# 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 1zpwX 90 5.56e-15 1vgjA 184 3.54e-03 1fmcA 255 1.35e-02 1cydA c.2.1.2 29856 1oz9A 150 1.47e-02 d.92.1.15 93808 1ta9A 450 2.60e-02 1s5jA 847 1.27e-01 1lkdA 297 1.84e-01 d.32.1.3,d.32.1.3 78059,78060 1gz2A 142 3.21e-01 d.169.1.1 83392 2ae2A 260 3.89e-01 1bdb c.2.1.2 29945 1eyqA 222 4.06e-01 1eypA d.36.1.1 38534 1ja9A 274 4.77e-01 c.2.1.2 62817 1qsgA 265 5.21e-01 1eny c.2.1.2 29935 1azo 232 6.88e-01 1azo c.52.1.14 33329 1a73A 163 9.19e-01 1a73A d.4.1.3 37145 1qysA 106 9.67e-01 k.41.1.1 96603 1nh8A 304 1.09e+00 c.94.1.1,d.58.5.3 80507,80508 1vl5A 260 1.14e+00 c.66.1.41 108720 1xr4A 509 1.28e+00 1cqmA 101 1.30e+00 1ris d.58.14.1 39321 1xhnA 184 1.69e+00 2fafA 608 1.73e+00 2c07A 285 1.81e+00 1m7bA 184 1.82e+00 c.37.1.8 74572 1t6t1 118 2.01e+00 1xu9A 286 2.04e+00 1jmsA 381 2.16e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1nhkL 144 2.63e+00 1npk d.58.6.1 39142 1qf9A 194 2.64e+00 1zin c.37.1.1 31848 1k66A 149 2.66e+00 c.23.1.1 90941 1k4nA 192 2.78e+00 d.32.1.5 72059 2b9eA 303 2.78e+00 1sqgA 429 2.82e+00 a.79.1.3,c.66.1.38 105912,105913 1uu1A 335 2.86e+00 c.67.1.1 99993 1aisA 182 2.90e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1kw3B 292 2.98e+00 d.32.1.3,d.32.1.3 77549,77550 1v5iB 76 3.02e+00 1omoA 322 3.08e+00 c.2.1.13 104017 1fzqA 181 3.09e+00 1hurA c.37.1.8 32060 1jbeA 128 3.24e+00 3chy c.23.1.1 62845 1z3eA 132 3.28e+00 1iv3A 152 3.66e+00 d.79.5.1 76828 1vljA 407 3.76e+00 e.22.1.2 108832 1d8hA 311 3.77e+00 1d8iA d.63.1.1 39544 1spxA 278 3.78e+00 c.2.1.2 98958 1wr2A 238 3.85e+00 1ugjA 141 3.90e+00 b.41.1.3 107826 2ge3A 170 3.99e+00 1y14A 187 4.27e+00 1dd9A 338 4.53e+00 1dd9A e.13.1.1 43254 1srvA 145 4.64e+00 1derA c.8.5.1 30817 1yb2A 275 5.17e+00 1ixkA 315 5.25e+00 c.66.1.38 90716 1zavA 180 5.56e+00 1vcvA 226 5.66e+00 1u8sA 192 5.79e+00 d.58.18.5,d.58.18.5 107737,107738 1iv8A 720 5.83e+00 b.71.1.1,c.1.8.1 76842,76843 1yf9A 171 5.91e+00 1zd3A 555 5.96e+00 1wfxA 186 6.16e+00 1eziA 228 6.18e+00 1eyrA c.68.1.13 34512 1on0A 158 6.76e+00 d.108.1.1 87095 1up7A 417 6.80e+00 1jq5A 370 7.25e+00 e.22.1.2 67084 2gw8A 114 7.75e+00 1seiA 130 7.82e+00 1seiA d.140.1.1 41463 1u0kA 288 7.83e+00 d.21.1.2,d.21.1.2 107547,107548 1xbiA 120 7.93e+00 1isiA 265 8.02e+00 e.4.1.1 71394 1z08A 170 8.52e+00 5csmA 256 8.55e+00 5csmA a.130.1.2 19494 1luaA 287 8.58e+00 c.2.1.7,c.58.1.4 78216,78217 1q7sA 117 8.67e+00 c.131.1.1 96055 1vicA 262 8.70e+00 c.68.1.13 100756 1sdsA 117 8.88e+00 d.79.3.1 105439 1owlA 484 9.05e+00 a.99.1.1,c.28.1.1 93647,93648 1zj8A 566 9.21e+00 1zd9A 188 9.44e+00 1k7wA 468 9.51e+00 a.127.1.1 72130 2fiuA 99 9.65e+00 2bd0A 244 9.95e+00 1b77A 228 1.00e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2an3A 289 1.01e+01 1hl9A 449 1.03e+01 b.71.1.3,c.1.8.11 90650,90651 1s8nA 205 1.06e+01 c.23.1.1 105374 1r2qA 170 1.06e+01 c.37.1.8 96874 1uc8A 280 1.07e+01 c.30.1.6,d.142.1.7 99165,99166 1tjvA 474 1.07e+01 a.127.1.1 107054 1y0uA 96 1.07e+01 2aeeA 211 1.12e+01 1i9gA 280 1.12e+01 c.66.1.13 62090 1zchA 255 1.12e+01 1r4pA 297 1.14e+01 d.165.1.2 97025 2cq2A 114 1.15e+01 1jyhA 157 1.16e+01 d.60.1.3 71956 1wjgA 137 1.16e+01 2axiA 115 1.17e+01 1b06A 210 1.17e+01 1avmA a.2.11.1,d.44.1.1 15740,38737 1q3iA 214 1.19e+01 d.220.1.1 104524 2fq3A 104 1.19e+01 1w23A 360 1.20e+01 1otjA 283 1.20e+01 b.82.2.5 93517 2bcgY 206 1.24e+01 2gjsA 176 1.25e+01 1ly1A 181 1.25e+01 c.37.1.1 74334 1vl4A 447 1.25e+01 d.283.1.1 108718 1rqbA 539 1.25e+01 a.5.7.2,c.1.10.5 105057,105058 1nkiA 135 1.26e+01 d.32.1.2 91941 2cveA 191 1.30e+01 2a1iA 146 1.31e+01 2bmeA 186 1.33e+01 1v84A 253 1.35e+01 c.68.1.7 108419 1wyzA 242 1.39e+01 1heiA 451 1.40e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1ucpA 91 1.40e+01 a.77.1.5 99186 1rlhA 173 1.41e+01 d.256.1.1 97646 2fcjA 119 1.41e+01 1nnvA 110 1.42e+01 d.17.7.1 92012 1idrA 136 1.43e+01 1dlyA a.1.1.1 62301 1jnyA 435 1.43e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1b00A 127 1.44e+01 3chy c.23.1.1 31122 1qsmA 152 1.44e+01 1qsmA d.108.1.1 40808 1dlyA 164 1.44e+01 1dlyA a.1.1.1 14983 1xviA 275 1.45e+01 1dcfA 136 1.46e+01 1dcfA c.23.1.2 31124 1wwkA 307 1.47e+01 1e87A 118 1.47e+01 1b6e d.169.1.1 42327 2f15A 96 1.48e+01 1zdyA 307 1.48e+01 2g6bA 180 1.50e+01 1wmmA 145 1.50e+01 1sfxA 109 1.50e+01 a.4.5.50 105505 1kdoA 227 1.52e+01 c.37.1.1 68478 1lfpA 249 1.52e+01 e.39.1.1 73885 2bgkA 278 1.53e+01 1ofcX 304 1.56e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2gvkA 317 1.60e+01 1jznA 135 1.62e+01 d.169.1.1 84262 1dqpA 230 1.65e+01 1dqnA c.61.1.1 34069 5nul 138 1.66e+01 5nul c.23.5.1 31191 1mba 147 1.71e+01 2fal a.1.1.2 15149 1p2fA 220 1.74e+01 a.4.6.1,c.23.1.1 87720,87721 1auoA 218 1.74e+01 1auoA c.69.1.14 34716 2g76A 335 1.75e+01 2gukA 120 1.77e+01 1tu5A 746 1.79e+01 1hxhA 253 1.79e+01 c.2.1.2 76725 2au3A 407 1.80e+01 1xtyA 120 1.81e+01 1jh6A 189 1.82e+01 d.61.1.1 66707 1go3E 187 1.83e+01 b.40.4.5,d.230.1.1 83054,83055 1z5bA 469 1.84e+01 1efyA 350 1.85e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1wf3A 301 1.93e+01 1k7jA 206 1.93e+01 d.115.1.1 72103 1fukA 165 1.94e+01 1fukA c.37.1.19 32409 1ksoA 101 1.95e+01 a.39.1.2 72926 1jeyB 565 1.95e+01 1jeqB b.131.1.2,c.62.1.4 90372,90373 1ky3A 182 1.96e+01 c.37.1.8 73193 1j34A 129 1.97e+01 d.169.1.1 84048 1fseA 74 1.97e+01 1fseA a.4.6.2 60000 1bif 469 1.97e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1r89A 437 1.98e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1t7lA 766 1.99e+01 1sh8A 154 2.02e+01 d.38.1.5 105549 1em8B 112 2.02e+01 c.126.1.1 90458 1x0oA 119 2.05e+01 2ew8A 249 2.06e+01 1s6cA 183 2.06e+01 a.39.1.5 98594 1geeA 261 2.06e+01 c.2.1.2 90509 2fldA 165 2.11e+01 2fg1A 158 2.13e+01 1d1qA 161 2.15e+01 1dg9A c.44.1.1 32642 1mzgA 146 2.15e+01 d.224.1.1 79696 2cy2A 174 2.17e+01 1mz4A 137 2.20e+01 a.3.1.1 91496 1mxiA 160 2.20e+01 c.116.1.1 79646 1k7kA 221 2.23e+01 c.51.4.1 72104 1wvqA 167 2.25e+01 1mb3A 124 2.31e+01 c.23.1.1 78907 2bmfA 451 2.31e+01 1xccA 220 2.32e+01 1vqzA 341 2.37e+01 1n0wA 243 2.38e+01 c.37.1.11 79772 1exbA 332 2.40e+01 1qrqA c.1.7.1 28666 1ygtA 111 2.41e+01 1hqz1 141 2.42e+01 1f6bA 198 2.43e+01 c.37.1.8 64986 1ln4A 104 2.45e+01 d.68.4.1 74043 2cxhA 217 2.46e+01 1m5wA 243 2.48e+01 c.1.24.1 84836 2ct9A 208 2.48e+01 1ryaA 160 2.49e+01 d.113.1.5 105122 1z3eB 73 2.49e+01 1kq3A 376 2.50e+01 e.22.1.2 68790 1u0sY 118 2.53e+01 c.23.1.1 107566 1vfjA 116 2.56e+01 1ddf 127 2.57e+01 1ddf a.77.1.2 18423 1rtqA 299 2.58e+01 c.56.5.4 97819 1em9A 154 2.59e+01 1d1dA a.73.1.1 18333 1r9cA 139 2.61e+01 d.32.1.2 97255 1sheA 103 2.61e+01 d.274.1.1 105551 1rjdA 334 2.61e+01 c.66.1.37 97558 1tvlA 454 2.62e+01 c.1.16.4 107366 2gf9A 189 2.66e+01 1j2mA 99 2.67e+01 a.165.1.1 84018 1q8bA 105 2.67e+01 d.58.4.6 96201 1mp9A 198 2.69e+01 d.129.1.1,d.129.1.1 91385,91386 1hl2A 297 2.74e+01 c.1.10.1 83581 1wmqA 147 2.75e+01 1w85A 368 2.76e+01 1n9eA 787 2.77e+01 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 2a5jA 191 2.79e+01 1f8fA 371 2.79e+01 b.35.1.2,c.2.1.1 83246,83247 1t95A 240 2.80e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1wa3A 205 2.80e+01 1w1oA 534 2.81e+01 d.58.32.4,d.145.1.1 109071,109072 1iugA 352 2.84e+01 c.67.1.3 90699 1yf2A 425 2.88e+01 2bepA 159 2.88e+01 1q7hA 153 2.89e+01 b.122.1.1,d.17.6.2 96042,96043 2a2cA 478 2.96e+01 1fxlA 167 2.96e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 1so7A 382 2.96e+01 1o57A 291 2.98e+01 a.4.5.40,c.61.1.1 92483,92484 2fpnA 216 3.00e+01 1wmzA 140 3.00e+01 d.169.1.1 109422 1ob8A 135 3.08e+01 1ydyA 356 3.10e+01 2gpyA 233 3.11e+01 2cmxA 118 3.11e+01 1n9lA 109 3.11e+01 d.110.3.6 85468 1z83A 196 3.12e+01 1uw1A 80 3.12e+01 k.42.1.1 100069 2fxaA 207 3.14e+01 1v72A 356 3.16e+01 1tmy 120 3.17e+01 1dbwA c.23.1.1 31083 1jo0A 98 3.18e+01 d.68.4.1 77140 5pal 109 3.22e+01 1a75A a.39.1.4 17215 2bx6A 350 3.24e+01 1kafA 108 3.26e+01 d.199.1.1 68372 1k92A 455 3.30e+01 c.26.2.1,d.210.1.1 68325,68326 1xubA 298 3.35e+01 1m15A 357 3.40e+01 a.83.1.1,d.128.1.2 78368,78369 1sviA 195 3.40e+01 c.37.1.8 106048 1aoy 78 3.42e+01 1aoy a.4.5.3 16087 1zdnA 158 3.43e+01 1zsxA 347 3.44e+01 1jdlA 121 3.47e+01 a.3.1.1 66557 1gp6A 356 3.47e+01 b.82.2.1 65441 1s98A 107 3.47e+01 b.124.1.1 105377 1obbA 480 3.48e+01 c.2.1.5,d.162.1.2 86760,86761 1fe0A 68 3.50e+01 1cc8A d.58.17.1 39345 1cczA 171 3.51e+01 1cczA b.1.1.1,b.1.1.3 19758,21683 2g40A 224 3.52e+01 1y81A 138 3.53e+01 1u7eB 154 3.53e+01 1dcoA 104 3.56e+01 1dcpA d.74.1.1 39680 2cruA 118 3.57e+01 2coeA 120 3.57e+01 1ozjA 144 3.58e+01 d.164.1.1 93846 1h5rA 293 3.59e+01 c.68.1.6 65623 1pzgA 331 3.61e+01 c.2.1.5,d.162.1.1 95425,95426 2cx1A 187 3.63e+01 1gnkA 112 3.65e+01 2pii d.58.5.1 39073 1gvdA 52 3.67e+01 a.4.1.3 83338 1a53 247 3.73e+01 1a53 c.1.2.4 28564 1uqvA 85 3.74e+01 a.60.1.2 99798 1rw1A 114 3.74e+01 1dlwA 116 3.74e+01 1dlyA a.1.1.1 14982 7aatA 401 3.75e+01 1ajsA c.67.1.1 34250 2c9wA 169 3.76e+01 1wi6A 88 3.77e+01 1j5sA 463 3.77e+01 c.1.9.8 71580 2h1rA 299 3.78e+01 1x3sA 195 3.80e+01 1vkkA 154 3.82e+01 d.109.1.2 108669 1urrA 102 3.85e+01 d.58.10.1 107998 1wy0A 342 3.86e+01 2a1xA 308 3.87e+01 1oywA 523 3.89e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 2cw8A 537 3.91e+01 2g19A 244 3.93e+01 1t2dA 322 3.93e+01 c.2.1.5,d.162.1.1 99084,99085 1ve3A 227 3.93e+01 1914 232 3.93e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1wnaA 131 3.94e+01 1i27A 73 3.96e+01 1i27A a.4.5.30 61555 2bbrA 195 3.97e+01 1ignA 246 4.07e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1wl8A 189 4.07e+01 1g60A 260 4.08e+01 c.66.1.11 70151 1qb2A 109 4.12e+01 1qb2A a.36.1.1 17125 1ru0A 105 4.16e+01 1mzbA 136 4.16e+01 a.4.5.42 91497 1wpuA 147 4.19e+01 2cwkA 160 4.20e+01 1ez0A 510 4.20e+01 1eyyA c.82.1.1 35385 2f1fA 164 4.23e+01 1qs1A 462 4.23e+01 1qs1A d.166.1.1,d.166.1.1 42260,42261 8rucI 123 4.24e+01 1rboC d.73.1.1 39629 1f1uA 323 4.29e+01 d.32.1.3,d.32.1.3 83200,83201 1m32A 366 4.32e+01 c.67.1.3 78508 1zccA 248 4.32e+01 1j09A 468 4.35e+01 a.97.1.1,c.26.1.1 77025,77026 1xb2B 291 4.36e+01 1ow1A 195 4.36e+01 b.131.1.3 93625 1vmjA 151 4.41e+01 1uekA 275 4.43e+01 d.14.1.5,d.58.26.5 88483,88484 1kn1A 160 4.48e+01 a.1.1.3 77455 1wznA 252 4.50e+01 2dbsA 90 4.50e+01 1qo0D 196 4.50e+01 1qo0D c.23.1.3 31125 1qauA 112 4.50e+01 1qauA b.36.1.1 24779 1vhyA 257 4.50e+01 b.122.1.2,c.116.1.5 100714,100715 1rcqA 357 4.51e+01 b.49.2.2,c.1.6.1 104882,104883 1j99A 293 4.51e+01 c.37.1.5 71618 1xpcA 248 4.52e+01 1c3cA 429 4.53e+01 1c3cA a.127.1.1 19425 1wpbA 172 4.54e+01 1g0oA 283 4.56e+01 1ybvA c.2.1.2 60181 2d8rA 99 4.56e+01 1kyqA 274 4.63e+01 c.2.1.11,e.37.1.1 73281,73282 1z0nA 96 4.65e+01 2hbtA 247 4.67e+01 1c0pA 363 4.73e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1mjfA 281 4.75e+01 c.66.1.17 79198 1xdzA 240 4.83e+01 1vf7A 369 4.85e+01 f.46.1.1 108557 2fckA 181 4.86e+01 1kzfA 230 4.86e+01 d.108.1.3 73354 1b3tA 147 4.87e+01 1b3tA d.58.8.1 39228 2ci1A 275 4.88e+01 2a7oA 112 4.90e+01 1eayC 74 4.91e+01 1eayC d.58.24.1 39386 1x6mA 196 4.96e+01 1ohvA 472 4.96e+01 c.67.1.4 93031 1iktA 120 4.98e+01 d.106.1.1 66188 1xwwA 157 4.99e+01 1ccwA 137 5.02e+01 1be1 c.23.6.1 31238 2b8nA 429 5.04e+01 1q9uA 130 5.06e+01 d.129.7.1 96314 1ir21 140 5.10e+01 1jalA 363 5.15e+01 c.37.1.8,d.15.10.2 84138,84139 1si2A 149 5.17e+01 b.34.14.1 105569 1uslA 170 5.27e+01 c.121.1.1 99871 1u5vA 273 5.28e+01 1wijA 140 5.30e+01 1f00I 282 5.31e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 1f5vA 240 5.33e+01 1bkjA d.90.1.1 40255 1rloA 271 5.35e+01 1ydwA 362 5.36e+01 2asfA 137 5.41e+01 1ars 396 5.41e+01 1ajsA c.67.1.1 34287 1c4oA 664 5.44e+01 1d2mA c.37.1.19,c.37.1.19 32415,32416 1gca 309 5.44e+01 1gca c.93.1.1 35659 1v38A 78 5.45e+01 a.60.1.2 100280 2a4dA 160 5.46e+01 1ekeA 230 5.48e+01 1ekeA c.55.3.1 33572 1ryiA 382 5.54e+01 4tmkA 213 5.56e+01 5tmpA c.37.1.1 31930 2absA 383 5.56e+01 1ywqA 200 5.58e+01 2cvjA 180 5.60e+01 1zh5A 195 5.60e+01 1dg9A 157 5.61e+01 1dg9A c.44.1.1 32637 1wv3A 238 5.62e+01 1gd0A 122 5.62e+01 1dptA d.80.1.3 39834 1id1A 153 5.64e+01 1id1A c.2.1.9 62286 1u5hA 273 5.66e+01 1ulyA 192 5.67e+01 1udh 244 5.72e+01 3eugA c.18.1.1 31015 1x7dA 350 5.75e+01 2esrA 177 5.75e+01 1wn2A 121 5.83e+01 2ethA 154 5.85e+01 1sglA 209 5.86e+01 d.124.1.1 105536 1vrvA 101 5.86e+01 1f1xA 322 5.95e+01 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