5.31e+01 c.2.1.3,d.81.1.1 86768,86769 1fjgP 88 5.36e+01 1emwA d.27.1.1 38444 2bolA 314 5.36e+01 1oaqH 121 5.38e+01 b.1.1.1 92707 2a4nA 182 5.39e+01 1xm8A 254 5.45e+01 1wkoA 180 5.46e+01 1ucaA 190 5.53e+01 d.124.1.1 88462 1tmxA 293 5.53e+01 1hurA 180 5.57e+01 1hurA c.37.1.8 32052 1q9jA 422 5.57e+01 c.43.1.2,c.43.1.2 104590,104591 1ztxE 108 5.59e+01 1vckA 115 5.59e+01 1zi8A 236 5.60e+01 1fs0E 138 5.61e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 1zkkA 167 5.65e+01 2fojA 155 5.67e+01 1cliA 345 5.69e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1syxB 86 5.70e+01 1fl2A 310 5.70e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 2g3aA 152 5.72e+01 1ep3B 262 5.74e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1vr9A 213 5.75e+01 1y0yA 353 5.77e+01 1tif 78 5.82e+01 1tif d.15.8.1 37836 1s4iA 175 5.82e+01 1yzbA 182 5.83e+01 1bqhG 129 5.85e+01 1cd8 b.1.1.1 19715 1c0eA 157 5.87e+01 1dg9A c.44.1.1 32638 1yrtA 364 5.89e+01 1usuB 170 5.91e+01 d.83.2.1 99886 1xtqA 177 5.91e+01 1sy6A 204 5.92e+01 b.1.1.4,b.1.1.4 106111,106112 1iqqA 200 5.94e+01 d.124.1.1 66274 1l7yA 94 5.95e+01 d.15.1.6 73676 1wnfA 328 6.05e+01 1vpkA 378 6.05e+01 1t0fA 276 6.13e+01 1wjnA 97 6.14e+01 1vzoA 355 6.15e+01 d.144.1.7 108971 1wvqA 167 6.15e+01 2fk9A 157 6.18e+01 2f6uA 234 6.21e+01 1l8nA 679 6.21e+01 c.1.8.10,d.92.2.2 84564,84565 1z96A 40 6.27e+01 2cq2A 114 6.30e+01 1mpxA 615 6.30e+01 b.18.1.13,c.69.1.21 85041,85042 1hkfA 122 6.32e+01 b.1.1.1 83553 1x6oA 174 6.32e+01 b.34.5.2,b.40.4.5 109493,109494 2gi3A 476 6.32e+01 1t4gA 322 6.32e+01 a.60.4.1,c.37.1.11 106418,106419 1x84A 189 6.32e+01 1wexA 104 6.36e+01 1uptA 171 6.40e+01 c.37.1.8 99767 2ew8A 249 6.40e+01 1gyfA 62 6.40e+01 1gyfA d.76.1.1 39749 1wd5A 208 6.41e+01 1qfjA 232 6.42e+01 1qfjA b.43.4.2,c.25.1.1 25655,31545 1pne 140 6.42e+01 1pne d.110.1.1 40866 1bqbA 301 6.43e+01 1hyt d.92.1.2 58962 1ml9A 302 6.43e+01 b.85.7.1 79282 1kssA 571 6.46e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1jp4A 308 6.54e+01 1jp4A e.7.1.1 63223 1wi1A 126 6.55e+01 1vkbA 161 6.56e+01 d.269.1.1 108643 2a8kA 108 6.56e+01 1jjiA 311 6.57e+01 c.69.1.2 66766 2fhzB 108 6.58e+01 2a10A 125 6.59e+01 1jalA 363 6.66e+01 c.37.1.8,d.15.10.2 84138,84139 1k4iA 233 6.71e+01 d.115.1.2 72056 1yy6A 155 6.71e+01 1x65A 89 6.73e+01 1h8eA 510 6.76e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 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