# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1z47A 355 2.53e-02 1l2tA 235 6.79e-02 c.37.1.12 73514 1fobA 334 8.80e-02 c.1.8.3 83255 2b99A 156 2.49e-01 1sg4A 260 2.91e-01 1w44A 331 6.69e-01 1c9kA 180 6.71e-01 1c9kB c.37.1.11 32363 1u94A 356 7.70e-01 c.37.1.11,d.48.1.1 107743,107744 1jf8A 131 1.33e+00 c.44.1.1 66621 2f5tX 233 1.42e+00 1xp8A 366 1.46e+00 1vyrA 364 1.54e+00 c.1.4.1 108906 1lt8A 406 1.58e+00 c.1.26.1 78186 1nxmA 197 1.77e+00 b.82.1.1 86385 1obdA 306 1.96e+00 d.143.1.1 86767 1cr1A 296 2.15e+00 1cr1A c.37.1.11 32286 1b0uA 262 2.16e+00 1b0uA c.37.1.12 32370 1mb3A 124 2.22e+00 c.23.1.1 78907 1k77A 260 2.36e+00 c.1.15.5 72096 2gqrA 237 2.38e+00 1vplA 256 2.59e+00 1e6uA 321 2.73e+00 1bsvA c.2.1.2 29805 2anuA 255 3.32e+00 1kutA 230 3.44e+00 d.143.1.1 73017 2gtrA 261 3.47e+00 1srrA 124 3.79e+00 1dz3A c.23.1.1 31110 1vf8A 377 4.35e+00 1m6iA 493 4.42e+00 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1g7sA 594 4.68e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1vr3A 191 4.77e+00 1m3uA 264 4.89e+00 c.1.12.8 84784 1i39A 225 5.07e+00 1ekeA c.55.3.1 61585 1u0sY 118 5.26e+00 c.23.1.1 107566 1g6hA 257 5.32e+00 1gajA c.37.1.12 60318 1ivyA 452 5.68e+00 1ivyA c.69.1.5 34654 1yavA 159 5.69e+00 1hp1A 516 5.82e+00 d.114.1.1,d.159.1.2 70976,70977 1tmy 120 6.07e+00 1dbwA c.23.1.1 31083 1cnzA 363 6.33e+00 1cnzA c.77.1.1 35061 1v33A 366 6.51e+00 d.264.1.1 100278 1g291 372 7.33e+00 1g291 1ig3A 263 7.43e+00 1ig3A b.82.6.1,c.100.1.1 62358,62359 1f28A 297 7.57e+00 1bkpA d.117.1.1 59608 1zn6A 227 7.57e+00 1e19A 314 7.78e+00 1b7bA c.73.1.1 34967 1c44A 123 8.47e+00 1qndA d.106.1.1 40795 1v02A 565 8.50e+00 c.1.8.4 108194 1z2lA 423 9.02e+00 1ek0A 170 9.36e+00 1ctqA c.37.1.8 32076 2a1xA 308 9.45e+00 1ispA 181 9.66e+00 c.69.1.18 76778 1ojqA 212 9.67e+00 d.166.1.1 93146 1qsmA 152 9.96e+00 1qsmA d.108.1.1 40808 1wb0A 445 1.02e+01 1iy8A 267 1.02e+01 c.2.1.2 83774 1wyzA 242 1.06e+01 1wy5A 317 1.06e+01 1i60A 278 1.08e+01 c.1.15.4 71118 1oxxK 353 1.08e+01 b.40.6.3,c.37.1.12 93715,93716 1w78A 422 1.08e+01 2c31A 568 1.09e+01 1acf 125 1.10e+01 3nul d.110.1.1 40882 1z41A 338 1.14e+01 1wurA 220 1.15e+01 1vpqA 273 1.21e+01 1h8eD 482 1.26e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1jmvA 141 1.26e+01 c.26.2.4 66897 1edqA 540 1.27e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1n0wA 243 1.28e+01 c.37.1.11 79772 2czdA 208 1.30e+01 2ck3D 482 1.32e+01 1uh5A 329 1.37e+01 c.2.1.2 107840 1tqzA 133 1.41e+01 2ae2A 260 1.46e+01 1bdb c.2.1.2 29945 1gheA 177 1.47e+01 d.108.1.1 76222 1j8mF 297 1.48e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1lnsA 763 1.55e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1w5fA 353 1.65e+01 1w0dA 337 1.68e+01 2frnA 278 1.72e+01 2cqnA 77 1.75e+01 1wleA 501 1.81e+01 1ef8A 261 1.85e+01 1ef8A c.14.1.3 30921 1o0iA 138 1.86e+01 d.38.1.5 86532 1r0rE 274 1.87e+01 c.41.1.1 96735 3nul 130 1.94e+01 3nul d.110.1.1 40891 1fvuB 125 1.97e+01 1ixxB d.169.1.1 42346 1szoA 257 1.97e+01 c.14.1.3 106164 2b0vA 153 1.98e+01 7odcA 424 1.99e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1tfr 305 2.00e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1w5qA 337 2.09e+01 1m7gA 211 2.12e+01 c.37.1.4 78724 1ebfA 358 2.12e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1bqcA 302 2.12e+01 1bqcA c.1.8.3 28831 1eq2A 310 2.23e+01 1eq2A c.2.1.2 29814 1z90A 469 2.24e+01 1vcdA 126 2.24e+01 2be1A 339 2.25e+01 1jkxA 212 2.26e+01 c.65.1.1 66813 1uf5A 303 2.33e+01 d.160.1.2 107808 1h3fA 432 2.34e+01 c.26.1.1,d.66.1.4 76631,76632 1g0cA 364 2.34e+01 7a3hA c.1.8.3 60165 2bbsA 290 2.35e+01 1u4gA 301 2.36e+01 d.92.1.2 107670 1xubA 298 2.42e+01 1t71A 281 2.45e+01 1wqaA 455 2.46e+01 1zhvA 134 2.53e+01 1j9lA 247 2.54e+01 c.106.1.1 62762 1juhA 350 2.59e+01 b.82.1.5 71884 1pvdA 537 2.63e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1o98A 511 2.65e+01 c.105.1.1,c.76.1.3 86684,86685 1jbkA 195 2.68e+01 c.37.1.20 71631 1mvoA 136 2.70e+01 c.23.1.1 79513 2gdjA 264 2.70e+01 2gasA 307 2.72e+01 1pwxA 254 2.75e+01 c.2.1.2 95262 1c96A 753 2.78e+01 1amj c.8.2.1,c.83.1.1 30727,35403 2aa4A 289 2.79e+01 1thm 279 2.82e+01 1gci c.41.1.1 32544 1wddA 477 2.84e+01 1hziA 129 2.84e+01 1rcb a.26.1.2 61449 7a3hA 303 2.85e+01 7a3hA c.1.8.3 28817 1gvhA 396 2.88e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1nu0A 138 2.91e+01 c.55.3.8 92165 1ltzA 297 2.93e+01 d.178.1.1 74254 1vp8A 201 2.98e+01 1bg4 302 3.02e+01 1taxA c.1.8.3 28806 1dozA 309 3.02e+01 1ak1 c.92.1.1 35592 2pia 321 3.02e+01 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1c30B 382 3.06e+01 c.8.3.1,c.23.16.1 30736,31413 1mxgA 435 3.08e+01 b.71.1.1,c.1.8.1 85193,85194 1ufwA 95 3.13e+01 d.58.7.1 99358 2bc4B 211 3.14e+01 1me8A 503 3.15e+01 c.1.5.1 79028 1hl9A 449 3.15e+01 b.71.1.3,c.1.8.11 90650,90651 1vjoA 393 3.17e+01 c.67.1.3 100827 1qtwA 285 3.17e+01 1qumA c.1.15.1 29392 1d3vA 323 3.20e+01 1d3vA c.42.1.1 32559 1jmxB 349 3.21e+01 b.69.2.2 66906 1hjsA 332 3.22e+01 c.1.8.3 83492 1zmtA 254 3.25e+01 1f89A 291 3.26e+01 d.160.1.1 64988 2bo4A 397 3.29e+01 1t8tA 271 3.33e+01 c.37.1.5 106685 2d48A 129 3.33e+01 1eiwA 111 3.35e+01 1eiwA c.23.3.1 31130 1odzA 386 3.44e+01 c.1.8.3 86889 1qv9A 283 3.46e+01 c.127.1.1 96356 1nffA 260 3.49e+01 c.2.1.2 80457 2b61A 377 3.52e+01 2f5gA 133 3.54e+01 1orrA 347 3.54e+01 c.2.1.2 93460 1nzjA 298 3.55e+01 c.26.1.1 92377 1rvgA 305 3.55e+01 c.1.10.2 97920 2fyxA 143 3.65e+01 2dri 271 3.67e+01 2dri c.93.1.1 35637 2bllA 345 3.67e+01 2b5dX 528 3.67e+01 1lv7A 257 3.68e+01 c.37.1.20 78232 1repC 251 3.69e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1ryiA 382 3.69e+01 1s8nA 205 3.73e+01 c.23.1.1 105374 1f9vA 347 3.76e+01 1bg2 c.37.1.9 59745 1zmoA 244 3.80e+01 1xeoA 168 3.86e+01 1a9xB 379 3.86e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1ei6A 406 3.92e+01 c.76.1.4 90443 1z4eA 153 3.99e+01 1vfvA 366 4.02e+01 c.37.1.9 108592 1q74A 303 4.03e+01 c.134.1.1 96019 1qipA 183 4.09e+01 1qipA d.32.1.1 38470 2ethA 154 4.10e+01 2cvhA 220 4.11e+01 1vdmA 153 4.12e+01 1xttA 216 4.13e+01 1w2xA 758 4.15e+01 c.14.1.4,c.14.1.4 109134,109135 2fexA 188 4.16e+01 1n2sA 299 4.19e+01 c.2.1.2 79857 1pm4A 119 4.19e+01 b.135.1.1 94891 1fmcA 255 4.20e+01 1cydA c.2.1.2 29856 1n2eA 300 4.21e+01 c.26.1.4 85268 1svdA 473 4.24e+01 1g5aA 628 4.37e+01 b.71.1.1,c.1.8.1 65152,65153 2grrA 161 4.42e+01 1ursA 402 4.42e+01 c.94.1.1 99833 1j31A 262 4.43e+01 d.160.1.2 90808 1uyrA 737 4.49e+01 c.14.1.4,c.14.1.4 100188,100189 1ma3A 253 4.50e+01 c.31.1.5 78883 1u9aA 160 4.50e+01 1u9aA d.20.1.1 38333 1geeA 261 4.54e+01 c.2.1.2 90509 1qxyA 252 4.59e+01 d.127.1.1 96565 1dbiA 280 4.60e+01 1gci c.41.1.1 32543 2bepA 159 4.61e+01 1a0cA 438 4.61e+01 1a0cA c.1.15.3 29529 1pcxA 810 4.63e+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 2b06A 155 4.68e+01 2gr8A 99 4.68e+01 1nu7D 282 4.79e+01 a.8.6.1,a.8.6.1 92191,92192 1z3eA 132 4.82e+01 2axyA 73 4.82e+01 1qmyA 167 4.83e+01 1qmyA d.3.1.2 37094 1o66A 275 4.86e+01 c.1.12.8 92547 1vk6A 269 4.94e+01 d.113.1.4,d.113.1.4 100851,100852 1jmsA 381 4.99e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1xb4A 202 5.06e+01 1dysA 348 5.10e+01 1bvwA c.6.1.1 30669 1kngA 156 5.13e+01 c.47.1.10 72777 1j5sA 463 5.15e+01 c.1.9.8 71580 1q45A 391 5.17e+01 c.1.4.1 95780 1y1nA 291 5.18e+01 1m98A 317 5.23e+01 a.175.1.1,d.17.4.6 78866,78867 1svfB 38 5.24e+01 1svfB h.3.2.1 45764 1lvoA 302 5.26e+01 b.47.1.4 74284 2carA 196 5.34e+01 1gvnB 287 5.38e+01 c.37.1.21 76354 1vetA 124 5.39e+01 d.110.7.1 108553 1q7zA 566 5.47e+01 c.1.21.2,c.1.26.1 96090,96091 1zc3B 113 5.47e+01 1woqA 267 5.49e+01 c.55.1.10,c.55.1.10 109462,109463 1meoA 209 5.52e+01 c.65.1.1 79035 1vhsA 175 5.55e+01 d.108.1.1 100698 1l7mA 211 5.56e+01 c.108.1.4 73664 1cv8 174 5.63e+01 1cv8 d.3.1.1 37089 2a84A 300 5.64e+01 1vc1A 110 5.65e+01 c.13.2.1 108493 1yliA 153 5.74e+01 1rd5A 262 5.74e+01 2azpA 318 5.75e+01 1s57A 153 5.76e+01 2af4C 333 5.87e+01 2ffsA 157 5.89e+01 2ge3A 170 5.98e+01 1hzdA 272 6.03e+01 c.14.1.3 65969 1ws0A 156 6.04e+01 2akaB 299 6.06e+01 1fh9A 312 6.09e+01 1taxA c.1.8.3 28913 1w8iA 156 6.09e+01 1wywA 230 6.14e+01 2f4nA 273 6.15e+01 2rmcA 182 6.15e+01 2cpl b.62.1.1 27491 1xfsA 178 6.22e+01 d.129.3.5 109589 1wt4A 73 6.24e+01 2fp8A 322 6.27e+01 1nnwA 252 6.27e+01 d.159.1.5 80674 2fo1D 85 6.33e+01 1izcA 339 6.35e+01 c.1.12.5 83838 1ne9A 335 6.36e+01 d.108.1.4,d.108.1.4 91839,91840 2cw5A 255 6.36e+01 2cdcA 366 6.39e+01 1yh3A 256 6.39e+01 1mtzA 293 6.40e+01 c.69.1.7 79467 1pea 385 6.41e+01 1pea c.93.1.1 35662 7taa 478 6.41e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1z7gA 217 6.42e+01 1hdoA 206 6.42e+01 1he2A c.2.1.2 60965 1z2iA 358 6.42e+01 1ivnA 190 6.47e+01 c.23.10.5 83719 1v2bA 177 6.50e+01 d.107.1.2 108279 1vrmA 325 6.50e+01 1z5yE 149 6.51e+01 1xqwA 293 6.57e+01 1ta3B 303 6.62e+01 c.1.8.3 106732 1nhkL 144 6.70e+01 1npk d.58.6.1 39142 1yd9A 193 6.77e+01 1m0wA 491 6.85e+01 c.30.1.4,d.142.1.6 78363,78364 1zr6A 503 6.88e+01 1wlsA 328 6.92e+01 2c07A 285 6.94e+01 1sqsA 242 6.95e+01 c.23.5.5 98968 1k2eA 156 7.02e+01 d.113.1.1 72010 1wb4A 297 7.05e+01 1vp2A 208 7.13e+01 1es9A 232 7.15e+01 1wab c.23.10.3 31340 1m4uA 206 7.17e+01 g.17.1.7 78625 1gqnA 252 7.22e+01 c.1.10.1 90514 1n13B 113 7.26e+01 1ve3A 227 7.27e+01 1ekeA 230 7.31e+01 1ekeA c.55.3.1 33572 1zp4A 304 7.51e+01 2aefA 234 7.52e+01 1bg2 325 7.53e+01 1bg2 c.37.1.9 32189 1efvB 255 7.70e+01 1efvB c.26.2.3 31634 1nnxA 109 7.75e+01 b.40.10.1 92013 1v5eA 590 7.75e+01 1vqoH 171 7.78e+01 1v9sA 208 7.82e+01 1ye8A 178 7.88e+01 1sjwA 144 7.88e+01 d.17.4.9 98899 1xrsA 516 7.90e+01 1a3c 181 7.91e+01 1a3c c.61.1.1 34095 2yhx 457 7.94e+01 2yhx i.12.1.1 46024 1q8fA 313 7.94e+01 c.70.1.1 96203 1qsgA 265 7.96e+01 1eny c.2.1.2 29935 1m8jA 181 8.00e+01 c.26.1.3 84875 1s2dA 167 8.01e+01 c.23.14.1 98377 1ur1A 378 8.06e+01 c.1.8.3 99804 1gvfA 286 8.15e+01 c.1.10.2 70599 1llnA 262 8.19e+01 d.165.1.1 84625 1mugA 168 8.21e+01 1mugA c.18.1.2 31030 2fuvA 549 8.21e+01 1qo2A 241 8.28e+01 1qo2A c.1.2.1 28533 2ajrA 331 8.32e+01 1bolA 222 8.32e+01 1bolA d.124.1.1 41120 2fbiA 142 8.36e+01 1xkrA 206 8.39e+01 1qc7A 101 8.41e+01 1qc7A a.118.14.1 18456 1vm0A 130 8.55e+01 d.68.6.2 108873 1n7kA 234 8.62e+01 c.1.10.1 85374 1xk7A 408 8.62e+01 1s2wA 295 8.63e+01 c.1.12.7 98407 1nm2A 317 8.64e+01 c.19.1.1,d.58.23.1 80654,80655 2ffcA 353 8.71e+01 1vrtA 560 8.77e+01 1rthA c.55.3.1,e.8.1.2 33574,43023 1t5bA 201 8.78e+01 c.23.5.3 106433 1yrbA 262 8.91e+01 1fjgE 162 8.92e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 2gnpA 266 8.96e+01 1gk8A 475 8.97e+01 c.1.14.1,d.58.9.1 65234,65235 1v60A 123 8.98e+01 2btzA 394 8.99e+01 1g2qA 187 8.99e+01 c.61.1.1 65117