# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1jpaA 312 3.12e-57 d.144.1.7 67011 1opjA 293 8.35e-57 d.144.1.7 87230 1ir3A 306 1.03e-54 1fmk d.144.1.7 41702 1qpcA 279 1.06e-54 1fgkA d.144.1.7 41685 1p4oA 322 1.28e-54 d.144.1.7 87775 1fgkA 310 1.80e-54 1fgkA d.144.1.7 41693 1t46A 313 1.18e-53 d.144.1.7 106397 1fvrA 327 4.58e-52 d.144.1.7 60047 1mp8A 281 4.86e-52 d.144.1.7 91384 1r0pA 312 7.83e-52 d.144.1.7 96734 1u59A 287 8.72e-52 d.144.1.7 107681 1u46A 291 2.86e-51 d.144.1.7 107656 1xbbA 291 5.01e-51 1ywnA 316 1.68e-49 2b7aA 293 1.69e-49 2evaA 307 6.27e-41 1mq4A 272 3.70e-33 d.144.1.7 91391 1f3mC 297 2.70e-32 1hcl d.144.1.7 41677 1yhvA 297 4.98e-32 1xjdA 345 1.77e-31 2f57A 317 2.80e-31 2bfxA 284 4.78e-31 1ia8A 289 1.54e-30 1ia8A d.144.1.7 62112 2c30A 321 1.57e-30 1t4hA 290 3.60e-30 d.144.1.7 106420 1vjyA 303 2.80e-29 d.144.1.7 108633 1o6lA 337 3.85e-29 d.144.1.7 81092 1py5A 326 4.05e-29 d.144.1.7 104389 2bdwA 362 4.32e-29 1uu3A 310 4.42e-29 d.144.1.7 99999 1o6yA 299 4.50e-29 d.144.1.7 81106 1xh9A 350 5.67e-29 2bvaA 292 8.94e-29 1s9jA 341 9.46e-29 2a19B 284 1.27e-28 1h1wA 289 2.10e-28 d.144.1.7 83460 1gz8A 299 2.43e-28 d.144.1.7 83405 1hcl 298 2.76e-28 1hcl d.144.1.7 41593 1jksA 294 3.55e-28 d.144.1.7 71710 2eueA 279 5.31e-28 1apmE 350 5.69e-28 1cdkA d.144.1.7 41628 1rdqE 350 5.81e-28 d.144.1.7 97314 1p4fA 293 1.79e-27 d.144.1.7 104063 1blxA 326 3.64e-27 1hcl d.144.1.7 41596 1zy4A 303 1.10e-26 1zrzA 364 1.44e-26 1phk 298 1.78e-26 1cdkA d.144.1.7 41635 1vzoA 355 6.94e-26 d.144.1.7 108971 3erk 364 1.46e-25 1hcl d.144.1.7 41654 1tvoA 368 3.09e-25 1xwsA 313 5.85e-25 1pme 380 6.55e-25 1hcl d.144.1.7 41653 1pmnA 364 6.90e-25 d.144.1.7 94907 2bikB 313 7.15e-25 1omwA 689 1.59e-24 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1zzlA 351 1.82e-24 1tkiA 321 2.15e-24 1tkiA d.144.1.7 41638 2b9hA 353 2.23e-24 1ywrA 360 7.59e-24 1r3cA 366 8.46e-24 d.144.1.7 96906 1wbsA 360 8.50e-24 1x8bA 289 8.61e-24 1zz2A 360 1.18e-23 2ac5A 316 1.35e-23 2ac3A 316 4.58e-23 1j1bA 420 1.01e-22 d.144.1.7 90758 2gfsA 372 1.20e-22 1ckiA 317 3.74e-21 1csn d.144.1.7 41660 1ymiA 334 7.87e-21 1z57A 339 1.77e-20 1m2rA 327 4.37e-19 d.144.1.7 84760 1om1A 332 6.18e-19 d.144.1.7 93347 1csn 298 1.03e-18 1csn d.144.1.7 41664 2eu9A 355 5.55e-18 1q8yA 373 2.23e-17 d.144.1.7 96234 1howA 373 3.05e-17 1hcl d.144.1.7 41679 1wbpA 397 8.67e-16 1zarA 282 1.23e-04 1tqmA 282 1.86e-04 a.4.5.56,d.144.1.9 107236,107237 1j7lA 264 6.53e-01 d.144.1.6 62697 2bkkA 264 7.63e-01 2booA 247 7.98e-01 1e17A 150 1.03e+00 2hfh a.4.5.14 16143 2b0oE 301 1.35e+00 1nw1A 429 1.56e+00 d.144.1.8 86286 1a68 95 1.61e+00 1t1dA d.42.1.2 38639 6paxA 133 1.67e+00 6paxA a.4.1.5,a.4.1.5 64758,64759 1zthA 258 1.99e+00 1twdA 256 2.12e+00 c.1.30.1 107397 1bcpB 199 2.16e+00 1bcpB b.40.2.1,d.169.1.2 25120,42429 2fnaA 357 2.54e+00 2be4A 272 2.60e+00 1f0jA 377 2.70e+00 1f0jA a.211.1.2 19346 2cwoA 197 2.89e+00 1dsxA 87 3.13e+00 1t1dA d.42.1.2 38644 1whzA 70 3.20e+00 1fm0E 150 3.20e+00 1fmaE d.41.5.1 38629 1w1wA 430 3.55e+00 1o51A 114 4.11e+00 d.58.5.4 92480 2cwsA 237 4.21e+00 2comA 124 4.54e+00 1vdxA 184 4.81e+00 1x42A 232 4.81e+00 1vgjA 184 5.07e+00 1k4mA 213 5.33e+00 c.26.1.3 77258 1ppjE 196 5.39e+00 b.33.1.1,f.23.12.1 104260,104261 2bnxA 386 5.44e+00 1jb3A 131 6.21e+00 1jc7A b.40.3.2 62833 1zkeA 83 6.83e+00 1gz2A 142 7.04e+00 d.169.1.1 83392 1y6nL 145 7.16e+00 1wstA 417 8.03e+00 2f46A 156 8.26e+00 1z2cB 383 8.83e+00 1fcdA 401 9.25e+00 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 1t1dA 100 9.53e+00 1t1dA d.42.1.2 38637 1fuiA 591 1.02e+01 1fuiA b.43.2.1,c.85.1.1 25674,35444 2gd9A 189 1.06e+01 2aq2B 237 1.08e+01 1jk0B 345 1.08e+01 a.25.1.2 63143 1ni9A 338 1.09e+01 e.7.1.2 85739 1ynpA 317 1.10e+01 1top 162 1.19e+01 1ncx a.39.1.5 17223 1k78A 149 1.19e+01 a.4.1.5,a.4.1.5 68255,68256 1va0A 239 1.23e+01 1xknA 355 1.23e+01 1txqA 93 1.24e+01 2bfwA 200 1.29e+01 1v8aA 265 1.30e+01 c.72.1.2 100494 2apjA 260 1.31e+01 1zbfA 142 1.34e+01 2gk9A 426 1.35e+01 1p3dA 475 1.39e+01 c.5.1.1,c.59.1.1,c.72.2.1 87728,87729,87730 1lldA 319 1.40e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1n40A 396 1.43e+01 a.104.1.1 79977 1qfoA 119 1.46e+01 1qfoA b.1.1.1 19708 1y14A 187 1.53e+01 1nd4A 264 1.54e+01 d.144.1.6 91815 1rie 129 1.59e+01 1rie b.33.1.1 24427 1w3jA 468 1.60e+01 c.1.8.4 109156 2cxxA 190 1.61e+01 1ed8A 449 1.73e+01 1b8jA c.76.1.1 34988 1y6vA 449 1.77e+01 1wduA 245 1.82e+01 d.151.1.1 109286 1pea 385 1.85e+01 1pea c.93.1.1 35662 2ezh 75 1.94e+01 2ezh a.4.1.2 16029 2bl0C 142 2.04e+01 1k8uA 90 2.05e+01 a.39.1.2 72181 1kyqA 274 2.10e+01 c.2.1.11,e.37.1.1 73281,73282 1avsA 90 2.11e+01 1cll a.39.1.5 17226 1k94A 165 2.17e+01 a.39.1.8 68333 1yzsA 121 2.18e+01 2aaoA 166 2.22e+01 1sg7A 96 2.25e+01 2fq4A 192 2.26e+01 1yobA 179 2.42e+01 2ilk 160 2.44e+01 2ilk a.26.1.3 16885 1ho8A 480 2.54e+01 1ho8A a.118.1.9 61107 1vmeA 410 2.56e+01 c.23.5.1,d.157.1.3 108893,108894 2bkdN 134 2.56e+01 1bt3A 345 2.74e+01 1bt3A a.86.1.2 18507 1iw0A 215 2.75e+01 a.132.1.1 83720 1n8vA 112 2.77e+01 a.118.21.1 85457 1tvxA 75 2.80e+01 1tvxA d.9.1.1 37441 1te2A 226 2.81e+01 c.108.1.6 106792 2brfA 110 2.81e+01 2aaxA 275 2.95e+01 1wlzA 105 3.01e+01 2f3yA 148 3.02e+01 1q4rA 112 3.09e+01 d.58.4.4 95823 1vazA 88 3.16e+01 d.245.1.1 100554 1nrlA 316 3.17e+01 a.123.1.1 92091 1y8aA 332 3.17e+01 2fa1A 160 3.25e+01 1gp1A 198 3.26e+01 1gp1A c.47.1.10 33059 1pvaA 110 3.30e+01 1a75A a.39.1.4 17207 1gudA 288 3.42e+01 c.93.1.1 83326 1g8iA 190 3.45e+01 1rec a.39.1.5 60363 2cx6A 90 3.51e+01 1yixA 265 3.60e+01 1q52A 314 3.61e+01 c.14.1.3 95846 1nmeA 146 3.61e+01 c.17.1.1 85874 3nul 130 3.65e+01 3nul d.110.1.1 40891 2au3A 407 3.67e+01 1vajA 214 3.71e+01 1f4qA 165 3.79e+01 1alvA a.39.1.8 17360 1nowA 507 3.80e+01 c.1.8.6,d.92.2.1 85936,85937 1tn4 159 3.88e+01 1ncx a.39.1.5 17248 2bdeA 470 3.92e+01 2fa8A 105 3.96e+01 2gasA 307 3.98e+01 1dhpA 292 3.99e+01 1dhpA c.1.10.1 29097 2coeA 120 4.02e+01 2a6nA 292 4.03e+01 1yjmA 110 4.06e+01 1yxcA 292 4.11e+01 2a6lA 292 4.23e+01 2aeeA 211 4.25e+01 1o0yA 260 4.34e+01 c.1.10.1 80756 1fs0E 138 4.35e+01 1aqt a.2.10.1,b.93.1.1 59997,59998 2ajrA 331 4.36e+01 1in6A 334 4.43e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1u58A 253 4.43e+01 1xk4C 113 4.48e+01 1yvkA 163 4.50e+01 1jflA 228 4.66e+01 c.78.2.1,c.78.2.1 71656,71657 1tidB 119 4.69e+01 c.13.2.1 107000 1bgc 174 4.73e+01 1bgc a.26.1.1 16822 1wmhA 89 4.75e+01 1uok 558 4.76e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1ezwA 349 4.77e+01 1ezwA c.1.16.3 29558 2if1 126 4.78e+01 2if1 d.64.1.1 39547 1g4yR 148 4.79e+01 1cll a.39.1.5 60252 1vd5A 377 4.87e+01 a.102.1.7 108518 1e6wA 260 4.89e+01 1e6wA c.2.1.2 59326 1l3iA 192 4.93e+01 c.66.1.22 77676 1ars 396 4.94e+01 1ajsA c.67.1.1 34287 1ujxA 119 4.94e+01 b.26.1.2 99473 1y0vH 146 4.98e+01 1z5sD 83 5.06e+01 1ggzA 148 5.22e+01 a.39.1.5 70176 1t07A 94 5.26e+01 d.279.1.1 106196 2ctdA 96 5.29e+01 1dpuA 99 5.34e+01 1dpuA a.4.5.16 16150 2f8aA 208 5.36e+01 1elkA 157 5.39e+01 1dvpA a.118.9.2 19217 1kxpD 458 5.50e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 1sfp 114 5.52e+01 1sfp b.23.1.1 23895 1ohtA 215 5.53e+01 d.118.1.1 87036 1wzdA 215 5.54e+01 2cbuA 468 5.57e+01 1xn9A 101 5.79e+01 1b8aA 438 5.79e+01 1b8aA b.40.4.1,d.104.1.1 25244,40765 1wwhA 119 5.80e+01 1f3mA 80 5.83e+01 1f3mA j.66.1.1 46358 1mu5A 471 5.84e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 2cvxA 888 5.89e+01 1qgoA 264 5.98e+01 1qgoA c.92.1.2 35596 1xneA 113 6.13e+01 1lmb3 92 6.14e+01 1lmb3 1orjA 130 6.21e+01 a.24.19.1 93456 1yruB 74 6.21e+01 1wfxA 186 6.27e+01 2b8iA 77 6.37e+01 1ji8A 111 6.37e+01 d.203.1.1 66733 2f7fA 494 6.38e+01 1yqbA 100 6.42e+01 1emvA 86 6.49e+01 1cei a.28.2.1 16944 1exrA 148 6.55e+01 1cll a.39.1.5 17299 2bl0B 145 6.69e+01 1ro2A 216 6.82e+01 d.264.1.2 97665 1ji7A 89 6.85e+01 a.60.1.1 71682 1qisA 396 6.86e+01 1ajsA c.67.1.1 34284 2gq1A 332 6.87e+01 2ganA 190 6.88e+01 1uz1A 468 6.89e+01 2etgA 296 6.96e+01 1xe0A 114 6.98e+01 1qnrA 344 7.09e+01 1qnoA c.1.8.3 28834 1x67A 146 7.20e+01 2ct9A 208 7.23e+01 1fp1D 372 7.27e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1t6t1 118 7.33e+01 1xt5A 135 7.33e+01 1f1xA 322 7.46e+01 d.32.1.3,d.32.1.3 83208,83209 1whrA 124 7.47e+01 1p8kZ 254 7.50e+01 d.95.2.1,d.95.2.1 94361,94362 1q7lA 198 7.53e+01 c.56.5.4 96044 1nox 205 7.57e+01 1nox d.90.1.1 40242 1xfxO 149 7.59e+01 2gtrA 261 7.65e+01 1bm9A 122 7.81e+01 1bm9A a.4.5.7 16116 1ys4A 354 7.82e+01 1xw4X 110 7.82e+01 1xuuA 349 7.89e+01 1ro0A 216 7.90e+01 d.264.1.2 97664 1c3pA 375 7.93e+01 1c3pA c.42.1.2 32606 2a6hE 99 7.99e+01 2a5lA 200 8.00e+01 1ylxA 103 8.03e+01 1jhdA 396 8.03e+01 b.122.1.3,c.26.1.5 66712,66713 1yovA 537 8.05e+01 1xw3A 110 8.06e+01 1dciA 275 8.14e+01 1dciA c.14.1.3 30918 1ahxA 396 8.17e+01 1ajsA c.67.1.1 34293 2exrA 524 8.20e+01 1chd 203 8.34e+01 1chd c.40.1.1 32478 1vknA 351 8.39e+01 c.2.1.3,d.81.1.1 108676,108677 1gs5A 258 8.42e+01 c.73.1.2 70395 1n46A 258 8.42e+01 a.123.1.1 85315 1in4A 334 8.48e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 2ax6A 256 8.49e+01 2a8kA 108 8.53e+01 1pbwA 216 8.55e+01 1pbwA a.116.1.1 19103 1muwA 386 8.57e+01 c.1.15.3 79495 1ksoA 101 8.64e+01 a.39.1.2 72926 1rwiA 270 8.66e+01 b.68.9.1 97987 2g8lA 299 8.72e+01 1qw2A 102 8.76e+01 d.249.1.1 96456 1t7rA 269 8.86e+01 a.123.1.1 106635 2c6yA 111 8.88e+01 1g8yA 279 8.91e+01 1g8yA c.37.1.11 32302 1rlmB 271 8.92e+01 1nrwA 288 8.98e+01 c.108.1.10 86128