# List of top-scoring protein chains for t04-100-30-bys 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 1m6yA 301 1.61e-36 a.60.13.1 78716 c.66.1.23 78717 1ixkA 315 6.24e-07 unknown_sccs -8099 1l3iA 192 1.13e-06 c.66.1.22 77676 1ufkA 254 2.97e-05 unknown_sccs -8103 1jg1A 235 8.20e-05 c.66.1.7 66661 1sqgA 429 2.02e-04 1uwvA 433 2.61e-04 unknown_sccs -3950 unknown_sccs -8107 1xvaA 292 2.78e-04 1xvaA c.66.1.5 34183 1qyrA 252 3.63e-04 1i9gA 280 3.75e-04 c.66.1.13 62090 1ej0A 180 4.73e-04 1ej0A c.66.1.2 34179 1g38A 393 5.76e-04 2admA c.66.1.27 60235 1dusA 194 6.21e-04 1dusA c.66.1.4 34182 1o54A 277 6.93e-04 c.66.1.13 -8095 1ri5A 298 7.50e-04 unknown_sccs -8063 1dl5A 317 8.70e-04 1dl5A c.66.1.7 64720 d.197.1.1 64721 1ne2A 200 1.99e-03 c.66.1.32 85586 1bdb 277 4.63e-03 1bdb c.2.1.2 29874 1f3lA 321 5.33e-03 1g6q2 c.66.1.6 59630 1g60A 260 6.41e-03 c.66.1.11 70151 1qamA 244 8.30e-03 2ercA c.66.1.24 34220 1i1nA 226 8.51e-03 c.66.1.7 71102 1qzzA 374 8.58e-03 a.4.5.29 -277 c.66.1.12 -8045 1f8fA 371 9.76e-03 b.35.1.2 83246 c.2.1.1 83247 1kpgA 287 2.04e-02 c.66.1.18 68735 1vid 221 2.58e-02 1vid c.66.1.1 34178 1nv8A 284 2.96e-02 c.66.1.30 86224 1h1dA 221 3.18e-02 c.66.1.1 83452 1eg2A 319 3.29e-02 1eg2A c.66.1.11 34249 1jvbA 347 3.41e-02 b.35.1.2 77181 c.2.1.1 77182 1pjcA 361 3.56e-02 1sayA c.2.1.4 30101 c.23.12.2 31361 1inlA 296 3.79e-02 c.66.1.17 66220 2ohxA 374 5.09e-02 2ohxA b.35.1.2 24669 c.2.1.1 29685 1n8kA 374 8.35e-02 b.35.1.2 80298 c.2.1.1 80299 1hnnA 282 1.21e-01 c.66.1.15 65895 1db3A 372 1.29e-01 1db3A c.2.1.2 29813 1hxhA 253 1.56e-01 c.2.1.2 76725 1g8aA 227 1.69e-01 c.66.1.3 -8049 1hetA 374 1.71e-01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1q0sA 259 1.81e-01 c.66.1.28 -8110 1uirA 314 2.00e-01 c.66.1.17 -8114 1sb8A 352 2.77e-01 6mhtA 327 3.35e-01 6mhtA c.66.1.26 34226 1iy8A 267 3.47e-01 c.2.1.2 83774 1mjfA 281 3.63e-01 c.66.1.17 79198 1nw3A 416 4.14e-01 c.66.1.31 86288 1jqbA 351 4.23e-01 b.35.1.2 77151 c.2.1.1 77152 1fp2A 352 4.74e-01 1fpxA a.4.5.29 59941 c.66.1.12 59942 1h2bA 359 5.47e-01 b.35.1.2 -3679 c.2.1.1 -5703 1bg6 359 5.56e-01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1g8sA 230 5.65e-01 c.66.1.3 -8047 1kevA 351 6.31e-01 1pedA b.35.1.2 24749 c.2.1.1 29765 1k2yX 463 8.45e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1o4sA 389 9.48e-01 c.67.1.1 86620 1am2 199 1.00e-00 1am2 b.86.1.2 28381 1fbnA 230 1.07e+00 1fbnA c.66.1.3 34181 1o17A 345 1.10e+00 a.46.2.1 80765 c.27.1.1 80766 1e7aA 585 1.13e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1q7bA 244 1.14e+00 c.2.1.2 -5826 1bmtA 246 1.15e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 1n5uA 585 1.17e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1jsxA 207 1.18e+00 c.66.1.20 71846 1g0oA 283 1.25e+00 1ybvA c.2.1.2 60181 1im8A 244 1.27e+00 c.66.1.14 66212 1li4A 432 1.30e+00 c.2.1.4 84616 c.23.12.3 84617 1qmyA 167 1.34e+00 1qmyA d.3.1.2 37094 1o9gA 250 1.63e+00 c.66.1.29 86692 1k47A 337 1.98e+00 d.14.1.5 72040 d.58.26.4 72041 1hdcA 253 2.21e+00 1e6wA c.2.1.2 29862 1nxqA 251 2.22e+00 c.2.1.2 86388 1prxA 224 2.33e+00 1prxA c.47.1.10 33076 1p1cA 199 2.37e+00 c.66.1.16 87669 1uufA 369 2.40e+00 b.35.1.2 -3706 c.2.1.1 -5730 1jilA 420 2.47e+00 c.26.1.1 66745 1nriA 306 2.92e+00 c.80.1.3 86123 1fp1D 372 2.92e+00 1fpqA a.4.5.29 59939 c.66.1.12 59940 2ts1 419 3.24e+00 2ts1 c.26.1.1 31564 1nffA 260 3.42e+00 c.2.1.2 80457 1p5dX 463 3.45e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1d4fA 431 3.54e+00 1b3rA c.2.1.4 30110 c.23.12.3 31370 1j3vA 289 3.57e+00 a.100.1.1 -1303 c.2.1.6 -5947 1g55A 343 3.65e+00 1g55A c.66.1.26 34247 1qgvA 142 3.70e+00 1qgvA c.47.1.8 33056 1l2lA 457 3.77e+00 c.72.1.3 77656 1vimA 200 3.82e+00 c.80.1.3 -8532 1cydA 244 3.95e+00 1cydA c.2.1.2 29825 1n0wA 243 4.36e+00 c.37.1.11 79772 1m2oA 768 4.37e+00 a.71.2.1 78480 b.2.8.1 78481 c.62.1.2 78482 d.109.2.1 78483 g.41.10.1 78484 1hnjA 317 4.45e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 1oe4A 247 4.91e+00 c.18.1.3 86895 1o5iA 249 4.93e+00 c.2.1.2 -5833 1em8B 112 5.15e+00 unknown_sccs -6364 1h5qA 265 5.20e+00 1cydA c.2.1.2 60643 1kolA 398 5.52e+00 b.35.1.2 77474 c.2.1.1 77475 1mngA 203 5.59e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1mkmA 249 5.83e+00 a.4.5.33 79242 d.110.2.2 79243 1r5jA 337 6.11e+00 unknown_sccs -8471 2ayh 214 6.43e+00 1axkA b.29.1.2 24172 1jnmA 62 6.45e+00 h.1.3.1 84181 1i5gA 144 6.49e+00 1ewxA c.47.1.10 61784 1lst 239 6.55e+00 1lst c.94.1.1 35755 1r1dA 247 6.56e+00 unknown_sccs -8335 1v3vA 333 6.66e+00 1lsuA 147 6.80e+00 c.2.1.9 74250 1eny 268 6.89e+00 1eny c.2.1.2 29910 1f1eA 154 6.99e+00 a.22.1.2 64927 1pvdA 537 7.17e+00 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1jqeA 292 7.20e+00 c.66.1.19 71789 1spxA 278 7.44e+00 c.2.1.2 -5870 1b8zA 90 7.51e+00 1huuA a.55.1.1 17902 1gjjA 168 7.83e+00 a.140.1.1 83291 a.140.1.1 83292 1mtzA 293 8.28e+00 c.69.1.7 79467 1pl8A 356 8.32e+00 b.35.1.2 -3716 c.2.1.1 -5740 1ex7A 186 8.42e+00 1gky c.37.1.1 59537 1b4rA 80 8.42e+00 1b4rA b.1.3.1 22072 1p77A 272 8.62e+00 c.2.1.7 -5965 c.58.1.5 -6371 1d7oA 297 9.10e+00 1enp c.2.1.2 29907 1aa8A 347 9.18e+00 1an9A 1qo7A 394 9.21e+00 1qo7A c.69.1.11 34697 1rkeA 262 9.28e+00 a.24.9.1 -582 a.24.9.1 -583 1lopA 164 9.41e+00 2cpl b.62.1.1 27510 2por 301 9.48e+00 2por f.4.3.1 43759 1teaA 299 9.85e+00 1an9A 340 1.02e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1enp 312 1.02e+01 1enp c.2.1.2 29906 1gc5A 467 1.03e+01 1gc5A c.72.1.3 60429 1efyA 350 1.05e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1gky 187 1.06e+01 1gky c.37.1.1 31839 1id1A 153 1.08e+01 1id1A c.2.1.9 62286 2liv 344 1.14e+01 2liv c.93.1.1 35708 1ve9A 347 1.15e+01 c.4.1.2 -6056 d.16.1.3 -9214 1huuA 90 1.18e+01 1huuA a.55.1.1 17897 1a8q 274 1.19e+01 1brt c.69.1.12 34702 1e3jA 352 1.24e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1af7 274 1.24e+01 1af7 a.58.1.1 17928 c.66.1.8 34203 1va4A 279 1.26e+01 1gegA 256 1.27e+01 1ybvA c.2.1.2 29888 1wdnA 226 1.36e+01 1lst c.94.1.1 35816 1nal1 297 1.41e+01 1nal3 1srrA 124 1.42e+01 1dz3A c.23.1.1 31110 1uq5A 263 1.42e+01 d.165.1.1 -11555 1a4iA 301 1.43e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1g3qA 237 1.44e+01 1hyqA c.37.1.10 60237 1vkfA 188 1.44e+01 1qsgA 265 1.51e+01 1eny c.2.1.2 29935 1yub 245 1.53e+01 2ercA c.66.1.24 34219 1ift 263 1.53e+01 1mrj d.165.1.1 42211 1fvuA 133 1.56e+01 1ixxB d.169.1.1 42345 1e4yA 214 1.56e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1gw5A 621 1.66e+01 a.118.1.10 70629 1iz0A 302 1.67e+01 b.35.1.2 83821 c.2.1.1 83822 1k3bA 119 1.67e+01 b.61.5.1 72016 1dkgA 197 1.69e+01 1dkgA b.73.1.1 27812 h.1.9.1 45626 1c1dA 355 1.69e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1h99A 224 1.72e+01 a.142.1.1 60814 a.142.1.1 60815 1awcB 153 1.72e+01 1bd8 d.211.1.1 19156 1pwhA 327 1.72e+01 c.79.1.1 -8524 1peqA 714 1.73e+01 1cf2O 337 1.79e+01 1b7gO c.2.1.3 29994 d.81.1.1 39909 1lehA 364 1.80e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1lx7A 253 1.82e+01 c.56.2.1 74329 1kl1A 419 1.83e+01 c.67.1.4 72663 1nkqA 259 1.85e+01 1pqnA 127 1.85e+01 c.47.1.8 -7479 1p0iA 529 1.88e+01 c.69.1.1 -8291 1usgA 346 1.88e+01 c.93.1.1 -8635 1kxpD 458 1.90e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1pbgA 468 1.90e+01 1e70M c.1.8.4 28946 1epwA 1290 1.94e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1bueA 265 1.95e+01 1btl e.3.1.1 42727 1bl3A 160 1.95e+01 1b9dA c.55.3.2 33655 1di6A 195 1.95e+01 1di6A c.57.1.1 33863 1v33A 366 1.97e+01 unknown_sccs -11384 1i2sA 282 1.97e+01 e.3.1.1 71104 1e3dA 266 2.01e+01 2frvA e.19.1.1 59188 1auiB 169 2.02e+01 1auiB a.39.1.5 17325 1g2iA 166 2.03e+01 1g2iA c.23.16.2 31438 1iw7C 1119 2.05e+01 e.29.1.1 71474 3daaA 277 2.06e+01 1daaA e.17.1.1 43272 1dz3A 130 2.08e+01 1dz3A c.23.1.1 31105 1tdtA 259 2.12e+01 3tdt b.81.1.2 28055 2vsgA 358 2.12e+01 2vsgA h.4.1.1 45780 1hl2A 297 2.12e+01 c.1.10.1 83581 1l8nA 679 2.14e+01 c.1.8.10 84564 d.92.2.2 84565 1eqfA 280 2.21e+01 1eqfA a.29.2.1 16972 a.29.2.1 16973 1fmcA 255 2.25e+01 1cydA c.2.1.2 29856 1dgfA 497 2.25e+01 1cf9A e.5.1.1 42782 3tdt 274 2.25e+01 3tdt b.81.1.2 28053 1lrzA 426 2.27e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1gc0A 398 2.32e+01 c.67.1.3 70168 1m1nB 522 2.32e+01 c.92.2.3 78418 1jdw 423 2.42e+01 1jdw d.126.1.2 41129 1d9cA 121 2.48e+01 1d9cA a.26.1.3 16901 1mv8A 436 2.49e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1k1aA 241 2.50e+01 d.211.1.1 67992 1agi 125 2.53e+01 7rsa d.5.1.1 37303 1qlwA 328 2.53e+01 1qlwA c.69.1.15 34722 1k7jA 206 2.56e+01 d.115.1.1 72103 1giqA 413 2.63e+01 d.166.1.1 76224 d.166.1.1 76225 1a88A 275 2.65e+01 1brt c.69.1.12 34707 1dik 874 2.66e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1uslA 170 2.66e+01 c.121.1.1 -6682 1nytA 271 2.68e+01 c.2.1.7 86417 c.58.1.5 86418 1ne9A 335 2.69e+01 d.108.1.4 -10805 d.108.1.4 -10806 1ble 163 2.72e+01 1ble c.38.1.1 32475 1ua4A 455 2.73e+01 c.72.1.3 -8416 1iugA 352 2.78e+01 c.67.1.3 -8176 1ehiA 377 2.80e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1p0fA 373 2.82e+01 b.35.1.2 87642 c.2.1.1 87643 1eswA 500 2.84e+01 1cwyA c.1.8.1 59500 1jx4A 352 2.86e+01 unknown_sccs -10188 unknown_sccs -11898 1rfmA 344 2.86e+01 c.122.1.1 -8032 1fjhA 257 2.87e+01 1fjhB c.2.1.2 29870 1mvoA 136 2.87e+01 c.23.1.1 79513 1dkzA 219 2.88e+01 1dkzA unknown_sccs -445 unknown_sccs -3060 1pq4A 291 2.94e+01 c.92.2.2 -8633 1gggA 226 2.95e+01 1lst c.94.1.1 35817 2ak3A 226 2.97e+01 1zin c.37.1.1 31892 g.41.2.1 45193 1gci 269 3.00e+01 1gci c.41.1.1 32503 1s9uA 207 3.02e+01 1fcjA 322 3.02e+01 1oasA c.79.1.1 35289 1qc7A 101 3.03e+01 1qc7A a.118.14.1 18456 1h09A 338 3.04e+01 b.109.1.1 83420 c.1.8.8 83421 1jwiA 131 3.06e+01 d.169.1.1 67383 1bjwA 382 3.06e+01 1bjwA c.67.1.1 34349 1sw6A 327 3.08e+01 1sw6A d.211.1.1 19176 1o88A 353 3.09e+01 b.80.1.1 81178 1m0wA 491 3.17e+01 c.30.1.4 78363 d.142.1.6 78364 1gz6A 319 3.17e+01 c.2.1.2 76410 1rxyA 253 3.20e+01 c.56.2.1 -7834 1r6dA 337 3.20e+01 c.2.1.2 -5757 1cb8A 678 3.21e+01 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1gmxA 108 3.22e+01 c.46.1.3 65355 1orjA 130 3.22e+01 unknown_sccs -611 1me8A 503 3.27e+01 c.1.5.1 79028 2hts 88 3.28e+01 2hts a.4.5.22 16174 1f8gA 384 3.32e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1rkd 309 3.36e+01 1rkd c.72.1.1 34928 1eo6A 117 3.46e+01 1eo6A d.15.1.3 37609 1g63A 181 3.46e+01 1g5qA c.34.1.1 60299 1gvfA 286 3.50e+01 c.1.10.2 70599 1guqA 348 3.51e+01 1guqA d.13.1.2 37522 d.13.1.2 37523 1a9xB 379 3.52e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1itg 166 3.55e+01 1b9dA c.55.3.2 33661 1h7sA 365 3.59e+01 d.14.1.3 65705 d.122.1.2 65706 1f4pA 147 3.59e+01 5nul c.23.5.1 59651 1v8dA 235 3.60e+01 1r85A 379 3.64e+01 1vjxA 157 3.65e+01 a.25.1.1 -654 1v54H 85 3.72e+01 a.51.1.1 -979 1thx 115 3.75e+01 1thx c.47.1.1 32732 2occE 109 3.75e+01 2occE a.118.11.1 19224 1jbeA 128 3.80e+01 3chy c.23.1.1 62845 1nznA 126 3.80e+01 a.118.8.1 -1616 1bn7A 294 3.81e+01 1bn6A c.69.1.8 34677 1n5dA 288 3.84e+01 c.2.1.2 80030 1udc 338 3.85e+01 1xel c.2.1.2 29785 1gnd 447 3.85e+01 1gnd c.3.1.3 30423 d.16.1.6 37987 1ufbA 127 3.89e+01 a.24.16.3 -635 1aky 221 3.92e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1uddA 226 3.92e+01 1khdA 345 3.94e+01 a.46.2.1 77400 c.27.1.1 77401 1vjuA 309 3.94e+01 unknown_sccs -9594 1air 353 3.94e+01 1air b.80.1.1 28018 1nnfA 309 3.94e+01 c.94.1.1 85903