# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 1fqiA 147 1.73e-19 1agrE a.91.1.1 18542 1dk8A 147 2.25e-16 1agrE a.91.1.1 18548 1iapA 211 1.36e-03 a.91.1.1 62119 1eljA 381 7.14e-02 4mbp c.94.1.1 35791 1mnaA 298 1.03e-01 c.69.1.22 79322 1p32A 209 2.15e-01 1p32A d.25.1.1 38379 1alu 186 2.93e-01 1alu a.26.1.1 16826 1t46A 313 6.75e-01 d.144.1.7 106397 1k0mA 241 1.11e+00 a.45.1.1,c.47.1.5 67949,67950 1ngnA 155 1.17e+00 a.96.1.2 85697 2ilk 160 1.44e+00 2ilk a.26.1.3 16885 1h5uA 842 1.63e+00 1a8i c.87.1.4 60655 1k3yA 221 1.76e+00 a.45.1.1,c.47.1.5 77245,77246 1pmzA 86 2.02e+00 a.39.1.10 104195 1edg 380 2.23e+00 1edg c.1.8.3 28807 1eca 136 2.25e+00 1flp a.1.1.2 15209 1ct9A 553 2.75e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1geqA 248 3.05e+00 2tysA c.1.2.4 28589 1io2A 213 3.92e+00 1ekeA c.55.3.1 62612 1r89A 437 3.95e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1k8kG 151 3.96e+00 a.118.13.1 68313 1otkA 249 3.99e+00 a.25.1.2 93521 1j1nA 492 4.21e+00 c.94.1.1 83978 1ee4A 423 4.74e+00 1ee4A a.118.1.1 19128 1sg4A 260 5.51e+00 1m7kA 99 6.14e+00 a.7.7.1 74573 1yiiA 320 6.24e+00 1qh8B 519 6.66e+00 1qguB c.92.2.3 35634 1pvtA 238 6.67e+00 c.74.1.1 95189 1i39A 225 7.11e+00 1ekeA c.55.3.1 61585 1ks8A 433 7.30e+00 a.102.1.2 77519 1ja1A 622 7.76e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1jq5A 370 8.22e+00 e.22.1.2 67084 1eu8A 409 8.33e+00 1eu8A c.94.1.1 59502 1syyA 346 8.58e+00 a.25.1.2 106126 1qzmA 94 8.66e+00 c.37.1.20 96651 1g5hA 454 8.94e+00 1g5hA c.51.1.1,d.104.1.1 60270,60271 1nfvA 179 9.05e+00 a.25.1.1 85642 1qo7A 394 9.05e+00 1qo7A c.69.1.11 34697 1c3cA 429 9.37e+00 1c3cA a.127.1.1 19425 1wvfA 520 9.44e+00 1a76 326 9.58e+00 1a76 a.60.7.1,c.120.1.2 18091,33361 1p6oA 161 9.60e+00 c.97.1.2 94185 1qazA 351 9.87e+00 1qazA a.102.3.1 18848 1j0dA 341 9.96e+00 c.79.1.1 83902 1h8mA 140 1.01e+01 1h8mA d.110.4.1 60782 1nznA 126 1.03e+01 a.118.8.1 92382 1r9kA 172 1.12e+01 a.168.1.1 104869 1rvgA 305 1.13e+01 c.1.10.2 97920 1csn 298 1.16e+01 1csn d.144.1.7 41664 1i1rB 181 1.24e+01 1i1rB a.26.1.1 61548 2evaA 307 1.26e+01 1p42A 270 1.30e+01 d.14.1.7,d.14.1.7 87754,87755 1f6fA 199 1.33e+01 1f6fA a.26.1.1 16839 1kqfB 294 1.34e+01 d.58.1.5,f.23.22.1 75900,75901 1izoA 417 1.36e+01 a.104.1.1 83851 1f2tB 148 1.37e+01 1f2tB 1b25A 619 1.37e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1ln1A 214 1.38e+01 d.129.3.2 74038 1lj8A 493 1.39e+01 a.100.1.9,c.2.1.6 90392,90393 1vljA 407 1.40e+01 e.22.1.2 108832 1hl2A 297 1.40e+01 c.1.10.1 83581 1hzoA 271 1.48e+01 e.3.1.1 71092 1vd5A 377 1.55e+01 a.102.1.7 108518 3sdhA 146 1.58e+01 3sdhA a.1.1.2 14984 1a7tA 232 1.59e+01 1a7tA d.157.1.1 42041 1h6gA 256 1.60e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1b0nA 111 1.72e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1i2sA 282 1.72e+01 e.3.1.1 71104 1obdA 306 1.72e+01 d.143.1.1 86767 1w2wA 211 1.76e+01 c.124.1.5 109130 1aisB 200 1.82e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1dxeA 256 1.88e+01 1dxeA c.1.12.5 29310 1cs0A 1073 1.89e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1m2tA 254 1.91e+01 d.165.1.1 84761 1ezwA 349 2.04e+01 1ezwA c.1.16.3 29558 1l1lA 739 2.05e+01 c.7.1.4 73470 1pytA 94 2.08e+01 1pytA d.58.3.1 39064 1bdfA 235 2.09e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1ayl 541 2.11e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1v37A 177 2.14e+01 1j8bA 112 2.15e+01 d.222.1.1 77101 1nm2A 317 2.16e+01 c.19.1.1,d.58.23.1 80654,80655 1ouoA 210 2.16e+01 d.4.1.6 93554 1o9iA 266 2.19e+01 a.25.1.3 92671 1j6oA 268 2.21e+01 c.1.9.12 77088 1jk0B 345 2.21e+01 a.25.1.2 63143 1p99A 295 2.25e+01 c.94.1.1 94384 1ltqA 301 2.27e+01 c.108.1.9,c.37.1.1 78208,78209 1pgtA 210 2.31e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1r0pA 312 2.33e+01 d.144.1.7 96734 1s96A 219 2.37e+01 c.37.1.1 98740 1h3fA 432 2.38e+01 c.26.1.1,d.66.1.4 76631,76632 1o17A 345 2.40e+01 a.46.2.1,c.27.1.1 80765,80766 1n08A 163 2.40e+01 b.43.5.1 79730 1nm8A 616 2.44e+01 c.43.1.3,c.43.1.3 85872,85873 1h16A 759 2.45e+01 c.7.1.1 76462 1spvA 184 2.46e+01 c.50.1.2 98957 1omoA 322 2.47e+01 c.2.1.13 104017 2bjvA 265 2.49e+01 1dv1A 449 2.51e+01 1bncA b.84.2.1,c.30.1.1,d.142.1.2 28234,31641,41486 1noyA 388 2.60e+01 1clqA c.55.3.5 33713 1l7vA 326 2.61e+01 f.22.1.1 73672 1b43A 340 2.65e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1q15A 503 2.68e+01 c.26.2.1,d.153.1.1 95538,95539 1gjwA 637 2.69e+01 b.71.1.1,c.1.8.1 60582,60583 1h7sA 365 2.70e+01 d.14.1.3,d.122.1.2 65705,65706 1ez3A 127 2.71e+01 1dn1B a.47.2.1 17768 1r29A 127 2.73e+01 d.42.1.1 96856 1cpcA 162 2.77e+01 1cpcA a.1.1.3 15643 3pviA 157 2.79e+01 3pviA c.52.1.6 33300 1szqA 483 2.83e+01 e.44.1.1 99045 1vjuA 309 2.85e+01 d.248.1.1 100835 1v54B 227 2.86e+01 b.6.1.2,f.17.2.1 100322,100323 1hlb 158 2.89e+01 1hlb a.1.1.2 15625 1aa7A 158 2.92e+01 1aa7A a.95.1.1 18741 1t7lA 766 2.92e+01 1t1vA 93 2.92e+01 c.47.1.14 106278 1avsA 90 2.93e+01 1cll a.39.1.5 17226 1r5lA 262 2.94e+01 a.5.3.1,c.13.1.1 97099,97100 1bqbA 301 2.96e+01 1hyt d.92.1.2 58962 1b4pA 217 2.97e+01 a.45.1.1,c.47.1.5 83158,83159 1n35A 1267 2.98e+01 e.8.1.4 79935 1qtoA 122 3.00e+01 1bylA d.32.1.2 38494 1fs7A 485 3.03e+01 1qdbA a.138.1.3 19691 1d5tA 433 3.06e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1qc7A 101 3.11e+01 1qc7A a.118.14.1 18456 1o2dA 371 3.13e+01 e.22.1.2 86591 1rtwA 220 3.14e+01 a.132.1.3 97823 1am9A 82 3.16e+01 1am9A a.38.1.1 17140 1ne9A 335 3.17e+01 d.108.1.4,d.108.1.4 91839,91840 1dc1A 323 3.18e+01 1dc1A c.52.1.11 33321 1n8vA 112 3.18e+01 a.118.21.1 85457 1r4vA 171 3.23e+01 a.197.1.1 97049 1ovlA 271 3.32e+01 a.123.1.1 87455 1j1bA 420 3.33e+01 d.144.1.7 90758 1a6q 382 3.40e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1a41 234 3.45e+01 1a41 d.163.1.2 42174 1a9xA 1058 3.47e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1eueA 86 3.48e+01 1cyo d.120.1.1 59504 1fpoA 171 3.53e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1kgnA 329 3.59e+01 a.25.1.2 68584 1dd9A 338 3.63e+01 1dd9A e.13.1.1 43254 1e4iA 447 3.65e+01 1e70M c.1.8.4 59225 1omrA 201 3.67e+01 a.39.1.5 93349 1fp1D 372 3.69e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1ohlA 342 3.70e+01 c.1.10.3 87035 1dq3A 454 3.74e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1t4hA 290 3.74e+01 d.144.1.7 106420 1hx0A 496 3.79e+01 b.71.1.1,c.1.8.1 61346,61347 1ijyA 130 3.83e+01 1ijxA a.141.1.1 62517 1rw6A 210 3.84e+01 a.47.4.1 105113 1na6A 404 3.87e+01 b.142.1.1,c.52.1.22 91748,91749 1bjt 793 3.94e+01 1bjt e.11.1.1 43249 1j2jB 45 3.99e+01 a.7.8.1 84017 1giqA 413 4.02e+01 d.166.1.1,d.166.1.1 76224,76225 1h1yA 228 4.12e+01 c.1.2.2 76506 1jli 112 4.14e+01 1jli a.26.1.2 16884 2bl8A 103 4.15e+01 1em8A 147 4.16e+01 c.128.1.1 90457 1r9dA 787 4.17e+01 c.7.1.1 104865 1n0uA 842 4.17e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1n97A 389 4.17e+01 a.104.1.1 80335 1xkpA 246 4.17e+01 1smd 496 4.19e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1jyeA 349 4.20e+01 c.93.1.1 67455 1eswA 500 4.25e+01 1cwyA c.1.8.1 59500 1jflA 228 4.30e+01 c.78.2.1,c.78.2.1 71656,71657 1owfB 94 4.30e+01 a.55.1.1 87488 1k8kB 394 4.37e+01 c.55.1.1 68307 1qmvA 197 4.39e+01 1qq2A c.47.1.10 33066 1dcfA 136 4.44e+01 1dcfA c.23.1.2 31124 1p2fA 220 4.49e+01 a.4.6.1,c.23.1.1 87720,87721 1dm5A 315 4.57e+01 1avc a.65.1.1 18186 1ryoA 327 4.58e+01 c.94.1.2 98108 1bkjA 240 4.60e+01 1bkjA d.90.1.1 40243 1gzsB 165 4.80e+01 a.168.1.1 76425 1sk4A 163 4.85e+01 d.118.1.1 105664 1g3mA 294 4.86e+01 c.37.1.5 83268 1ae9A 179 4.92e+01 1ae9A d.163.1.1 42153 1xocA 520 4.95e+01 1d9cA 121 4.96e+01 1d9cA a.26.1.3 16901 1rt8A 513 5.00e+01 a.40.1.1 105095 1rcwA 231 5.02e+01 a.132.1.4 97299 1n5uA 585 5.02e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1irdB 146 5.06e+01 a.1.1.2 66287 1n4kA 381 5.07e+01 a.118.22.1,b.42.6.1 79992,79993 1ncs 47 5.09e+01 1ncs g.37.1.1 45040 1g8iA 190 5.10e+01 1rec a.39.1.5 60363 1e5rA 290 5.11e+01 1e5rA b.82.2.4 59276 1jubA 311 5.11e+01 c.1.4.1 90908 1hw6A 278 5.14e+01 1frb c.1.7.1 61296 1ib2A 349 5.22e+01 1ib2A a.118.1.8 62141 1m6yA 301 5.26e+01 a.60.13.1,c.66.1.23 78716,78717 1tw9A 206 5.27e+01 a.45.1.1,c.47.1.5 107381,107382 1qahA 136 5.29e+01 d.79.1.1 96338 1qhfA 240 5.33e+01 1qhfA c.60.1.1 33960 1m33A 258 5.38e+01 c.69.1.26 78514 1s6cA 183 5.42e+01 a.39.1.5 98594 1sqnA 261 5.47e+01 a.123.1.1 105944 1m7bA 184 5.48e+01 c.37.1.8 74572 1cfzA 162 5.53e+01 1cfzA c.56.1.1 33754 1pme 380 5.53e+01 1hcl d.144.1.7 41653 1sviA 195 5.54e+01 c.37.1.8 106048 1g2iA 166 5.55e+01 1g2iA c.23.16.2 31438 2a6pA 208 5.58e+01 1kpsB 171 5.60e+01 a.118.12.1 68787 2lisA 136 5.65e+01 1lis a.19.1.1 16405 1j54A 186 5.65e+01 c.55.3.5 77077 1jv1A 505 5.68e+01 c.68.1.5 71892 1r6uA 437 5.73e+01 c.26.1.1 97163 1isiA 265 5.74e+01 e.4.1.1 71394 1jdhA 529 5.75e+01 a.118.1.1 66549 1ffyA 917 5.77e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1cy5A 97 5.89e+01 1cy5A a.77.1.3 18430 1aq5A 47 5.90e+01 1aq5A h.1.6.1 45577 1mun 225 5.90e+01 1mun a.96.1.2 18744 1pmnA 364 5.94e+01 d.144.1.7 94907 1rypD 241 5.94e+01 1rypD d.153.1.4 41935 1rjdA 334 5.94e+01 c.66.1.37 97558 1qj4A 257 6.00e+01 1qj4A c.69.1.20 34796 1ihoA 283 6.03e+01 1ihoA c.26.1.4 62390 1nxuA 333 6.06e+01 c.122.1.1 86389 1qtnA 164 6.06e+01 1pauA c.17.1.1 30999 1fehA 574 6.16e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1g3qA 237 6.18e+01 1hyqA c.37.1.10 60237 1fmcA 255 6.19e+01 1cydA c.2.1.2 29856 1hyeA 313 6.25e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1e2kA 331 6.26e+01 1qhiA c.37.1.1 31854 1bupA 386 6.33e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1lucA 355 6.35e+01 1lucA c.1.16.1 29547 1vlaA 150 6.39e+01 d.227.1.2 108735 1qb7A 236 6.40e+01 1qb7A c.61.1.1 34087 1hzdA 272 6.40e+01 c.14.1.3 65969 1jnrA 643 6.49e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1p1mA 406 6.50e+01 b.92.1.4,c.1.9.9 87696,87697 1jcfA 344 6.53e+01 c.55.1.1,c.55.1.1 62878,62879 1vbiA 344 6.54e+01 1p30A 952 6.56e+01 b.121.2.2,b.121.2.2 93964,93965 1b3uA 588 6.68e+01 1b3uA a.118.1.2 19135 1mp9A 198 6.69e+01 d.129.1.1,d.129.1.1 91385,91386 1eqfA 280 6.91e+01 1eqfA a.29.2.1,a.29.2.1 16972,16973 1k0fA 277 6.94e+01 c.92.2.2 71974 1r0rE 274 6.97e+01 c.41.1.1 96735 1khyA 148 7.05e+01 a.174.1.1 77410 1ug6A 431 7.07e+01 c.1.8.4 88490 1nhs 447 7.12e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1n2eA 300 7.18e+01 c.26.1.4 85268 1s58A 554 7.26e+01 b.121.5.2 105262 1pu1A 94 7.26e+01 d.266.1.1 104307 1n62B 809 7.32e+01 d.41.1.1,d.133.1.1 80092,80093 1gbs 185 7.35e+01 153l d.2.1.5 36986 1v58A 241 7.42e+01 c.47.1.9,d.17.3.1 108371,108372 1vhsA 175 7.42e+01 d.108.1.1 100698 1l8bA 190 7.47e+01 d.86.1.1 73683 1tmy 120 7.49e+01 1dbwA c.23.1.1 31083 1nriA 306 7.52e+01 c.80.1.3 86123 1p2zA 968 7.57e+01 b.121.2.2,b.121.2.2 93962,93963 1m1hA 248 7.63e+01 b.114.1.1,d.58.42.1 78415,78416 1m98A 317 7.72e+01 a.175.1.1,d.17.4.6 78866,78867 1m4iA 181 7.76e+01 d.108.1.1 74457 1ekeA 230 7.79e+01 1ekeA c.55.3.1 33572 1ohvA 472 7.83e+01 c.67.1.4 93031 1ynbA 173 7.93e+01 1h32A 261 7.95e+01 a.3.1.8,a.3.1.8 76618,76619 1js1X 324 7.95e+01 c.78.1.1,c.78.1.1 71834,71835 1itxA 419 8.03e+01 c.1.8.5,d.26.3.1 71425,71426 1qsaA 618 8.09e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1ursA 402 8.11e+01 c.94.1.1 99833 1aj8A 371 8.12e+01 1aj8A a.103.1.1 18900 1qo2A 241 8.16e+01 1qo2A c.1.2.1 28533 1rdfA 267 8.23e+01 c.108.1.3 104884 1h6dA 433 8.26e+01 c.2.1.3,d.81.1.5 65656,65657 1dlyA 164 8.27e+01 1dlyA a.1.1.1 14983 1c3pA 375 8.29e+01 1c3pA c.42.1.2 32606 1pea 385 8.29e+01 1pea c.93.1.1 35662 2d68A 82 8.40e+01 1dmlA 319 8.52e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 2gdm 153 8.56e+01 2gdm a.1.1.2 15212 1cqxA 403 8.60e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1orjA 130 8.71e+01 a.24.19.1 93456 1esc 306 8.75e+01 1esc c.23.10.1 31334 1fc6A 388 8.77e+01 1fc6A b.36.1.3,c.14.1.2 64738,64739 1orsC 132 8.78e+01 f.14.1.1 87353 4ubpA 101 8.82e+01 1ubpA d.8.1.1 37352 1u8vA 490 8.82e+01 1lv7A 257 8.83e+01 c.37.1.20 78232 1hm6A 346 8.84e+01 1avc a.65.1.1 18147 2gnxA 365 8.88e+01 1s3eA 520 8.93e+01 c.3.1.2,d.16.1.5 98426,98427 1rss 151 8.98e+01 1rss a.75.1.1 18392 1rzhM 307 8.99e+01 f.26.1.1 98165