# List of top-scoring protein chains for t04-100-30-o_sep-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 1jf8A 131 4.03e-01 c.44.1.1 66621 1l2tA 235 5.20e-01 c.37.1.12 73514 2b99A 156 8.69e-01 1mb3A 124 9.40e-01 c.23.1.1 78907 1z47A 355 1.10e+00 1jmvA 141 1.11e+00 c.26.2.4 66897 2ct8A 497 1.20e+00 1fobA 334 1.60e+00 c.1.8.3 83255 1h61A 364 1.88e+00 1oyc c.1.4.1 60657 1c9kA 180 1.93e+00 1c9kB c.37.1.11 32363 1ek0A 170 1.94e+00 1ctqA c.37.1.8 32076 1gvoA 364 2.03e+00 c.1.4.1 76357 1a04A 215 2.11e+00 1a04A a.4.6.2,c.23.1.1 16234,31089 1xx4A 261 2.11e+00 1pm3A 78 2.20e+00 b.41.1.2 94889 1h3fA 432 2.25e+00 c.26.1.1,d.66.1.4 76631,76632 1vp8A 201 2.27e+00 2reb 352 2.40e+00 2reb c.37.1.11,d.48.1.1 32282,38767 1vyrA 364 2.41e+00 c.1.4.1 108906 1k77A 260 2.44e+00 c.1.15.5 72096 1vypX 364 2.52e+00 c.1.4.1 108905 1tmy 120 2.53e+00 1dbwA c.23.1.1 31083 2cqnA 77 2.77e+00 1yuwA 554 2.78e+00 1kay 381 2.82e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1mzjA 339 2.83e+00 c.95.1.2,c.95.1.2 79700,79701 1bupA 386 2.88e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 2abbA 364 2.97e+00 1h6zA 913 3.03e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1lt8A 406 3.17e+00 c.1.26.1 78186 1ekeA 230 3.32e+00 1ekeA c.55.3.1 33572 1cnzA 363 3.45e+00 1cnzA c.77.1.1 35061 2ftxB 64 3.46e+00 1eiwA 111 3.53e+00 1eiwA c.23.3.1 31130 2axyA 73 3.66e+00 1u94A 356 3.83e+00 c.37.1.11,d.48.1.1 107743,107744 1u4gA 301 3.87e+00 d.92.1.2 107670 1u0sY 118 3.87e+00 c.23.1.1 107566 1sg4A 260 3.95e+00 1mvoA 136 3.98e+00 c.23.1.1 79513 1i39A 225 4.04e+00 1ekeA c.55.3.1 61585 1f28A 297 4.09e+00 1bkpA d.117.1.1 59608 2c31A 568 4.25e+00 7odcA 424 4.33e+00 7odcA b.49.2.3,c.1.6.1 26488,28650 1f1zA 273 4.42e+00 1f1zA a.4.5.27,c.52.1.16 16081,33334 1lfkA 398 4.57e+00 a.104.1.1 77926 1ezm 301 4.85e+00 1hyt d.92.1.2 58980 1rvgA 305 5.01e+00 c.1.10.2 97920 1p5jA 372 5.01e+00 c.79.1.1 104067 1e19A 314 5.06e+00 1b7bA c.73.1.1 34967 1b0uA 262 5.21e+00 1b0uA c.37.1.12 32370 1yvkA 163 5.35e+00 1z2lA 423 5.47e+00 1k66A 149 5.65e+00 c.23.1.1 90941 1io2A 213 5.76e+00 1ekeA c.55.3.1 62612 1qvbA 481 5.76e+00 1qvbA c.1.8.4 28983 2b61A 377 5.84e+00 1srrA 124 6.03e+00 1dz3A c.23.1.1 31110 1gheA 177 6.21e+00 d.108.1.1 76222 1y10A 407 6.52e+00 1g71A 347 6.58e+00 1g71A d.264.1.1 43268 1e55A 512 6.71e+00 1e70M c.1.8.4 28934 1r2qA 170 6.76e+00 c.37.1.8 96874 1e9lA 377 6.93e+00 1e9lA c.1.8.5,d.26.3.1 59395,59396 1h49A 512 6.95e+00 c.1.8.4 83477 1qc7A 101 6.96e+00 1qc7A a.118.14.1 18456 2gshA 414 7.04e+00 1q7zA 566 7.12e+00 c.1.21.2,c.1.26.1 96090,96091 1ac5 483 7.21e+00 1ac5 c.69.1.5 34653 1gegA 256 7.27e+00 1ybvA c.2.1.2 29888 1ltzA 297 7.46e+00 d.178.1.1 74254 1b6g 310 7.49e+00 1b6g c.69.1.8 34661 1huqA 164 7.66e+00 1byuA c.37.1.8 32020 2gqrA 237 7.68e+00 1qv9A 283 7.81e+00 c.127.1.1 96356 2cvjA 180 7.85e+00 1pea 385 7.88e+00 1pea c.93.1.1 35662 1u1wA 298 7.97e+00 1v33A 366 8.26e+00 d.264.1.1 100278 1ede 310 8.47e+00 1b6g c.69.1.8 34662 1hp1A 516 8.50e+00 d.114.1.1,d.159.1.2 70976,70977 1t6kA 278 8.71e+00 1bg4 302 8.75e+00 1taxA c.1.8.3 28806 1qoiA 177 8.80e+00 2cpl b.62.1.1 27490 1vl8A 267 9.14e+00 c.2.1.2 108733 1pvdA 537 9.17e+00 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1mzhA 225 9.27e+00 c.1.10.1 79698 1t8tA 271 9.37e+00 c.37.1.5 106685 2g76A 335 9.37e+00 2azpA 318 9.44e+00 1qwgA 251 9.68e+00 c.1.27.1 96473 1y9kA 157 9.69e+00 2ethA 154 9.69e+00 1umdA 367 9.81e+00 c.36.1.11 99599 1yd7A 395 9.92e+00 2gclA 261 1.01e+01 1h5qA 265 1.02e+01 1cydA c.2.1.2 60643 1twfH 146 1.03e+01 1i50H 146 1.04e+01 b.40.4.8 61761 2ffjA 300 1.04e+01 1zy9A 564 1.05e+01 1phk 298 1.06e+01 1cdkA d.144.1.7 41635 1jjiA 311 1.08e+01 c.69.1.2 66766 1ush 550 1.08e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1vf8A 377 1.09e+01 2gzxA 265 1.10e+01 1xubA 298 1.10e+01 1zhhB 242 1.10e+01 1kutA 230 1.12e+01 d.143.1.1 73017 1t0fA 276 1.13e+01 1vk9A 151 1.14e+01 c.139.1.1 108640 1xttA 216 1.14e+01 1wab 232 1.14e+01 1wab c.23.10.3 31341 1g6hA 257 1.15e+01 1gajA c.37.1.12 60318 2czdA 208 1.16e+01 1es9A 232 1.20e+01 1wab c.23.10.3 31340 1w78A 422 1.20e+01 1yavA 159 1.22e+01 1wzzA 334 1.23e+01 1nu7D 282 1.25e+01 a.8.6.1,a.8.6.1 92191,92192 2a1dD 329 1.25e+01 1h54A 754 1.25e+01 a.102.1.4,b.30.5.3 60634,60635 1wmhA 89 1.26e+01 1hh1A 143 1.30e+01 1gefA c.52.1.18 61036 1ih8A 271 1.30e+01 2nsyA c.26.2.1 62377 1qo2A 241 1.31e+01 1qo2A c.1.2.1 28533 1pwhA 327 1.34e+01 c.79.1.1 95224 2ge3A 170 1.35e+01 2h4vA 320 1.37e+01 1ej2A 181 1.37e+01 1f9aA c.26.1.3 59414 1ig3A 263 1.37e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 1xhcA 367 1.37e+01 1uyrA 737 1.37e+01 c.14.1.4,c.14.1.4 100188,100189 1ka2A 499 1.38e+01 d.92.1.5 77305 1oxxK 353 1.38e+01 b.40.6.3,c.37.1.12 93715,93716 1nzjA 298 1.39e+01 c.26.1.1 92377 1r1dA 247 1.45e+01 c.69.1.29 96813 1dbiA 280 1.46e+01 1gci c.41.1.1 32543 1y8tA 324 1.49e+01 1ne9A 335 1.51e+01 d.108.1.4,d.108.1.4 91839,91840 2ac2A 309 1.51e+01 1kqpA 271 1.52e+01 c.26.2.1 72883 1b25A 619 1.52e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ep3A 311 1.53e+01 2dorA c.1.4.1 28597 1cr1A 296 1.53e+01 1cr1A c.37.1.11 32286 1hkkA 364 1.53e+01 c.1.8.5,d.26.3.1 90634,90635 1q6oA 216 1.54e+01 c.1.2.3 95986 2d69A 430 1.55e+01 1v8fA 276 1.55e+01 c.26.1.4 100503 1qpoA 284 1.55e+01 1qpoA c.1.17.1,d.41.2.1 29561,38597 1wvhA 134 1.56e+01 1z41A 338 1.56e+01 1w8iA 156 1.57e+01 1kblA 873 1.60e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ho1A 242 1.62e+01 1ho1A c.1.24.1 61097 2c2aA 258 1.62e+01 1w2xA 758 1.63e+01 c.14.1.4,c.14.1.4 109134,109135 2b7oA 464 1.63e+01 1yb3A 175 1.65e+01 1s8nA 205 1.66e+01 c.23.1.1 105374 1r0rE 274 1.67e+01 c.41.1.1 96735 1ru8A 232 1.67e+01 c.26.2.1 97849 2ac4A 309 1.67e+01 1ak5 503 1.69e+01 1ak5 c.1.5.1 28639 2fp8A 322 1.71e+01 1iqyA 638 1.71e+01 b.30.2.1,d.17.2.1,d.17.2.1 76763,76764,76765 1vp2A 208 1.73e+01 2fexA 188 1.73e+01 1hc7A 477 1.75e+01 1hc7A c.51.1.1,d.104.1.1,d.68.5.1 60938,60939,60940 1m8jA 181 1.78e+01 c.26.1.3 84875 1ctn 540 1.79e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21876,29005,38439 2cwxA 430 1.83e+01 1ufkA 254 1.84e+01 c.66.1.39 99340 1yu6A 275 1.84e+01 1vc3B 97 1.87e+01 2bpqA 373 1.89e+01 1ujpA 271 1.89e+01 c.1.2.4 99462 1dozA 309 1.89e+01 1ak1 c.92.1.1 35592 1e7rA 321 1.89e+01 1bsvA c.2.1.2 29808 1q45A 391 1.89e+01 c.1.4.1 95780 2gpiA 91 1.92e+01 1jx7A 117 1.93e+01 c.114.1.1 77195 1vc1A 110 1.93e+01 c.13.2.1 108493 1itwA 741 1.94e+01 c.77.1.2 76793 1kv8A 216 1.94e+01 c.1.2.3 73054 1rjoA 646 1.95e+01 1yvrA 538 1.96e+01 2dchX 216 1.96e+01 1uqtA 482 1.98e+01 c.87.1.6 99794 1in4A 334 1.98e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1v02A 565 1.99e+01 c.1.8.4 108194 1lv7A 257 1.99e+01 c.37.1.20 78232 1z3eA 132 1.99e+01 1uh5A 329 2.01e+01 c.2.1.2 107840 1ursA 402 2.01e+01 c.94.1.1 99833 2a67A 167 2.02e+01 1ceo 343 2.03e+01 1ceo c.1.8.3 28808 1j31A 262 2.03e+01 d.160.1.2 90808 1xjdA 345 2.04e+01 1npeA 267 2.09e+01 b.68.5.1 92032 1me8A 503 2.09e+01 c.1.5.1 79028 1cunA 213 2.11e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 1ma3A 253 2.12e+01 c.31.1.5 78883 1v6tA 255 2.12e+01 1e6uA 321 2.12e+01 1bsvA c.2.1.2 29805 1vkmA 297 2.14e+01 c.138.1.1 108670 1gmlA 178 2.15e+01 c.8.5.2 70273 1u5pA 216 2.15e+01 1rhcA 330 2.16e+01 c.1.16.3 97468 1ui8A 638 2.18e+01 b.30.2.1,d.17.2.1,d.17.2.1 99419,99420,99421 1siiA 646 2.21e+01 b.30.2.1,d.17.2.1,d.17.2.1 105578,105579,105580 1qmpA 130 2.24e+01 1dz3A c.23.1.1 31106 1ve4A 206 2.26e+01 1yd9A 193 2.27e+01 1eqoA 158 2.29e+01 1hka 1g291 372 2.32e+01 1g291 1zckA 154 2.38e+01 1vpqA 273 2.38e+01 1nq6A 302 2.38e+01 c.1.8.3 92046 1v4vA 376 2.38e+01 c.87.1.3 100313 1zs9A 261 2.42e+01 1jykA 254 2.43e+01 c.68.1.13 67458 1exqA 154 2.43e+01 1b9dA c.55.3.2 33646 1j7nA 776 2.44e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 2dri 271 2.48e+01 2dri c.93.1.1 35637 1nhkL 144 2.49e+01 1npk d.58.6.1 39142 1edqA 540 2.49e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1q77A 138 2.49e+01 c.26.2.4 96023 2bllA 345 2.49e+01 1itg 166 2.51e+01 1b9dA c.55.3.2 33661 1syyA 346 2.55e+01 a.25.1.2 106126 2a6aA 218 2.56e+01 2c07A 285 2.56e+01 1pj5A 830 2.57e+01 b.44.2.1,c.3.1.2,d.16.1.5,d.250.1.1 94742,94743,94744,94745 1k68A 140 2.60e+01 c.23.1.1 90943 1ewnA 219 2.62e+01 1bnkA b.46.1.2 25762 1qtwA 285 2.65e+01 1qumA c.1.15.1 29392 1s57A 153 2.65e+01 1wu4A 396 2.66e+01 1a0cA 438 2.67e+01 1a0cA c.1.15.3 29529 1sjiA 350 2.70e+01 1jj2R 84 2.71e+01 1ffkP d.12.1.1 63103 2fiuA 99 2.71e+01 1lnsA 763 2.71e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1fmcA 255 2.73e+01 1cydA c.2.1.2 29856 1zesA 125 2.73e+01 1svdA 473 2.74e+01 1ybdA 239 2.75e+01 2cxxA 190 2.76e+01 1w2wB 191 2.78e+01 1v58A 241 2.78e+01 c.47.1.9,d.17.3.1 108371,108372 1w44A 331 2.79e+01 1xb4A 202 2.79e+01 1fzqA 181 2.80e+01 1hurA c.37.1.8 32060 2bzlA 325 2.80e+01 1tqhA 247 2.81e+01 c.69.1.29 107225 1on0A 158 2.82e+01 d.108.1.1 87095 1u2eA 289 2.82e+01 1dd9A 338 2.84e+01 1dd9A e.13.1.1 43254 1s72S 85 2.85e+01 d.12.1.1 105338 1z4eA 153 2.88e+01 1ispA 181 2.88e+01 c.69.1.18 76778 1u24A 337 2.88e+01 1s0aA 429 2.89e+01 c.67.1.4 98263 1wt4A 73 2.91e+01 1svfB 38 2.91e+01 1svfB h.3.2.1 45764 1r6xA 395 2.92e+01 b.122.1.3,c.26.1.5 97167,97168 1ntvA 152 2.95e+01 b.55.1.2 86168 1uehA 253 2.96e+01 c.101.1.1 99259 1wywA 230 2.97e+01 1x0oA 119 2.99e+01 1xhkA 187 3.00e+01 2f9zC 159 3.04e+01 1n2sA 299 3.04e+01 c.2.1.2 79857 1rxdA 159 3.05e+01 1i6wA 181 3.05e+01 1i6wA c.69.1.18 61859 1k1eA 180 3.07e+01 c.108.1.5 67995 1ps9A 671 3.12e+01 c.1.4.1,c.3.1.1,c.4.1.1 95076,95077,95078 1vhxA 150 3.13e+01 c.55.3.8 100712 1meoA 209 3.14e+01 c.65.1.1 79035 1rcb 129 3.15e+01 1rcb a.26.1.2 16854 2essA 248 3.15e+01 1hyvA 166 3.15e+01 1b9dA c.55.3.2 61424 1v71A 323 3.16e+01 1z7bA 358 3.16e+01 1cseE 274 3.17e+01 1gci c.41.1.1 32481 1iirA 415 3.18e+01 1iirA c.87.1.5 62453 2av4A 162 3.18e+01 1vgjA 184 3.18e+01 1vl6A 388 3.19e+01 c.2.1.7,c.58.1.3 108724,108725 2fukA 220 3.19e+01 1oxsC 353 3.21e+01 b.40.6.3,c.37.1.12 87519,87520 1svdM 110 3.21e+01 1vplA 256 3.22e+01 1m3uA 264 3.22e+01 c.1.12.8 84784 1ng4A 390 3.24e+01 c.3.1.2,d.16.1.3 85666,85667 1o0yA 260 3.24e+01 c.1.10.1 80756 1pfkA 320 3.24e+01 3pfk c.89.1.1 35575 1st9A 143 3.25e+01 c.47.1.10 98987 2cdcA 366 3.25e+01 1geeA 261 3.29e+01 c.2.1.2 90509 1zuhA 168 3.31e+01 1k0dA 260 3.32e+01 a.45.1.1,c.47.1.5 67930,67931 1efvB 255 3.35e+01 1efvB c.26.2.3 31634 1j8mF 297 3.36e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1bqcA 302 3.36e+01 1bqcA c.1.8.3 28831 1wb0A 445 3.38e+01 1in6A 334 3.39e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1w5nA 337 3.39e+01 2ey4C 82 3.40e+01 2ae2A 260 3.41e+01 1bdb c.2.1.2 29945 1u1hA 765 3.42e+01 c.1.22.2,c.1.22.2 107580,107581 1xewX 182 3.45e+01 1fbnA 230 3.45e+01 1fbnA c.66.1.3 34181 1j5sA 463 3.49e+01 c.1.9.8 71580 2fi9A 128 3.49e+01 1b8gA 429 3.51e+01 1b8gA c.67.1.4 34499 2fckA 181 3.52e+01 1r0wA 286 3.52e+01 c.37.1.12 96754 1g8sA 230 3.53e+01 c.66.1.3 90507 1ynfA 458 3.53e+01 1wolA 122 3.55e+01 1ynuA 473 3.57e+01 1qfeA 252 3.60e+01 1qfeA c.1.10.1 29167 1ccwA 137 3.66e+01 1be1 c.23.6.1 31238 1nxuA 333 3.67e+01 c.122.1.1 86389 1ayoA 130 3.67e+01 1ayoA b.2.4.1 22431 1uv4A 293 3.67e+01 1sup 275 3.69e+01 1gci c.41.1.1 32510 2f9lA 199 3.70e+01 1f9yA 158 3.70e+01 d.58.30.1 83249 1wy5A 317 3.70e+01 1thm 279 3.71e+01 1gci c.41.1.1 32544 1g8fA 511 3.71e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1pcxA 810 3.71e+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 1z0jA 170 3.72e+01 1yrbA 262 3.72e+01 1q74A 303 3.73e+01 c.134.1.1 96019 2b5dX 528 3.74e+01 1q35A 320 3.74e+01 c.94.1.1 95661 1lw6E 281 3.74e+01 c.41.1.1 74293 1ytzT 107 3.76e+01 1ofuA 320 3.76e+01 c.32.1.1,d.79.2.1 86972,86973 1o69A 394 3.77e+01 c.67.1.4 92560 2aamA 309 3.79e+01 1yfnA 118 3.80e+01 1u6tA 121 3.81e+01 2bswA 146 3.82e+01 1odzA 386 3.83e+01 c.1.8.3 86889 1hziA 129 3.85e+01 1rcb a.26.1.2 61449 1to2E 281 3.86e+01 1jnuA 104 3.88e+01 d.110.3.6 71762 1tiqA 180 3.88e+01 d.108.1.1 107010 1dik 874 3.89e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1j8yF 297 3.92e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1gqnA 252 3.93e+01 c.1.10.1 90514 1s98A 107 3.94e+01 b.124.1.1 105377 2feaA 236 3.95e+01 1iicA 422 3.96e+01 1nmtA d.108.1.2,d.108.1.2 62422,62423 2f9sA 151 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