# List of top-scoring protein chains for t06-100-30-dssp-ebghstl-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 1fobA 334 6.22e-02 c.1.8.3 83255 2b99A 156 8.17e-02 1z47A 355 9.65e-02 1l2tA 235 2.22e-01 c.37.1.12 73514 1sg4A 260 4.40e-01 1c9kA 180 5.77e-01 1c9kB c.37.1.11 32363 1mb3A 124 6.34e-01 c.23.1.1 78907 1e6uA 321 6.50e-01 1bsvA c.2.1.2 29805 1xubA 298 8.46e-01 1jf8A 131 8.87e-01 c.44.1.1 66621 1f28A 297 1.05e+00 1bkpA d.117.1.1 59608 1z2lA 423 1.14e+00 2f9zC 159 1.26e+00 1vyrA 364 1.74e+00 c.1.4.1 108906 1w44A 331 1.82e+00 1fzqA 181 1.90e+00 1hurA c.37.1.8 32060 1oxxK 353 2.03e+00 b.40.6.3,c.37.1.12 93715,93716 1srrA 124 2.05e+00 1dz3A c.23.1.1 31110 1ek0A 170 2.19e+00 1ctqA c.37.1.8 32076 1b0uA 262 2.71e+00 1b0uA c.37.1.12 32370 1vb3A 428 2.84e+00 1m0wA 491 2.91e+00 c.30.1.4,d.142.1.6 78363,78364 2gtrA 261 2.93e+00 2gqrA 237 2.94e+00 1u0sY 118 3.03e+00 c.23.1.1 107566 1tmy 120 3.12e+00 1dbwA c.23.1.1 31083 2ey4C 82 3.18e+00 2ge3A 170 3.53e+00 1xmxA 385 3.69e+00 1z3eA 132 3.80e+00 1bupA 386 3.82e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1ekeA 230 3.86e+00 1ekeA c.55.3.1 33572 1v33A 366 3.96e+00 d.264.1.1 100278 1z5yE 149 4.01e+00 1vjoA 393 4.12e+00 c.67.1.3 100827 1m3uA 264 4.80e+00 c.1.12.8 84784 1ivyA 452 5.23e+00 1ivyA c.69.1.5 34654 1t0fA 276 5.62e+00 1q7zA 566 5.71e+00 c.1.21.2,c.1.26.1 96090,96091 1i39A 225 5.78e+00 1ekeA c.55.3.1 61585 2ftxB 64 6.02e+00 1qsmA 152 6.08e+00 1qsmA d.108.1.1 40808 2ethA 154 6.25e+00 1sjiA 350 6.32e+00 1w2xA 758 6.49e+00 c.14.1.4,c.14.1.4 109134,109135 1pm3A 78 6.80e+00 b.41.1.2 94889 2azpA 318 6.87e+00 1jmvA 141 7.08e+00 c.26.2.4 66897 1u94A 356 7.18e+00 c.37.1.11,d.48.1.1 107743,107744 1g291 372 7.54e+00 1g291 2fexA 188 7.58e+00 2c31A 568 7.69e+00 1v60A 123 7.75e+00 1hp1A 516 7.90e+00 d.114.1.1,d.159.1.2 70976,70977 1n2sA 299 8.13e+00 c.2.1.2 79857 2az4A 429 8.28e+00 1wb4A 297 8.55e+00 1bqcA 302 8.96e+00 1bqcA c.1.8.3 28831 1uyrA 737 9.11e+00 c.14.1.4,c.14.1.4 100188,100189 1gheA 177 9.13e+00 d.108.1.1 76222 1r8gA 372 9.32e+00 d.128.1.3 104845 1j8mF 297 9.60e+00 1ng1 a.24.13.1,c.37.1.10 62742,62743 1ltzA 297 9.89e+00 d.178.1.1 74254 1g6hA 257 1.01e+01 1gajA c.37.1.12 60318 2fukA 220 1.03e+01 1uluA 261 1.05e+01 1o8xA 146 1.06e+01 c.47.1.10 86681 2czdA 208 1.07e+01 1jbkA 195 1.10e+01 c.37.1.20 71631 1xebA 150 1.12e+01 1vetA 124 1.12e+01 d.110.7.1 108553 1v02A 565 1.12e+01 c.1.8.4 108194 1zhvA 134 1.19e+01 1e5dA 402 1.19e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1u2eA 289 1.20e+01 1duvG 333 1.22e+01 1othA c.78.1.1,c.78.1.1 35228,35229 1cr1A 296 1.24e+01 1cr1A c.37.1.11 32286 1kutA 230 1.25e+01 d.143.1.1 73017 1h3fA 432 1.25e+01 c.26.1.1,d.66.1.4 76631,76632 2gkeA 274 1.25e+01 2bbsA 290 1.30e+01 1dkiA 371 1.36e+01 1dkiA d.3.1.1 37090 2d69A 430 1.38e+01 1k66A 149 1.39e+01 c.23.1.1 90941 2ffcA 353 1.39e+01 1zuhA 168 1.39e+01 1qkkA 155 1.41e+01 1dbwA c.23.1.1 31104 1ayoA 130 1.43e+01 1ayoA b.2.4.1 22431 1s57A 153 1.44e+01 1e19A 314 1.45e+01 1b7bA c.73.1.1 34967 1atg 231 1.48e+01 1atg c.94.1.1 35834 1wy5A 317 1.52e+01 2aa4A 289 1.56e+01 1vpqA 273 1.56e+01 1ypfA 336 1.61e+01 2f5gA 133 1.68e+01 1u4gA 301 1.68e+01 d.92.1.2 107670 1nhkL 144 1.69e+01 1npk d.58.6.1 39142 1rxdA 159 1.69e+01 1hjsA 332 1.72e+01 c.1.8.3 83492 1yavA 159 1.72e+01 1vp8A 201 1.73e+01 2bw4A 340 1.78e+01 1vjeA 166 1.79e+01 d.185.1.2 100807 7odcA 424 1.81e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1r0rE 274 1.85e+01 c.41.1.1 96735 1t8tA 271 1.85e+01 c.37.1.5 106685 1zp4A 304 1.87e+01 2fyxA 143 1.89e+01 1ve3A 227 1.90e+01 1z41A 338 1.90e+01 2ae2A 260 1.92e+01 1bdb c.2.1.2 29945 1lnsA 763 1.93e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 1thm 279 1.94e+01 1gci c.41.1.1 32544 1w5qA 337 1.96e+01 1o0iA 138 1.97e+01 d.38.1.5 86532 1n13B 113 1.98e+01 1dozA 309 2.12e+01 1ak1 c.92.1.1 35592 1vplA 256 2.12e+01 1iktA 120 2.13e+01 d.106.1.1 66188 2c0nA 203 2.13e+01 1w5fA 353 2.15e+01 2a1xA 308 2.17e+01 1ydwA 362 2.19e+01 1edqA 540 2.19e+01 1ctn b.1.18.2,c.1.8.5,d.26.3.1 21873,29002,38436 1h54A 754 2.20e+01 a.102.1.4,b.30.5.3 60634,60635 2bhuA 602 2.24e+01 1vr5A 547 2.24e+01 1ma3A 253 2.26e+01 c.31.1.5 78883 1w9yA 319 2.29e+01 1yd9A 193 2.31e+01 1gqzA 274 2.31e+01 d.21.1.1,d.21.1.1 83311,83312 2ai4A 119 2.32e+01 1s95A 333 2.35e+01 d.159.1.3 105375 1jflA 228 2.40e+01 c.78.2.1,c.78.2.1 71656,71657 1cnzA 363 2.41e+01 1cnzA c.77.1.1 35061 1w78A 422 2.41e+01 1bg4 302 2.43e+01 1taxA c.1.8.3 28806 2cwxA 430 2.45e+01 1nu7D 282 2.46e+01 a.8.6.1,a.8.6.1 92191,92192 1kblA 873 2.50e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1vf8A 377 2.51e+01 1g5aA 628 2.56e+01 b.71.1.1,c.1.8.1 65152,65153 1eo1A 124 2.59e+01 1eo1A c.55.5.1 33739 1io2A 213 2.59e+01 1ekeA c.55.3.1 62612 1mvoA 136 2.60e+01 c.23.1.1 79513 1ig8A 486 2.61e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1xttA 216 2.61e+01 2av4A 162 2.62e+01 1vk9A 151 2.64e+01 c.139.1.1 108640 1amf 233 2.65e+01 1wod c.94.1.1 35833 1r2qA 170 2.67e+01 c.37.1.8 96874 2feaA 236 2.69e+01 1ff9A 450 2.69e+01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1s8nA 205 2.70e+01 c.23.1.1 105374 2c07A 285 2.72e+01 1gegA 256 2.75e+01 1ybvA c.2.1.2 29888 1jksA 294 2.78e+01 d.144.1.7 71710 1x8hA 228 2.79e+01 2h58A 330 2.85e+01 2gshA 414 2.90e+01 7a3hA 303 2.93e+01 7a3hA c.1.8.3 28817 1vp2A 208 2.93e+01 1es9A 232 2.97e+01 1wab c.23.10.3 31340 1x8gA 227 3.00e+01 1dbiA 280 3.09e+01 1gci c.41.1.1 32543 1xfiA 367 3.18e+01 e.50.1.1 109584 1s7iA 124 3.18e+01 d.58.4.9 105353 1z4eA 153 3.19e+01 1ufwA 95 3.19e+01 d.58.7.1 99358 1vc3B 97 3.21e+01 2amjA 204 3.23e+01 2b61A 377 3.28e+01 1v4vA 376 3.30e+01 c.87.1.3 100313 1ne9A 335 3.32e+01 d.108.1.4,d.108.1.4 91839,91840 1odzA 386 3.36e+01 c.1.8.3 86889 1uv4A 293 3.42e+01 1svfB 38 3.43e+01 1svfB h.3.2.1 45764 1y10A 407 3.44e+01 1gmlA 178 3.45e+01 c.8.5.2 70273 1lehA 364 3.48e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1n57A 291 3.53e+01 c.23.16.2 85328 1anf 370 3.56e+01 4mbp c.94.1.1 35776 1wb0A 445 3.56e+01 1izcA 339 3.60e+01 c.1.12.5 83838 1ixcA 294 3.61e+01 a.4.5.37,c.94.1.1 83764,83765 1pea 385 3.61e+01 1pea c.93.1.1 35662 2g76A 335 3.69e+01 2bllA 345 3.72e+01 1eiwA 111 3.75e+01 1eiwA c.23.3.1 31130 2sak 121 3.76e+01 2sak d.15.5.1 37711 1r4pB 70 3.77e+01 b.40.2.1 97026 1ursA 402 3.83e+01 c.94.1.1 99833 1xqwA 293 3.87e+01 1auk 489 3.94e+01 1auk c.76.1.2 35030 1wvhA 134 3.94e+01 1zy9A 564 4.00e+01 1vdmA 153 4.02e+01 1nu0A 138 4.05e+01 c.55.3.8 92165 1rhcA 330 4.06e+01 c.1.16.3 97468 2f4nA 273 4.08e+01 2dkaA 544 4.11e+01 1xp8A 366 4.12e+01 1z7aA 308 4.13e+01 1ispA 181 4.14e+01 c.69.1.18 76778 1n82A 331 4.15e+01 c.1.8.3 91703 1d3gA 367 4.16e+01 1d3gA c.1.4.1 28600 1xk7A 408 4.16e+01 1ep3A 311 4.19e+01 2dorA c.1.4.1 28597 1q6oA 216 4.20e+01 c.1.2.3 95986 1ek6A 348 4.21e+01 1xel c.2.1.2 29800 1ytvA 366 4.25e+01 1wleA 501 4.28e+01 1dysA 348 4.29e+01 1bvwA c.6.1.1 30669 1w1oA 534 4.29e+01 d.58.32.4,d.145.1.1 109071,109072 2bo4A 397 4.30e+01 1zgzA 122 4.30e+01 2g8mA 264 4.30e+01 1zmtA 254 4.32e+01 2fbiA 142 4.38e+01 1g2iA 166 4.40e+01 1g2iA c.23.16.2 31438 1lv7A 257 4.42e+01 c.37.1.20 78232 1n2eA 300 4.43e+01 c.26.1.4 85268 1gveA 327 4.44e+01 c.1.7.1 70597 1qqqA 264 4.44e+01 1bkpA d.117.1.1 40931 1zj6A 187 4.46e+01 1c44A 123 4.51e+01 1qndA d.106.1.1 40795 2fgeA 995 4.54e+01 1wg8A 285 4.55e+01 1rw7A 243 4.57e+01 c.23.16.2 97963 1b35B 255 4.61e+01 1b35B b.121.4.1 23334 1pwxA 254 4.62e+01 c.2.1.2 95262 1n0wA 243 4.65e+01 c.37.1.11 79772 2fp8A 322 4.66e+01 1szoA 257 4.69e+01 c.14.1.3 106164 1mtzA 293 4.78e+01 c.69.1.7 79467 1dbwA 126 4.82e+01 1dbwA c.23.1.1 31095 1r6xA 395 4.86e+01 b.122.1.3,c.26.1.5 97167,97168 1hqz1 141 4.86e+01 1wmqA 147 4.87e+01 1u24A 337 4.88e+01 1o98A 511 4.90e+01 c.105.1.1,c.76.1.3 86684,86685 1s2wA 295 4.93e+01 c.1.12.7 98407 1nq6A 302 4.97e+01 c.1.8.3 92046 1wpuA 147 4.97e+01 1u04A 771 4.97e+01 b.34.14.1,c.55.3.10 107539,107540 1yrbA 262 4.98e+01 1axiB 236 5.00e+01 1axiB b.1.2.1,b.1.2.1 21997,21998 1xv5A 401 5.01e+01 1m0kA 262 5.03e+01 f.13.1.1 78344 1ne2A 200 5.03e+01 c.66.1.32 85586 1bg2 325 5.04e+01 1bg2 c.37.1.9 32189 1m7gA 211 5.05e+01 c.37.1.4 78724 1y8tA 324 5.11e+01 1lw7A 365 5.12e+01 c.26.1.3,c.37.1.1 74295,74296 1vjpA 394 5.13e+01 c.2.1.3,d.81.1.3 100828,100829 1ualA 274 5.15e+01 c.116.1.4 88383 1knvA 293 5.17e+01 c.52.1.7 68707 2fo1D 85 5.32e+01 1uh5A 329 5.35e+01 c.2.1.2 107840 1qwgA 251 5.36e+01 c.1.27.1 96473 1amx 180 5.36e+01 1amx b.2.3.1 22410 1nzjA 298 5.38e+01 c.26.1.1 92377 2h6bA 250 5.39e+01 1d2nA 272 5.43e+01 1d2nA c.37.1.20 32428 1mugA 168 5.43e+01 1mugA c.18.1.2 31030 1yksA 440 5.43e+01 2d00A 109 5.43e+01 1z2nX 324 5.45e+01 1uwsA 489 5.50e+01 c.1.8.4 108073 2anuA 255 5.54e+01 1wwuA 99 5.62e+01 1kzlA 208 5.62e+01 b.43.4.3,b.43.4.3 77635,77636 1vfvA 366 5.64e+01 c.37.1.9 108592 1uzmA 247 5.65e+01 2g8oA 264 5.66e+01 2cqnA 77 5.77e+01 1s2dA 167 5.78e+01 c.23.14.1 98377 1bx1A 314 5.80e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1qvzA 237 5.84e+01 c.23.16.2 96453 1jx4A 352 5.84e+01 d.240.1.1,e.8.1.7 90378,90379 1e4mM 501 5.87e+01 1e70M c.1.8.4 59226 2axyA 73 5.88e+01 1xg8A 111 6.03e+01 2cvhA 220 6.09e+01 1xtzA 264 6.09e+01 1f9yA 158 6.14e+01 d.58.30.1 83249 2b8eA 273 6.16e+01 1k77A 260 6.22e+01 c.1.15.5 72096 1q45A 391 6.23e+01 c.1.4.1 95780 1f9vA 347 6.30e+01 1bg2 c.37.1.9 59745 1o4vA 183 6.30e+01 c.23.8.1 86628 1syxB 86 6.33e+01 1x1rA 178 6.34e+01 1so7A 382 6.39e+01 1qj4A 257 6.40e+01 1qj4A c.69.1.20 34796 2essA 248 6.46e+01 1jpaA 312 6.47e+01 d.144.1.7 67011 1k1eA 180 6.47e+01 c.108.1.5 67995 1iooA 196 6.50e+01 d.124.1.1 71250 1v9sA 208 6.56e+01 1xbbA 291 6.60e+01 2awpA 198 6.61e+01 1f7uA 607 6.61e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1p4fA 293 6.63e+01 d.144.1.7 104063 1ei6A 406 6.63e+01 c.76.1.4 90443 1ufkA 254 6.63e+01 c.66.1.39 99340 1ugpA 203 6.65e+01 d.149.1.1 107831 1xewX 182 6.66e+01 2a84A 300 6.74e+01 1o66A 275 6.74e+01 c.1.12.8 92547 1k4zA 159 6.78e+01 b.80.5.1 72070 1sqsA 242 6.78e+01 c.23.5.5 98968 1yyaA 250 6.88e+01 1xkpC 143 6.90e+01 1gw5S 142 6.97e+01 d.110.4.2 70633 1ig3A 263 6.97e+01 1ig3A b.82.6.1,c.100.1.1 62358,62359 2amxA 376 7.03e+01 1c30B 382 7.12e+01 c.8.3.1,c.23.16.1 30736,31413 1ua4A 455 7.12e+01 c.72.1.3 99128 1fjhA 257 7.15e+01 1fjhB c.2.1.2 29870 1ihoA 283 7.19e+01 1ihoA c.26.1.4 62390 1wohA 305 7.20e+01 c.42.1.1 109446 1lyvA 306 7.24e+01 c.45.1.2 74348 2frnA 278 7.24e+01 1d3vA 323 7.25e+01 1d3vA c.42.1.1 32559 2b5gA 171 7.29e+01 2bbkL 125 7.32e+01 2bbkL g.21.1.1 44882 1iukA 140 7.34e+01 c.2.1.8 83712 1ln1A 214 7.38e+01 d.129.3.2 74038 1nni1 174 7.53e+01 1ym5A 300 7.53e+01 2aeeA 211 7.55e+01 1hzdA 272 7.60e+01 c.14.1.3 65969 1k0dA 260 7.70e+01 a.45.1.1,c.47.1.5 67930,67931 1pg6A 243 7.74e+01 b.82.5.2 94673 2fi9A 128 7.80e+01 1ub1A 133 7.83e+01 d.10.1.3 99140 1wyzA 242 7.84e+01 2bryA 497 7.85e+01 1pcxA 810 7.87e+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 1pkoA 139 7.92e+01 b.1.1.1 88147 1tk9A 188 7.95e+01 c.80.1.3 107082 1qd1A 325 8.02e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 1twfF 155 8.04e+01 2h1nA 567 8.05e+01 1q74A 303 8.11e+01 c.134.1.1 96019 2a5hA 416 8.14e+01 1hh1A 143 8.17e+01 1gefA c.52.1.18 61036 1eciA 37 8.17e+01 1eciA a.33.1.1 16999 1i5gA 144 8.21e+01 1ewxA c.47.1.10 61784 1z7xW 461 8.22e+01 1josA 128 8.23e+01 d.52.7.1 84191 2aebA 322 8.24e+01 2hcyA 347 8.30e+01 1yxyA 234 8.32e+01 1njhA 119 8.33e+01 b.128.1.1 85787 1m2oA 768 8.35e+01 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 1a9xB 379 8.44e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1l7aA 318 8.44e+01 c.69.1.25 77772 1jysA 242 8.44e+01 c.56.2.1 77216 1iq4A 179 8.46e+01 1iq4A d.77.1.1 62641 1g8sA 230 8.56e+01 c.66.1.3 90507 1i60A 278 8.57e+01 c.1.15.4 71118 2fr5A 146 8.60e+01 1y9uA 323 8.60e+01 1u9lA 70 8.62e+01 a.60.4.2 107751 1y1oA 203 8.63e+01 1wqaA 455 8.65e+01 1r8sA 164 8.68e+01 c.37.1.8 97247 2gjgA 248 8.72e+01 2a19A 175 8.73e+01 2gzxA 265 8.74e+01 2h4vA 320 8.75e+01 2cy5A 140 8.75e+01 1in4A 334 8.77e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1qcxA 359 8.78e+01 1qcxA b.80.1.2 28028 1q35A 320 8.81e+01 c.94.1.1 95661 1jjfA 268 8.83e+01 c.69.1.2 66765 1ea7A 310 8.84e+01 c.41.1.1 70086 1g0cA 364 8.86e+01 7a3hA c.1.8.3 60165 1obdA 306 8.92e+01 d.143.1.1 86767 1udc 338 8.92e+01 1xel c.2.1.2 29785 1yvrA 538 8.93e+01 2ajrA 331 8.95e+01