# List of top-scoring protein chains for t04-100-30-alpha-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 1dj0A 264 1.94e-01 1dj0A d.265.1.1 90337 1lx7A 253 1.99e-01 c.56.2.1 74329 1rxyA 253 2.00e-01 c.56.2.1 98065 1vhmA 195 2.20e-01 d.110.2.1 100691 1pjcA 361 2.31e-01 1sayA c.2.1.4,c.23.12.2 30101,31361 1vc1A 110 2.56e-01 c.13.2.1 108493 1je0A 236 3.63e-01 c.56.2.1 66581 1g3p 217 3.89e-01 1g3p b.37.1.1,b.37.1.1 24788,24789 2fg9A 178 4.14e-01 1jysA 242 4.43e-01 c.56.2.1 77216 1vr8A 142 4.96e-01 1t6aA 126 4.99e-01 d.129.8.1 106555 1h6zA 913 6.45e-01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1y1nA 291 7.03e-01 1o8uA 257 7.13e-01 c.14.1.3 81194 2d4pA 141 8.54e-01 1z5nA 242 9.17e-01 1innA 166 9.48e-01 1j98A d.185.1.2 62608 1szoA 257 1.00e+00 c.14.1.3 106164 1z5oA 242 1.26e+00 1dq3A 454 1.34e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1k8kA 418 1.35e+00 c.55.1.1,c.55.1.1 68305,68306 2cxcA 144 1.35e+00 1k9sA 237 1.40e+00 c.56.2.1 68359 1zo0A 126 1.42e+00 1vk8A 106 1.44e+00 d.58.48.1 108636 1vjeA 166 1.46e+00 d.185.1.2 100807 1ecpA 238 1.48e+00 1ecpA c.56.2.1 33775 1mwmA 320 1.50e+00 c.55.1.1,c.55.1.1 79580,79581 1u55A 188 1.64e+00 d.278.1.1 107677 1gw5S 142 1.70e+00 d.110.4.2 70633 1xkpC 143 1.77e+00 1zbfA 142 1.84e+00 1wu7A 434 1.90e+00 1y1pA 342 1.92e+00 1xm7A 195 1.93e+00 1v37A 177 1.99e+00 1lxjA 104 2.08e+00 d.58.48.1 84736 1xo7A 166 2.12e+00 1b7yB 785 2.15e+00 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1o0xA 262 2.33e+00 d.127.1.1 80755 1z82A 335 2.41e+00 1ujmA 342 2.57e+00 1q2yA 140 2.74e+00 d.108.1.1 95655 1b56 135 2.94e+00 1hmt b.60.1.2 27183 1ryp2 233 3.14e+00 1ryp2 2a1iA 146 3.39e+00 1a8s 273 3.59e+00 1brt c.69.1.12 34710 1qlmA 316 3.71e+00 1qlmA d.147.1.1 41765 1id1A 153 3.77e+00 1id1A c.2.1.9 62286 1ew4A 106 3.82e+00 1ew4A d.82.2.1 40023 1q1gA 276 3.94e+00 c.56.2.1 95574 2cqsA 842 3.94e+00 1dik 874 4.03e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1rf6A 427 4.06e+00 d.68.2.2 97366 1zejA 293 4.07e+00 1chd 203 4.14e+00 1chd c.40.1.1 32478 1cyx 205 4.26e+00 1cyx b.6.1.2 23023 1kssA 571 4.27e+00 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1vquA 374 4.33e+00 1k8kB 394 4.51e+00 c.55.1.1 68307 1esiA 262 4.61e+00 1skf e.3.1.1 42682 1z4rA 168 4.67e+00 1vggA 161 4.67e+00 1kay 381 4.71e+00 1ba1 c.55.1.1,c.55.1.1 33385,33386 1knqA 175 4.75e+00 c.37.1.17 72786 1vk1A 242 4.76e+00 d.268.1.2 108634 2b5gA 171 4.78e+00 1lucA 355 4.85e+00 1lucA c.1.16.1 29547 1bupA 386 4.91e+00 1ba1 c.55.1.1,c.55.1.1 33377,33378 1mgpA 313 5.10e+00 c.119.1.1 79098 1kdj 102 5.12e+00 1plc b.6.1.1 22864 2bsxA 253 5.25e+00 1odkA 235 5.28e+00 c.56.2.1 86863 1ylqA 96 5.37e+00 1rl6A 177 5.42e+00 1rl6A d.141.1.1,d.141.1.1 41473,41474 1hi9A 274 5.53e+00 1hi9A c.99.1.1 61063 1xjeA 644 5.54e+00 1zpvA 91 5.62e+00 1ztuA 341 5.67e+00 1kyhA 276 5.84e+00 c.72.1.4 73222 2plc 274 5.86e+00 2plc c.1.18.2 29614 1lid 131 6.06e+00 1hmt b.60.1.2 27184 1p3dA 475 6.09e+00 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1vhwA 253 6.11e+00 c.56.2.1 100706 1atiA 505 6.19e+00 1atiA c.51.1.1,d.104.1.1 33196,40745 1ohlA 342 6.24e+00 c.1.10.3 87035 1crb 134 6.28e+00 1hmt b.60.1.2 27220 1mvfD 82 6.36e+00 b.129.1.1 85143 1tfuA 157 6.38e+00 c.26.1.3 106859 2a2nA 176 6.38e+00 1s72E 178 6.41e+00 d.141.1.1,d.141.1.1 105323,105324 1jj2E 177 6.45e+00 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1e2tA 284 6.45e+00 1e2tA d.3.1.5 37121 1fftB 315 6.56e+00 1cyx b.6.1.2,f.17.2.1 23025,43628 1ki9A 192 6.58e+00 c.37.1.1 84404 1kblA 873 6.63e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1yuwA 554 6.66e+00 1vj1A 363 6.74e+00 b.35.1.2,c.2.1.1 100794,100795 1i12A 160 6.84e+00 1i21A d.108.1.1 61515 1opbA 135 6.90e+00 1hmt b.60.1.2 27216 1okjA 251 6.93e+00 c.55.1.9,c.55.1.9 103998,103999 1kkeA 210 7.09e+00 b.21.1.2,b.83.1.2 68669,68670 1e39A 571 7.12e+00 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1khtA 192 7.17e+00 c.37.1.1 84401 1a53 247 7.27e+00 1a53 c.1.2.4 28564 1cyw 205 7.28e+00 1cyx b.6.1.2 23024 1pz7A 204 7.48e+00 b.29.1.4 95405 1igs 248 7.79e+00 1a53 c.1.2.4 28565 1ad2 228 7.85e+00 1ad2 e.24.1.1 43353 1x9zA 188 8.00e+00 1q6zA 528 8.04e+00 2hvm 273 8.22e+00 1cnv c.1.8.5 28985 2c3zA 222 8.41e+00 1cnv 299 8.44e+00 1cnv c.1.8.5 28989 1c4kA 730 8.46e+00 1ordA c.23.1.4,c.67.1.5,d.125.1.1 31273,34502,41123 1i1dA 161 8.47e+00 1i21A d.108.1.1 61526 2c60A 111 8.51e+00 1ct5A 256 8.51e+00 1ct5A c.1.6.2 28663 2gkpA 167 8.54e+00 1p2hA 571 8.57e+00 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2bkaA 242 8.59e+00 1w36C 1122 8.61e+00 1y0pA 571 8.80e+00 2cwsA 237 8.91e+00 2aefA 234 8.91e+00 1v9sA 208 9.00e+00 1xjjA 644 9.24e+00 1d8dB 437 9.27e+00 1ft1B a.102.4.3 18866 1kqzA 273 9.28e+00 c.1.8.5 68844 1g7nA 131 9.35e+00 b.60.1.2 83274 1up7A 417 1.01e+01 2bh4X 134 1.01e+01 2bwvA 440 1.01e+01 1vqoE 178 1.01e+01 1vhsA 175 1.01e+01 d.108.1.1 100698 1q9iA 571 1.01e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1az9 457 1.02e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1h7nA 342 1.03e+01 1b4kA c.1.10.3 60726 1uuyA 167 1.03e+01 c.57.1.1 108059 1vr5A 547 1.05e+01 1ef8A 261 1.05e+01 1ef8A c.14.1.3 30921 1ogiA 303 1.09e+01 b.43.4.2,c.25.1.1 92914,92915 1qmvA 197 1.09e+01 1qq2A c.47.1.10 33066 2b0vA 153 1.11e+01 1jf8A 131 1.11e+01 c.44.1.1 66621 2bl1A 172 1.12e+01 1v6tA 255 1.12e+01 1yezA 68 1.12e+01 1go2A 304 1.13e+01 b.43.4.2,c.25.1.1 76243,76244 2arzA 247 1.13e+01 1iibA 106 1.16e+01 1iibA c.44.2.1 32648 1yvcA 70 1.17e+01 2bhuA 602 1.19e+01 1yqtA 538 1.20e+01 1l2uA 245 1.21e+01 c.1.2.3 73516 1y5eA 169 1.21e+01 1lk2B 99 1.22e+01 b.1.1.2 91058 2bh1X 96 1.24e+01 1kjvB 100 1.25e+01 b.1.1.2 77423 1h2bA 359 1.26e+01 b.35.1.2,c.2.1.1 90543,90544 1j8mF 297 1.26e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 2bryA 497 1.28e+01 1up6A 416 1.28e+01 c.2.1.5,d.162.1.2 107976,107977 1xt8A 292 1.29e+01 1oj4A 283 1.29e+01 d.14.1.5,d.58.26.5 93083,93084 1q67A 231 1.31e+01 b.55.1.7 95960 1vefA 395 1.31e+01 1vl8A 267 1.34e+01 c.2.1.2 108733 1qx4A 274 1.37e+01 b.43.4.2,c.25.1.1 104624,104625 1lssA 140 1.38e+01 c.2.1.9 74246 1yvoA 172 1.42e+01 1z85A 234 1.43e+01 2f6eA 127 1.45e+01 1pvvA 315 1.46e+01 c.78.1.1,c.78.1.1 95190,95191 1tt7A 330 1.48e+01 1j8yF 297 1.48e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1bbpA 173 1.51e+01 1bbpA b.60.1.1 27147 1j9aA 184 1.54e+01 c.55.3.5 84135 2dg5A 366 1.57e+01 1bfd 528 1.59e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1umkA 275 1.59e+01 2fcjA 119 1.59e+01 1yw3A 208 1.60e+01 1hnuA 280 1.62e+01 1hnoA c.14.1.3 61096 1zlqA 502 1.62e+01 830cA 168 1.64e+01 1ck7A d.92.1.11 40400 1x24A 180 1.66e+01 1ujcA 161 1.67e+01 1kqwA 134 1.68e+01 b.60.1.2 72887 2fymA 431 1.68e+01 1oaoC 729 1.70e+01 e.26.1.3 86746 1fpzA 212 1.70e+01 1fpzA c.45.1.1 59976 1h75A 81 1.71e+01 1h75A c.47.1.1 60716 1nf2A 268 1.71e+01 c.108.1.10 91849 1ve5A 311 1.72e+01 1pb7A 292 1.73e+01 c.94.1.1 88025 1rz1A 161 1.74e+01 b.45.1.2 98124 1ytaA 180 1.74e+01 1zclA 180 1.75e+01 1vmaA 306 1.80e+01 a.24.13.1,c.37.1.10 108887,108888 1xiwA 105 1.82e+01 1yqdA 366 1.84e+01 1gx3A 284 1.85e+01 d.3.1.5 70678 2g0qA 173 1.86e+01 3nul 130 1.87e+01 3nul d.110.1.1 40891 1nv8A 284 1.88e+01 c.66.1.30 86224 2cx6A 90 1.88e+01 1ixcA 294 1.90e+01 a.4.5.37,c.94.1.1 83764,83765 1pjhA 280 1.91e+01 c.14.1.3 94761 1h30A 422 1.92e+01 b.29.1.4,b.29.1.4 76604,76605 1wl9A 440 1.94e+01 1xxaA 78 1.94e+01 1xxaA d.74.2.1 39700 1mvoA 136 1.95e+01 c.23.1.1 79513 1r6wA 322 1.95e+01 c.1.11.2,d.54.1.1 97165,97166 1pkp 150 1.96e+01 1pkp d.14.1.1,d.50.1.2 37551,38787 1srqA 341 1.96e+01 e.55.1.1 105967 1wdpA 495 1.96e+01 1riqA 465 1.98e+01 a.203.1.1,d.104.1.1 97516,97517 2fg1A 158 1.99e+01 1que 303 1.99e+01 1fnc b.43.4.2,c.25.1.1 25647,31537 1j48A 110 1.99e+01 b.1.7.1 84112 1bkpA 278 2.00e+01 1bkpA d.117.1.1 41029 1zosA 230 2.00e+01 1ik9A 213 2.02e+01 b.59.1.1,h.1.11.1 66176,66177 1sl4A 155 2.03e+01 d.169.1.1 105710 1uiuA 502 2.07e+01 c.94.1.1 99434 1fzkB 99 2.08e+01 1agdB b.1.1.2 60151 2gd9A 189 2.08e+01 2ptd 298 2.09e+01 2plc c.1.18.2 29605 1zccA 248 2.11e+01 1yfsA 465 2.12e+01 1t8qA 336 2.13e+01 c.1.18.3 106669 1i7pA 274 2.13e+01 b.43.4.2,c.25.1.1 66048,66049 1lxnA 99 2.13e+01 d.58.48.1 84737 1gt91 357 2.16e+01 2bmwA 304 2.19e+01 1qd9A 124 2.20e+01 1qu9A d.79.1.1 39758 1ws6A 171 2.20e+01 2afcA 168 2.21e+01 1ckmA 330 2.21e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1c4rA 182 2.22e+01 1c4rA b.29.1.4 24229 1bdb 277 2.23e+01 1bdb c.2.1.2 29874 1t1gA 364 2.24e+01 c.41.1.2 106246 1zesA 125 2.26e+01 1zyeA 220 2.28e+01 1ybhA 590 2.28e+01 1qyaA 307 2.30e+01 d.21.1.2,d.21.1.2 104653,104654 1vj2A 126 2.31e+01 b.82.1.10 100796 1sy6A 204 2.31e+01 b.1.1.4,b.1.1.4 106111,106112 1e79G 272 2.34e+01 1e79G c.49.2.1 33158 1byb 495 2.36e+01 1byb c.1.8.1 28790 1yb2A 275 2.40e+01 1t9hA 307 2.40e+01 1prxA 224 2.41e+01 1prxA c.47.1.10 33076 1efvB 255 2.43e+01 1efvB c.26.2.3 31634 1cnzA 363 2.43e+01 1cnzA c.77.1.1 35061 1th8A 145 2.45e+01 d.122.1.3 106908 1mtyD 512 2.46e+01 1mhyD a.25.1.2 16742 1s62A 106 2.49e+01 1v2dA 381 2.51e+01 c.67.1.1 108281 1dbiA 280 2.52e+01 1gci c.41.1.1 32543 1h70A 255 2.53e+01 1h70A d.126.1.3 60711 2f5xA 312 2.55e+01 4pfk 319 2.55e+01 3pfk c.89.1.1 35582 1ckeA 227 2.55e+01 1ckeA c.37.1.1 31846 1pv9A 348 2.56e+01 c.55.2.1,d.127.1.1 95157,95158 1shuX 182 2.57e+01 c.62.1.1 98882 1up8A 598 2.60e+01 a.111.1.2 99710 1tqzA 133 2.62e+01 1a0p 290 2.63e+01 1a0p a.60.9.1,d.163.1.1 18105,42165 2asfA 137 2.63e+01 1tn6B 437 2.64e+01 1zvdA 380 2.65e+01 1ng4A 390 2.67e+01 c.3.1.2,d.16.1.3 85666,85667 1o0uA 429 2.72e+01 c.118.1.1 80743 1z7wA 322 2.73e+01 2fz4A 237 2.76e+01 1cliA 345 2.77e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1ytfB 53 2.78e+01 1ytfB a.32.1.1 16997 1w0mA 226 2.79e+01 c.1.1.1 109027 1s6yA 450 2.80e+01 c.2.1.5,d.162.1.2 105314,105315 1t0qA 498 2.80e+01 a.25.1.2 106220 1qg9A 21 2.81e+01 j.35.1.1 46275 1aa7A 158 2.82e+01 1aa7A a.95.1.1 18741 2aq6A 147 2.83e+01 1ypfA 336 2.87e+01 1wstA 417 2.92e+01 2bfwA 200 2.93e+01 1v74B 87 2.94e+01 a.24.20.1 100443 1yqhA 109 2.94e+01 2d1yA 256 2.95e+01 1wy7A 207 2.95e+01 1ns5A 155 2.96e+01 c.116.1.3 80705 1ejfA 125 2.99e+01 1ejfA b.15.1.2 23683 1o20A 427 3.00e+01 c.82.1.1 86556 1sc3B 88 3.00e+01 1ub3A 220 3.00e+01 c.1.10.1 88395 1juhA 350 3.01e+01 b.82.1.5 71884 1o08A 221 3.01e+01 c.108.1.6 86525 2bsaA 303 3.01e+01 2bydA 323 3.02e+01 1sacA 204 3.03e+01 1sacA b.29.1.5 24237 1y10A 407 3.03e+01 1t6sA 162 3.05e+01 1w34A 304 3.06e+01 2d27A 149 3.06e+01 1fu1A 203 3.08e+01 1fu1B b.59.1.1,h.1.11.1 27076,45630 1rqwA 207 3.10e+01 b.25.1.1 97781 1hmt 132 3.10e+01 1hmt b.60.1.2 27169 1zvkA 358 3.11e+01 1zu1A 127 3.11e+01 1jflA 228 3.11e+01 c.78.2.1,c.78.2.1 71656,71657 1w9aA 147 3.12e+01 1aop 497 3.12e+01 2aop d.58.36.1,d.58.36.1,d.134.1.1,d.134.1.1 39501,39502,41425,41426 1vkyA 347 3.14e+01 e.53.1.1 108696 1xccA 220 3.15e+01 1p4cA 380 3.16e+01 c.1.4.1 94100 1im3D 95 3.18e+01 1im3D b.1.18.5 62568 1r9cA 139 3.20e+01 d.32.1.2 97255 8rucI 123 3.20e+01 1rboC d.73.1.1 39629 1bmqB 88 3.21e+01 1pauB 1xebA 150 3.22e+01 1k2eA 156 3.23e+01 d.113.1.1 72010 2d28C 149 3.23e+01 1ryiA 382 3.24e+01 1ld8B 437 3.24e+01 a.102.4.3 73839 1uh5A 329 3.27e+01 c.2.1.2 107840 1oz9A 150 3.28e+01 d.92.1.15 93808 1z7yA 322 3.28e+01 2azpA 318 3.28e+01 2bswA 146 3.29e+01 1kxoA 184 3.30e+01 b.60.1.1 84475 1r7lA 110 3.31e+01 d.277.1.1 104837 1va4A 279 3.32e+01 c.69.1.12 108458 1f5fA 205 3.32e+01 1d2sA b.29.1.4 24222 1m2xA 223 3.33e+01 d.157.1.1 84764 1es5A 262 3.36e+01 1skf e.3.1.1 42679 1r5jA 337 3.36e+01 c.77.1.5 97097 1ec7A 446 3.37e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 1fjgK 129 3.38e+01 1fjfK c.55.4.1 33733 1v8bA 479 3.38e+01 1k5nB 100 3.39e+01 b.1.1.2 77268 1b4bA 71 3.40e+01 1b4aA d.74.2.1 39718 1cipA 353 3.41e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1y2tA 142 3.42e+01 1nzeA 149 3.42e+01 a.24.18.1 92374 1bk1 184 3.44e+01 1axkA b.29.1.11 24340 1ydyA 356 3.44e+01 1x99A 145 3.49e+01 1qysA 106 3.50e+01 k.41.1.1 96603 1irsA 112 3.50e+01 1qqgA b.55.1.2 26991 1q35A 320 3.51e+01 c.94.1.1 95661 1e0tA 470 3.53e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xxoA 147 3.53e+01 1txdA 385 3.54e+01 a.87.1.1,b.55.1.1 107422,107423 2b8nA 429 3.56e+01 2fe7A 166 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