# List of top-scoring protein chains for t04-100-30-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 2d4pA 141 1.11e-01 1rxyA 253 4.11e-01 c.56.2.1 98065 1lx7A 253 6.29e-01 c.56.2.1 74329 1z4rA 168 1.06e+00 1vhsA 175 1.07e+00 d.108.1.1 100698 1zbfA 142 1.08e+00 1vjeA 166 1.51e+00 d.185.1.2 100807 1je0A 236 2.01e+00 c.56.2.1 66581 1innA 166 2.07e+00 1j98A d.185.1.2 62608 1pjcA 361 2.25e+00 1sayA c.2.1.4,c.23.12.2 30101,31361 1zejA 293 2.26e+00 1jysA 242 2.56e+00 c.56.2.1 77216 1z5oA 242 2.58e+00 1oj4A 283 2.62e+00 d.14.1.5,d.58.26.5 93083,93084 1z5nA 242 2.67e+00 1q1gA 276 2.70e+00 c.56.2.1 95574 2bsxA 253 2.75e+00 1hi9A 274 3.65e+00 1hi9A c.99.1.1 61063 1a8s 273 4.09e+00 1brt c.69.1.12 34710 1gw5S 142 4.25e+00 d.110.4.2 70633 1qlmA 316 4.42e+00 1qlmA d.147.1.1 41765 1ujmA 342 4.44e+00 2bswA 146 4.52e+00 1wu7A 434 4.60e+00 1atiA 505 4.80e+00 1atiA c.51.1.1,d.104.1.1 33196,40745 1uh5A 329 4.90e+00 c.2.1.2 107840 1xm7A 195 5.05e+00 1y1pA 342 5.25e+00 2bh1X 96 5.61e+00 1vk8A 106 5.83e+00 d.58.48.1 108636 1ekfA 365 6.02e+00 1ekfA e.17.1.1 59445 1h6zA 913 6.06e+00 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1jf8A 131 6.28e+00 c.44.1.1 66621 2c3zA 222 6.28e+00 2a1hA 365 6.57e+00 1vhmA 195 6.82e+00 d.110.2.1 100691 1o8uA 257 7.88e+00 c.14.1.3 81194 1vc1A 110 8.32e+00 c.13.2.1 108493 1zo0A 126 9.10e+00 1p3dA 475 9.94e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1bfd 528 1.03e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1lssA 140 1.03e+01 c.2.1.9 74246 1szoA 257 1.05e+01 c.14.1.3 106164 1xo7A 166 1.06e+01 1z85A 234 1.09e+01 1knqA 175 1.10e+01 c.37.1.17 72786 2plc 274 1.13e+01 2plc c.1.18.2 29614 1kblA 873 1.15e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1rf6A 427 1.19e+01 d.68.2.2 97366 1s62A 106 1.21e+01 1ec7A 446 1.22e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1khtA 192 1.22e+01 c.37.1.1 84401 1vj1A 363 1.23e+01 b.35.1.2,c.2.1.1 100794,100795 1lfdA 87 1.26e+01 1lfdA d.15.1.5 37622 1v9sA 208 1.28e+01 1v6tA 255 1.29e+01 1q6zA 528 1.30e+01 2a1iA 146 1.31e+01 1igs 248 1.32e+01 1a53 c.1.2.4 28565 1umkA 275 1.33e+01 1yt3A 375 1.34e+01 1a53 247 1.34e+01 1a53 c.1.2.4 28564 1srqA 341 1.37e+01 e.55.1.1 105967 1g3p 217 1.38e+01 1g3p b.37.1.1,b.37.1.1 24788,24789 2ptd 298 1.38e+01 2plc c.1.18.2 29605 1ixcA 294 1.48e+01 a.4.5.37,c.94.1.1 83764,83765 1ik9A 213 1.48e+01 b.59.1.1,h.1.11.1 66176,66177 1ktaA 365 1.51e+01 e.17.1.1 77533 1g2rA 100 1.52e+01 1g2rA d.192.1.1 60231 1bl3A 160 1.55e+01 1b9dA c.55.3.2 33655 1i12A 160 1.55e+01 1i21A d.108.1.1 61515 1dj0A 264 1.56e+01 1dj0A d.265.1.1 90337 1q2yA 140 1.60e+01 d.108.1.1 95655 1i1dA 161 1.63e+01 1i21A d.108.1.1 61526 1hyvA 166 1.65e+01 1b9dA c.55.3.2 61424 2c0cA 362 1.73e+01 1q67A 231 1.79e+01 b.55.1.7 95960 1id1A 153 1.83e+01 1id1A c.2.1.9 62286 1esiA 262 1.84e+01 1skf e.3.1.1 42682 1yw3A 208 1.87e+01 2ewcA 126 1.90e+01 1o20A 427 1.90e+01 c.82.1.1 86556 1ylqA 96 1.92e+01 1jetA 517 1.92e+01 1jevA c.94.1.1 35718 1on0A 158 1.98e+01 d.108.1.1 87095 1xtoA 311 2.01e+01 1usyA 275 2.03e+01 2fz4A 237 2.04e+01 1up6A 416 2.04e+01 c.2.1.5,d.162.1.2 107976,107977 2olbA 517 2.07e+01 1jevA c.94.1.1 35721 1dik 874 2.09e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2gx9A 129 2.11e+01 1t4oA 117 2.15e+01 d.50.1.1 106425 1vefA 395 2.15e+01 1yb2A 275 2.15e+01 1y1nA 291 2.15e+01 1ecpA 238 2.22e+01 1ecpA c.56.2.1 33775 2g3aA 152 2.40e+01 1va4A 279 2.43e+01 c.69.1.12 108458 1m2xA 223 2.45e+01 d.157.1.1 84764 1up7A 417 2.50e+01 1o0xA 262 2.53e+01 d.127.1.1 80755 1h3qA 140 2.54e+01 d.110.4.3 76652 1khiA 176 2.55e+01 b.34.5.2,b.40.4.5 77408,77409 1yqdA 366 2.57e+01 1kamA 194 2.59e+01 c.26.1.3 72254 1ki9A 192 2.69e+01 c.37.1.1 84404 2bl1A 172 2.72e+01 1v3vA 333 2.81e+01 b.35.1.2,c.2.1.1 108345,108346 1iibA 106 2.81e+01 1iibA c.44.2.1 32648 1v37A 177 2.81e+01 1k8kF 168 2.85e+01 d.198.2.1 68312 1t95A 240 2.85e+01 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 2bhuA 602 2.89e+01 2a2nA 176 2.90e+01 1zyeA 220 2.91e+01 1wsrA 375 2.92e+01 1rreA 200 2.93e+01 d.14.1.10 97791 1qx4A 274 2.93e+01 b.43.4.2,c.25.1.1 104624,104625 1enp 312 2.94e+01 1enp c.2.1.2 29906 2afcA 168 2.97e+01 1r5jA 337 3.05e+01 c.77.1.5 97097 1lxjA 104 3.06e+01 d.58.48.1 84736 1mgtA 174 3.09e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1zosA 230 3.18e+01 2g5cA 281 3.19e+01 1ne9A 335 3.21e+01 d.108.1.4,d.108.1.4 91839,91840 1earA 147 3.29e+01 b.107.1.1,d.58.38.1 64875,64876 1i7pA 274 3.29e+01 b.43.4.2,c.25.1.1 66048,66049 2coiA 386 3.39e+01 4ubpC 570 3.40e+01 1ubpC b.92.1.1,c.1.9.2 28431,29053 1yvkA 163 3.42e+01 1tvnA 293 3.42e+01 1ckmA 330 3.45e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1tyyA 339 3.46e+01 1j8mF 297 3.47e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1v7oA 165 3.53e+01 d.67.1.2 100480 1e8gA 560 3.58e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1z82A 335 3.65e+01 2gd9A 189 3.66e+01 1o5oA 221 3.68e+01 c.61.1.1 92509 1d7oA 297 3.70e+01 1enp c.2.1.2 29907 1zvdA 380 3.72e+01 1j8yF 297 3.75e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1u9iA 519 3.78e+01 1pkp 150 3.81e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1xfjA 261 3.87e+01 d.194.1.2 109585 1vybA 238 3.88e+01 d.151.1.1 108897 1nv8A 284 3.89e+01 c.66.1.30 86224 1xewX 182 3.89e+01 2gptA 523 3.89e+01 1bd3A 243 3.91e+01 1bd3A c.61.1.1 34098 1odkA 235 3.93e+01 c.56.2.1 86863 1g5tA 196 3.98e+01 1g5rA c.37.1.11 32366 1y5eA 169 3.98e+01 1fpzA 212 4.00e+01 1fpzA c.45.1.1 59976 1xjeA 644 4.01e+01 1itg 166 4.04e+01 1b9dA c.55.3.2 33661 1k8kB 394 4.04e+01 c.55.1.1 68307 1v4pA 157 4.09e+01 1wy7A 207 4.09e+01 3nul 130 4.10e+01 3nul d.110.1.1 40891 2bogX 286 4.13e+01 1x8hA 228 4.18e+01 1x8gA 227 4.23e+01 1jxhA 288 4.24e+01 c.72.1.2 67415 1ws6A 171 4.25e+01 1kyhA 276 4.26e+01 c.72.1.4 73222 1t4nA 94 4.28e+01 d.50.1.1 106424 1x9zA 188 4.29e+01 1cnv 299 4.29e+01 1cnv c.1.8.5 28989 2fl4A 149 4.30e+01 1ryp2 233 4.35e+01 1ryp2 1chd 203 4.38e+01 1chd c.40.1.1 32478 1yvoA 172 4.40e+01 2akaB 299 4.48e+01 1j6wA 175 4.48e+01 1j98A d.185.1.2 62663 2ftxA 90 4.50e+01 1t8qA 336 4.61e+01 c.1.18.3 106669 7a3hA 303 4.62e+01 7a3hA c.1.8.3 28817 1hw7A 255 4.64e+01 1i7fA d.193.1.1 61297 1f74A 293 4.65e+01 1nal3 c.1.10.1 29079 1vl2A 421 4.71e+01 c.26.2.1,d.210.1.1 108708,108709 1zesA 125 4.75e+01 1n6zA 105 4.78e+01 d.263.1.1 85369 2g0qA 173 4.78e+01 1yz4A 160 4.79e+01 1qstA 160 4.84e+01 1yghA d.108.1.1 40804 2bodX 286 4.88e+01 2fg9A 178 4.92e+01 1k8rB 110 4.93e+01 d.15.1.5 72180 1ydyA 356 4.94e+01 1wekA 217 4.96e+01 1wyzA 242 5.02e+01 1pz7A 204 5.03e+01 b.29.1.4 95405 1lwdA 413 5.03e+01 c.77.1.1 78265 2fg1A 158 5.05e+01 1k9sA 237 5.05e+01 c.56.2.1 68359 1h2bA 359 5.09e+01 b.35.1.2,c.2.1.1 90543,90544 1l6rA 227 5.14e+01 c.108.1.10 77768 1ypfA 336 5.15e+01 1nvvS 481 5.19e+01 a.117.1.1 86279 2cxcA 144 5.22e+01 2d2eA 250 5.24e+01 1zu4A 320 5.25e+01 1fftB 315 5.32e+01 1cyx b.6.1.2,f.17.2.1 23025,43628 1cliA 345 5.34e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1k8kA 418 5.35e+01 c.55.1.1,c.55.1.1 68305,68306 1w6tA 444 5.40e+01 1ygmA 118 5.43e+01 2bgkA 278 5.44e+01 1uiuA 502 5.46e+01 c.94.1.1 99434 1yqhA 109 5.47e+01 2fymA 431 5.50e+01 1xjjA 644 5.52e+01 1zlqA 502 5.55e+01 1mw7A 240 5.58e+01 e.39.1.1 79557 4pfk 319 5.63e+01 3pfk c.89.1.1 35582 1tqzA 133 5.64e+01 2bfwA 200 5.66e+01 1xmxA 385 5.68e+01 1q6cA 495 5.71e+01 c.1.8.1 95970 1wdpA 495 5.71e+01 1acf 125 5.71e+01 3nul d.110.1.1 40882 1hruA 188 5.73e+01 1hruA d.115.1.1 40926 2aefA 234 5.83e+01 1ulyA 192 5.85e+01 1sjdA 368 5.93e+01 c.1.11.2,d.54.1.1 105632,105633 2f1kA 279 5.96e+01 1vk1A 242 5.98e+01 d.268.1.2 108634 1kdj 102 6.00e+01 1plc b.6.1.1 22864 1th0A 226 6.01e+01 d.3.1.7 106903 2bh4X 134 6.02e+01 2ffcA 353 6.03e+01 2d1yA 256 6.03e+01 1f8fA 371 6.04e+01 b.35.1.2,c.2.1.1 83246,83247 1xc3A 302 6.12e+01 1v6fA 151 6.13e+01 d.109.1.2 108395 1yruA 364 6.19e+01 3cla 213 6.21e+01 3cla c.43.1.1 32610 1przA 252 6.22e+01 d.265.1.3 95064 1uekA 275 6.22e+01 d.14.1.5,d.58.26.5 88483,88484 1mvoA 136 6.22e+01 c.23.1.1 79513 1wryA 121 6.23e+01 1rz3A 201 6.24e+01 c.37.1.6 98132 1yrtA 364 6.36e+01 1914 232 6.36e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1hr6A 475 6.37e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1v3hA 495 6.37e+01 c.1.8.1 108303 1mtyD 512 6.39e+01 1mhyD a.25.1.2 16742 1fehA 574 6.41e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1uq5A 263 6.42e+01 d.165.1.1 99778 1g4wR 383 6.47e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 2bh7A 261 6.58e+01 1w36C 1122 6.63e+01 1va6A 518 6.63e+01 2cvlA 124 6.63e+01 1itwA 741 6.65e+01 c.77.1.2 76793 1rcuA 195 6.70e+01 c.129.1.1 97295 1sl4A 155 6.79e+01 d.169.1.1 105710 1l2uA 245 6.85e+01 c.1.2.3 73516 1z08A 170 6.96e+01 1pjhA 280 6.97e+01 c.14.1.3 94761 1jl3A 139 7.06e+01 c.44.1.1 66826 1irsA 112 7.10e+01 1qqgA b.55.1.2 26991 1a88A 275 7.14e+01 1brt c.69.1.12 34707 1uteA 313 7.18e+01 1uteA d.159.1.1 42078 1bdb 277 7.20e+01 1bdb c.2.1.2 29874 1s12A 94 7.21e+01 1zzoA 136 7.21e+01 1t0qA 498 7.25e+01 a.25.1.2 106220 1xkqA 280 7.30e+01 1zccA 248 7.30e+01 2ae2A 260 7.33e+01 1bdb c.2.1.2 29945 1w78A 422 7.33e+01 1y1uA 585 7.34e+01 1omwA 689 7.38e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1byb 495 7.39e+01 1byb c.1.8.1 28790 1l8aA 886 7.41e+01 c.36.1.10,c.36.1.6,c.48.1.1 73677,73678,73679 1rvaA 244 7.45e+01 1rvaA c.52.1.2 33240 1ohlA 342 7.46e+01 c.1.10.3 87035 1lucA 355 7.50e+01 1lucA c.1.16.1 29547 1h7nA 342 7.65e+01 1b4kA c.1.10.3 60726 1h75A 81 7.68e+01 1h75A c.47.1.1 60716 1mgpA 313 7.69e+01 c.119.1.1 79098 1ujcA 161 7.72e+01 2dg5A 366 7.73e+01 1ct5A 256 7.75e+01 1ct5A c.1.6.2 28663 2arzA 247 7.82e+01 1sbp 310 7.83e+01 1sbp c.94.1.1 35760 2f6eA 127 7.90e+01 2d28C 149 7.95e+01 1qqgA 264 8.00e+01 1qqgA b.55.1.2,b.55.1.2 26987,26988 1p4cA 380 8.06e+01 c.1.4.1 94100 1a0p 290 8.06e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 1xxaA 78 8.07e+01 1xxaA d.74.2.1 39700 1exqA 154 8.08e+01 1b9dA c.55.3.2 33646 1vp8A 201 8.10e+01 1kwmA 402 8.10e+01 c.56.5.1,d.58.3.1 73079,73080 1u04A 771 8.12e+01 b.34.14.1,c.55.3.10 107539,107540 1yghA 164 8.14e+01 1yghA d.108.1.1 40802 1t9hA 307 8.15e+01 1iy8A 267 8.23e+01 c.2.1.2 83774 1e0tA 470 8.23e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1qmvA 197 8.24e+01 1qq2A c.47.1.10 33066 1onrA 316 8.33e+01 1onrA c.1.10.1 29169 1uuyA 167 8.40e+01 c.57.1.1 108059 1t6aA 126 8.40e+01 d.129.8.1 106555 1pb7A 292 8.44e+01 c.94.1.1 88025 1ktgA 138 8.46e+01 d.113.1.1 72972 1q8iA 783 8.50e+01 c.55.3.5,e.8.1.1 96208,96209 1yymG 313 8.52e+01 1ns5A 155 8.54e+01 c.116.1.3 80705 1qorA 327 8.72e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1pvgA 418 8.76e+01 d.14.1.3,d.122.1.2 95161,95162 1p99A 295 8.86e+01 c.94.1.1 94384 1yw4A 341 8.89e+01 1wmhA 89 8.95e+01