# List of top-scoring protein chains for t06-100-30-str2-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 1l2tA 235 7.05e-03 c.37.1.12 73514 1z47A 355 2.91e-02 1hp1A 516 4.70e-02 d.114.1.1,d.159.1.2 70976,70977 2b99A 156 5.45e-02 1c9kA 180 9.00e-02 1c9kB c.37.1.11 32363 1vyrA 364 1.24e-01 c.1.4.1 108906 1fobA 334 1.79e-01 c.1.8.3 83255 1mb3A 124 2.15e-01 c.23.1.1 78907 2aa4A 289 2.31e-01 2gqrA 237 2.38e-01 1xubA 298 3.51e-01 1b0uA 262 4.14e-01 1b0uA c.37.1.12 32370 1w44A 331 4.20e-01 2anuA 255 4.24e-01 1srrA 124 5.05e-01 1dz3A c.23.1.1 31110 1z2lA 423 5.27e-01 1i39A 225 5.38e-01 1ekeA c.55.3.1 61585 1obdA 306 5.41e-01 d.143.1.1 86767 1sg4A 260 5.50e-01 1e6uA 321 5.62e-01 1bsvA c.2.1.2 29805 1m6iA 493 6.08e-01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 2c31A 568 6.43e-01 1u94A 356 6.53e-01 c.37.1.11,d.48.1.1 107743,107744 1vr3A 191 7.69e-01 2f5tX 233 8.73e-01 1cr1A 296 8.77e-01 1cr1A c.37.1.11 32286 1jf8A 131 9.18e-01 c.44.1.1 66621 1g6hA 257 1.04e+00 1gajA c.37.1.12 60318 1y10A 407 1.11e+00 1kngA 156 1.20e+00 c.47.1.10 72777 1vplA 256 1.39e+00 1w2xA 758 1.41e+00 c.14.1.4,c.14.1.4 109134,109135 1u0sY 118 1.43e+00 c.23.1.1 107566 1uyrA 737 1.47e+00 c.14.1.4,c.14.1.4 100188,100189 1tmy 120 1.51e+00 1dbwA c.23.1.1 31083 1jmvA 141 1.55e+00 c.26.2.4 66897 1oxxK 353 1.56e+00 b.40.6.3,c.37.1.12 93715,93716 1wqaA 455 1.59e+00 1o0iA 138 1.61e+00 d.38.1.5 86532 1ig8A 486 1.63e+00 2yhx c.55.1.3,c.55.1.3 64746,64747 1e19A 314 1.68e+00 1b7bA c.73.1.1 34967 1ig3A 263 1.77e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1nu0A 138 1.78e+00 c.55.3.8 92165 1j8mF 297 1.82e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1g291 372 1.86e+00 1g291 1z41A 338 1.92e+00 1zn6A 227 2.11e+00 1nxmA 197 2.15e+00 b.82.1.1 86385 2ae2A 260 2.17e+00 1bdb c.2.1.2 29945 1k77A 260 2.17e+00 c.1.15.5 72096 1n2eA 300 2.32e+00 c.26.1.4 85268 1gheA 177 2.42e+00 d.108.1.1 76222 1m3uA 264 2.43e+00 c.1.12.8 84784 1fvuB 125 2.53e+00 1ixxB d.169.1.1 42346 1u04A 771 2.87e+00 b.34.14.1,c.55.3.10 107539,107540 1yavA 159 2.95e+00 1xp8A 366 3.11e+00 1v02A 565 3.25e+00 c.1.8.4 108194 1w5fA 353 3.29e+00 1z3eA 132 3.31e+00 2a84A 300 3.32e+00 1zy9A 564 3.34e+00 1ojqA 212 3.42e+00 d.166.1.1 93146 1tp9A 162 3.61e+00 1w78A 422 3.62e+00 1k1eA 180 3.75e+00 c.108.1.5 67995 2bbsA 290 3.83e+00 1eiwA 111 3.85e+00 1eiwA c.23.3.1 31130 1zmtA 254 4.03e+00 1eo1A 124 4.14e+00 1eo1A c.55.5.1 33739 1n2sA 299 4.22e+00 c.2.1.2 79857 1qo2A 241 4.24e+00 1qo2A c.1.2.1 28533 1pwxA 254 4.24e+00 c.2.1.2 95262 1q7zA 566 4.33e+00 c.1.21.2,c.1.26.1 96090,96091 1z4eA 153 4.43e+00 1es9A 232 4.44e+00 1wab c.23.10.3 31340 1kutA 230 4.51e+00 d.143.1.1 73017 1tqzA 133 4.63e+00 2czdA 208 4.75e+00 1jkxA 212 4.77e+00 c.65.1.1 66813 1vf8A 377 4.89e+00 1ekeA 230 4.92e+00 1ekeA c.55.3.1 33572 7a3hA 303 5.01e+00 7a3hA c.1.8.3 28817 1qipA 183 5.03e+00 1qipA d.32.1.1 38470 1vp8A 201 5.06e+00 1cnzA 363 5.10e+00 1cnzA c.77.1.1 35061 1n13B 113 5.11e+00 1meoA 209 5.15e+00 c.65.1.1 79035 1j31A 262 5.30e+00 d.160.1.2 90808 1t0fA 276 5.30e+00 1w0dA 337 5.43e+00 1dbiA 280 5.45e+00 1gci c.41.1.1 32543 2bryA 497 5.48e+00 1xfsA 178 5.55e+00 d.129.3.5 109589 1io2A 213 5.56e+00 1ekeA c.55.3.1 62612 1wb4A 297 5.66e+00 1a9xB 379 5.92e+00 1c3oB c.8.3.1,c.23.16.1 30732,31409 7odcA 424 5.98e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1hq0A 295 6.19e+00 1hzgA d.194.1.1 61122 1juhA 350 6.23e+00 b.82.1.5 71884 1dozA 309 6.36e+00 1ak1 c.92.1.1 35592 1ek0A 170 6.42e+00 1ctqA c.37.1.8 32076 1n0wA 243 6.47e+00 c.37.1.11 79772 1oneA 436 6.63e+00 4enl c.1.11.1,d.54.1.1 29200,38844 1qmyA 167 6.71e+00 1qmyA d.3.1.2 37094 1o98A 511 6.71e+00 c.105.1.1,c.76.1.3 86684,86685 1khdA 345 6.72e+00 a.46.2.1,c.27.1.1 77400,77401 2ffcA 353 6.80e+00 1qv9A 283 6.81e+00 c.127.1.1 96356 1ve3A 227 6.82e+00 2bllA 345 6.84e+00 1qe5A 266 6.91e+00 1b8oA c.56.2.1 33784 2ge3A 170 6.98e+00 1f89A 291 6.98e+00 d.160.1.1 64988 1m2oA 768 7.03e+00 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1q8bA 105 7.16e+00 d.58.4.6 96201 1wb0A 445 7.27e+00 1g0cA 364 7.29e+00 7a3hA c.1.8.3 60165 1s8nA 205 7.46e+00 c.23.1.1 105374 1f28A 297 7.47e+00 1bkpA d.117.1.1 59608 1c30B 382 7.52e+00 c.8.3.1,c.23.16.1 30736,31413 1zc3B 113 7.53e+00 2gasA 307 7.55e+00 2f4nA 273 7.56e+00 1hh1A 143 7.61e+00 1gefA c.52.1.18 61036 1mo9A 523 7.76e+00 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1w5qA 337 7.76e+00 2al1A 436 7.81e+00 1gmlA 178 7.85e+00 c.8.5.2 70273 2al2A 436 7.88e+00 1dq3A 454 7.95e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2fp8A 322 8.09e+00 1r8gA 372 8.14e+00 d.128.1.3 104845 1vrmA 325 8.35e+00 1npuA 117 8.38e+00 b.1.1.1 92038 2b0vA 153 8.40e+00 1tq5A 242 8.62e+00 1ispA 181 8.65e+00 c.69.1.18 76778 1xc3A 302 8.81e+00 1gteA 1025 9.12e+00 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1gs5A 258 9.16e+00 c.73.1.2 70395 1zmdA 474 9.23e+00 1ltzA 297 9.44e+00 d.178.1.1 74254 1h0hB 214 9.62e+00 d.58.1.5 76437 1ypfA 336 9.87e+00 1wy5A 317 9.88e+00 1m8jA 181 9.97e+00 c.26.1.3 84875 1lv7A 257 1.02e+01 c.37.1.20 78232 1r0rE 274 1.02e+01 c.41.1.1 96735 1vpqA 273 1.03e+01 1svdA 473 1.03e+01 1ccwA 137 1.04e+01 1be1 c.23.6.1 31238 2az4A 429 1.04e+01 1u2eA 289 1.04e+01 2bpqA 373 1.05e+01 1ivyA 452 1.05e+01 1ivyA c.69.1.5 34654 1uj6A 227 1.07e+01 c.124.1.4,d.58.40.1 107898,107899 1s95A 333 1.08e+01 d.159.1.3 105375 1bqcA 302 1.08e+01 1bqcA c.1.8.3 28831 1zp4A 304 1.10e+01 1uf5A 303 1.11e+01 d.160.1.2 107808 1qxyA 252 1.11e+01 d.127.1.1 96565 1xbbA 291 1.11e+01 2fyxA 143 1.12e+01 1ye8A 178 1.14e+01 2f5gA 133 1.14e+01 1zmoA 244 1.18e+01 1bg4 302 1.18e+01 1taxA c.1.8.3 28806 1s2wA 295 1.20e+01 c.1.12.7 98407 1fzvA 132 1.22e+01 1vpfA g.17.1.1 60159 1m93B 245 1.22e+01 1v04A 355 1.23e+01 b.68.6.2 100240 1kyqA 274 1.23e+01 c.2.1.11,e.37.1.1 73281,73282 2f1fA 164 1.23e+01 1q74A 303 1.24e+01 c.134.1.1 96019 2cw5A 255 1.26e+01 2grrA 161 1.27e+01 2aq5A 402 1.28e+01 1yqzA 438 1.28e+01 1jtdB 273 1.29e+01 b.69.5.2 67265 1vk9A 151 1.30e+01 c.139.1.1 108640 1nu7D 282 1.30e+01 a.8.6.1,a.8.6.1 92191,92192 1u9aA 160 1.31e+01 1u9aA d.20.1.1 38333 2etvA 346 1.32e+01 1edqA 540 1.33e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1xk7A 408 1.35e+01 1m0kA 262 1.36e+01 f.13.1.1 78344 1ag6 99 1.37e+01 1plc b.6.1.1 22857 1uoyA 64 1.37e+01 g.3.19.1 99709 1yvoA 172 1.37e+01 1u2cA 246 1.38e+01 b.1.6.2,d.272.1.1 107610,107611 1f9zA 135 1.39e+01 1qipA d.32.1.1 38484 2fexA 188 1.40e+01 2ap1A 327 1.40e+01 1v7lA 163 1.41e+01 1n8jA 186 1.42e+01 c.47.1.10 85401 1ualA 274 1.43e+01 c.116.1.4 88383 1jksA 294 1.43e+01 d.144.1.7 71710 1qwgA 251 1.44e+01 c.1.27.1 96473 1zhvA 134 1.45e+01 2g76A 335 1.47e+01 1o97C 264 1.47e+01 c.26.2.3 81232 1h3fA 432 1.49e+01 c.26.1.1,d.66.1.4 76631,76632 1nhkL 144 1.50e+01 1npk d.58.6.1 39142 1on0A 158 1.51e+01 d.108.1.1 87095 1vfvA 366 1.52e+01 c.37.1.9 108592 2gtrA 261 1.53e+01 1rvgA 305 1.53e+01 c.1.10.2 97920 1v5eA 590 1.54e+01 1vhxA 150 1.54e+01 c.55.3.8 100712 1kblA 873 1.56e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ijtA 128 1.56e+01 1bfg b.42.1.1 62510 1tv8A 340 1.57e+01 c.1.28.3 107352 1dkiA 371 1.57e+01 1dkiA d.3.1.1 37090 2frnA 278 1.59e+01 1qhtA 775 1.59e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1jmxB 349 1.59e+01 b.69.2.2 66906 1hzdA 272 1.60e+01 c.14.1.3 65969 2cy2A 174 1.62e+01 2gkeA 274 1.62e+01 1th0A 226 1.62e+01 d.3.1.7 106903 1ma3A 253 1.63e+01 c.31.1.5 78883 1mwqA 101 1.64e+01 d.58.4.7 91481 3nul 130 1.64e+01 3nul d.110.1.1 40891 1ri6A 343 1.66e+01 b.69.11.1 97503 1c96A 753 1.67e+01 1amj c.8.2.1,c.83.1.1 30727,35403 1o66A 275 1.68e+01 c.1.12.8 92547 1d3gA 367 1.71e+01 1d3gA c.1.4.1 28600 1lw7A 365 1.72e+01 c.26.1.3,c.37.1.1 74295,74296 1jykA 254 1.73e+01 c.68.1.13 67458 1s7iA 124 1.74e+01 d.58.4.9 105353 1qwyA 291 1.76e+01 b.84.3.2 96509 1iukA 140 1.78e+01 c.2.1.8 83712 2bepA 159 1.78e+01 1qsmA 152 1.80e+01 1qsmA d.108.1.1 40808 1y0gA 191 1.80e+01 1g7sA 594 1.81e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1pvdA 537 1.84e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 2fiuA 99 1.84e+01 1mvoA 136 1.85e+01 c.23.1.1 79513 1l7dA 384 1.85e+01 c.2.1.4,c.23.12.2 77774,77775 2b5dX 528 1.86e+01 2azpA 318 1.86e+01 1pm3A 78 1.86e+01 b.41.1.2 94889 1m98A 317 1.86e+01 a.175.1.1,d.17.4.6 78866,78867 1gvhA 396 1.88e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1pcxA 810 1.89e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1dl5A 317 1.89e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1orrA 347 1.89e+01 c.2.1.2 93460 1t9bA 677 1.89e+01 1u9tA 354 1.89e+01 1zr6A 503 1.90e+01 1acf 125 1.90e+01 3nul d.110.1.1 40882 1te0A 318 1.91e+01 1yd9A 193 1.92e+01 1s57A 153 1.92e+01 1thm 279 1.93e+01 1gci c.41.1.1 32544 1i60A 278 1.94e+01 c.1.15.4 71118 1ws0A 156 1.94e+01 1wq3A 322 1.94e+01 1izcA 339 1.97e+01 c.1.12.5 83838 1ei6A 406 1.97e+01 c.76.1.4 90443 2ethA 154 1.98e+01 1jg1A 235 1.99e+01 c.66.1.7 66661 1zarA 282 2.01e+01 1ursA 402 2.03e+01 c.94.1.1 99833 1gr3A 160 2.03e+01 b.22.1.1 65476 1e5dA 402 2.04e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 2axyA 73 2.05e+01 1wleA 501 2.05e+01 2af4C 333 2.06e+01 1hyvA 166 2.06e+01 1b9dA c.55.3.2 61424 1ne9A 335 2.07e+01 d.108.1.4,d.108.1.4 91839,91840 2fymA 431 2.07e+01 1fzqA 181 2.11e+01 1hurA c.37.1.8 32060 1svvA 359 2.12e+01 c.67.1.1 106054 2cvhA 220 2.12e+01 1nq6A 302 2.13e+01 c.1.8.3 92046 1vdwA 254 2.13e+01 e.7.1.1 100569 1whsB 153 2.13e+01 1whtB 1u4gA 301 2.16e+01 d.92.1.2 107670 1uluA 261 2.17e+01 1szoA 257 2.19e+01 c.14.1.3 106164 1hdiA 413 2.20e+01 16pk c.86.1.1 60964 2b49A 287 2.20e+01 2f71A 298 2.21e+01 2a67A 167 2.21e+01 1yd7A 395 2.29e+01 1me8A 503 2.30e+01 c.1.5.1 79028 1i4uA 181 2.31e+01 b.60.1.1 61732 1lvoA 302 2.32e+01 b.47.1.4 74284 1v33A 366 2.32e+01 d.264.1.1 100278 1jflA 228 2.34e+01 c.78.2.1,c.78.2.1 71656,71657 2pia 321 2.36e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1z2iA 358 2.36e+01 2aefA 234 2.38e+01 1p4fA 293 2.38e+01 d.144.1.7 104063 1wg8A 285 2.40e+01 1s5aA 150 2.41e+01 d.17.4.10 98525 1iy8A 267 2.42e+01 c.2.1.2 83774 1zh2A 121 2.47e+01 1mkkA 96 2.49e+01 g.17.1.1 79240 1exqA 154 2.50e+01 1b9dA c.55.3.2 33646 1o57A 291 2.52e+01 a.4.5.40,c.61.1.1 92483,92484 1o8xA 146 2.56e+01 c.47.1.10 86681 1d2nA 272 2.57e+01 1d2nA c.37.1.20 32428 2dkaA 544 2.58e+01 2a5hA 416 2.58e+01 1u24A 337 2.58e+01 1b25A 619 2.59e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1k4zA 159 2.62e+01 b.80.5.1 72070 1mi3A 322 2.64e+01 c.1.7.1 91274 2c0nA 203 2.64e+01 1n7kA 234 2.67e+01 c.1.10.1 85374 2gshA 414 2.70e+01 1q6oA 216 2.72e+01 c.1.2.3 95986 1i0dA 332 2.72e+01 1pscA c.1.9.3 61487 1sgwA 214 2.72e+01 c.37.1.12 105541 1dfuP 94 2.72e+01 1dfuP b.53.1.1 26936 1bg2 325 2.73e+01 1bg2 c.37.1.9 32189 1nziA 159 2.80e+01 b.23.1.1,g.3.11.1 86449,86450 1wosA 364 2.81e+01 b.44.2.1,d.250.1.1 109468,109469 1vjoA 393 2.83e+01 c.67.1.3 100827 1ls1A 295 2.86e+01 a.24.13.1,c.37.1.10 78170,78171 1lj5A 379 2.88e+01 e.1.1.1 73928 1yhfA 115 2.89e+01 1gvfA 286 2.89e+01 c.1.10.2 70599 2as0A 396 2.90e+01 1vr5A 547 2.92e+01 2a1xA 308 2.93e+01 1vavA 222 2.95e+01 b.29.1.18 108472 1gqzA 274 2.96e+01 d.21.1.1,d.21.1.1 83311,83312 2av4A 162 2.96e+01 1auk 489 2.96e+01 1auk c.76.1.2 35030 1jatA 155 2.96e+01 1u9aA d.20.1.1 62818 1fjhA 257 2.99e+01 1fjhB c.2.1.2 29870 1vkdA 338 2.99e+01 b.67.2.4 108644 1zgzA 122 3.02e+01 1ig0A 319 3.05e+01 1ig0A b.82.6.1,c.100.1.1 62354,62355 1ej2A 181 3.11e+01 1f9aA c.26.1.3 59414 1bu6O 501 3.14e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 2bhuA 602 3.15e+01 1zs9A 261 3.17e+01 1bupA 386 3.18e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ivnA 190 3.19e+01 c.23.10.5 83719 2fhxA 246 3.21e+01 1nxuA 333 3.24e+01 c.122.1.1 86389 1sjwA 144 3.26e+01 d.17.4.9 98899 1q45A 391 3.26e+01 c.1.4.1 95780 1f6yA 262 3.27e+01 1f6yA c.1.21.2 29673 1pa1A 310 3.28e+01 c.45.1.2 94404 1syxB 86 3.29e+01 1ekqA 272 3.29e+01 1c3qA c.72.1.2 34941 1fxoA 293 3.30e+01 1g0rA c.68.1.6 34524 1n82A 331 3.32e+01 c.1.8.3 91703 1xm7A 195 3.32e+01 1ujpA 271 3.33e+01 c.1.2.4 99462 1xg8A 111 3.33e+01 1fjgE 162 3.36e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 2gdjA 264 3.36e+01 2b06A 155 3.37e+01 1amf 233 3.37e+01 1wod c.94.1.1 35833 2cqnA 77 3.37e+01 1qd1A 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