# List of top-scoring protein chains for t06-100-30-stride-ebghtl-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 1.11e-19 1agrE a.91.1.1 18542 1dk8A 147 7.45e-17 1agrE a.91.1.1 18548 1iapA 211 2.42e-04 a.91.1.1 62119 1p32A 209 1.34e-01 1p32A d.25.1.1 38379 1alu 186 1.66e-01 1alu a.26.1.1 16826 1mnaA 298 1.86e-01 c.69.1.22 79322 1t46A 313 4.08e-01 d.144.1.7 106397 1eljA 381 4.59e-01 4mbp c.94.1.1 35791 1ngnA 155 7.14e-01 a.96.1.2 85697 1k3yA 221 7.58e-01 a.45.1.1,c.47.1.5 77245,77246 1pmzA 86 1.07e+00 a.39.1.10 104195 1h5uA 842 1.11e+00 1a8i c.87.1.4 60655 1edg 380 1.57e+00 1edg c.1.8.3 28807 1ct9A 553 1.88e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1geqA 248 1.90e+00 2tysA c.1.2.4 28589 1j1nA 492 1.96e+00 c.94.1.1 83978 1otkA 249 2.23e+00 a.25.1.2 93521 1qzmA 94 2.43e+00 c.37.1.20 96651 1fs7A 485 2.51e+00 1qdbA a.138.1.3 19691 1ks8A 433 2.96e+00 a.102.1.2 77519 1lj8A 493 3.07e+00 a.100.1.9,c.2.1.6 90392,90393 1qh8B 519 3.10e+00 1qguB c.92.2.3 35634 1ln1A 214 3.49e+00 d.129.3.2 74038 1ee4A 423 3.77e+00 1ee4A a.118.1.1 19128 1io2A 213 4.29e+00 1ekeA c.55.3.1 62612 1k8kG 151 4.32e+00 a.118.13.1 68313 1r89A 437 4.39e+00 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1eca 136 4.87e+00 1flp a.1.1.2 15209 1szqA 483 4.95e+00 e.44.1.1 99045 1hlb 158 5.26e+00 1hlb a.1.1.2 15625 1l7vA 326 5.62e+00 f.22.1.1 73672 1g5hA 454 5.90e+00 1g5hA c.51.1.1,d.104.1.1 60270,60271 1i39A 225 6.00e+00 1ekeA c.55.3.1 61585 1r9kA 172 6.43e+00 a.168.1.1 104869 1pvtA 238 6.95e+00 c.74.1.1 95189 1d5tA 433 6.97e+00 1gnd c.3.1.3,d.16.1.6 30422,37986 1jq5A 370 7.12e+00 e.22.1.2 67084 1vljA 407 7.40e+00 e.22.1.2 108832 1nznA 126 7.42e+00 a.118.8.1 92382 1bqbA 301 7.47e+00 1hyt d.92.1.2 58962 1h6gA 256 7.80e+00 1h6gA a.24.9.1,a.24.9.1 60669,60670 1ja1A 622 8.10e+00 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1b25A 619 8.14e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1eu8A 409 8.51e+00 1eu8A c.94.1.1 59502 1izoA 417 8.63e+00 a.104.1.1 83851 1i1rB 181 9.01e+00 1i1rB a.26.1.1 61548 1aisB 200 9.47e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1p99A 295 1.00e+01 c.94.1.1 94384 1nfvA 179 1.00e+01 a.25.1.1 85642 1obdA 306 1.03e+01 d.143.1.1 86767 1wvfA 520 1.04e+01 1bkjA 240 1.04e+01 1bkjA d.90.1.1 40243 1c3cA 429 1.10e+01 1c3cA a.127.1.1 19425 1j0dA 341 1.11e+01 c.79.1.1 83902 1a76 326 1.13e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1huw 166 1.15e+01 1huw a.26.1.1 16831 1h16A 759 1.23e+01 c.7.1.1 76462 1yiiA 320 1.24e+01 1avsA 90 1.27e+01 1cll a.39.1.5 17226 1rtwA 220 1.27e+01 a.132.1.3 97823 1csn 298 1.31e+01 1csn d.144.1.7 41664 1ovlA 271 1.32e+01 a.123.1.1 87455 1pgtA 210 1.42e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1cpcA 162 1.46e+01 1cpcA a.1.1.3 15643 1hzoA 271 1.46e+01 e.3.1.1 71092 1eswA 500 1.47e+01 1cwyA c.1.8.1 59500 1omrA 201 1.48e+01 a.39.1.5 93349 1v37A 177 1.51e+01 1h8mA 140 1.53e+01 1h8mA d.110.4.1 60782 1f6fA 199 1.55e+01 1f6fA a.26.1.1 16839 1ak0 270 1.58e+01 1ak0 a.124.1.2 19345 1vjuA 309 1.65e+01 d.248.1.1 100835 1fehA 574 1.66e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1a7tA 232 1.66e+01 1a7tA d.157.1.1 42041 1hl2A 297 1.69e+01 c.1.10.1 83581 1noyA 388 1.74e+01 1clqA c.55.3.5 33713 1rt8A 513 1.77e+01 a.40.1.1 105095 1fp1D 372 1.82e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 2ilk 160 1.86e+01 2ilk a.26.1.3 16885 1e4iA 447 1.86e+01 1e70M c.1.8.4 59225 1v77A 212 1.88e+01 c.6.3.2 108402 1n8vA 112 1.92e+01 a.118.21.1 85457 1qazA 351 1.92e+01 1qazA a.102.3.1 18848 1f5vA 240 1.93e+01 1bkjA d.90.1.1 40255 1vd5A 377 1.95e+01 a.102.1.7 108518 1r29A 127 1.96e+01 d.42.1.1 96856 1sviA 195 1.96e+01 c.37.1.8 106048 1ltqA 301 2.00e+01 c.108.1.9,c.37.1.1 78208,78209 1nriA 306 2.03e+01 c.80.1.3 86123 1p6oA 161 2.04e+01 c.97.1.2 94185 1h7sA 365 2.06e+01 d.14.1.3,d.122.1.2 65705,65706 1rvgA 305 2.14e+01 c.1.10.2 97920 1omoA 322 2.16e+01 c.2.1.13 104017 1v54B 227 2.21e+01 b.6.1.2,f.17.2.1 100322,100323 1ayl 541 2.27e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1r0pA 312 2.27e+01 d.144.1.7 96734 1ncs 47 2.28e+01 1ncs g.37.1.1 45040 2a6pA 208 2.28e+01 1mun 225 2.29e+01 1mun a.96.1.2 18744 1p2fA 220 2.31e+01 a.4.6.1,c.23.1.1 87720,87721 1pytA 94 2.31e+01 1pytA d.58.3.1 39064 1h3qA 140 2.31e+01 d.110.4.3 76652 1r4vA 171 2.31e+01 a.197.1.1 97049 1j1bA 420 2.34e+01 d.144.1.7 90758 1mrg 263 2.38e+01 1mrj d.165.1.1 42183 1b4pA 217 2.52e+01 a.45.1.1,c.47.1.5 83158,83159 1pme 380 2.56e+01 1hcl d.144.1.7 41653 1g3mA 294 2.59e+01 c.37.1.5 83268 1jk0B 345 2.60e+01 a.25.1.2 63143 1b0nA 111 2.60e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1jcfA 344 2.60e+01 c.55.1.1,c.55.1.1 62878,62879 1ffyA 917 2.61e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1njrA 284 2.61e+01 c.50.1.2 103858 1m7kA 99 2.75e+01 a.7.7.1 74573 1na6A 404 2.78e+01 b.142.1.1,c.52.1.22 91748,91749 1tw9A 206 2.82e+01 a.45.1.1,c.47.1.5 107381,107382 1spvA 184 2.84e+01 c.50.1.2 98957 1fpoA 171 2.88e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1kqfB 294 2.90e+01 d.58.1.5,f.23.22.1 75900,75901 2cfuA 658 2.91e+01 1aj8A 371 2.95e+01 1aj8A a.103.1.1 18900 1qb7A 236 3.01e+01 1qb7A c.61.1.1 34087 1cqxA 403 3.01e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1s96A 219 3.03e+01 c.37.1.1 98740 1m2tA 254 3.08e+01 d.165.1.1 84761 1bdfA 235 3.08e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1orsC 132 3.09e+01 f.14.1.1 87353 1e2kA 331 3.10e+01 1qhiA c.37.1.1 31854 1f8mA 429 3.12e+01 1dquA c.1.12.7 29315 1s3eA 520 3.22e+01 c.3.1.2,d.16.1.5 98426,98427 1g6hA 257 3.22e+01 1gajA c.37.1.12 60318 1n35A 1267 3.23e+01 e.8.1.4 79935 1xocA 520 3.23e+01 1bg6 359 3.27e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1jf3A 147 3.27e+01 a.1.1.2 71642 1o2dA 371 3.33e+01 e.22.1.2 86591 1rzhH 260 3.36e+01 b.41.1.1,f.23.10.1 98162,98163 1j2jB 45 3.38e+01 a.7.8.1 84017 1v33A 366 3.39e+01 d.264.1.1 100278 1ohvA 472 3.39e+01 c.67.1.4 93031 1xdnA 277 3.43e+01 1pmnA 364 3.44e+01 d.144.1.7 94907 1gs9A 165 3.57e+01 a.24.1.1 83313 1k0mA 241 3.59e+01 a.45.1.1,c.47.1.5 67949,67950 1s6cA 183 3.59e+01 a.39.1.5 98594 1dxeA 256 3.61e+01 1dxeA c.1.12.5 29310 1gtmA 419 3.68e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1sg4A 260 3.73e+01 1kpsB 171 3.76e+01 a.118.12.1 68787 1qmvA 197 3.77e+01 1qq2A c.47.1.10 33066 1t7lA 766 3.79e+01 1n4kA 381 3.84e+01 a.118.22.1,b.42.6.1 79992,79993 1m4iA 181 3.85e+01 d.108.1.1 74457 1aa7A 158 3.86e+01 1aa7A a.95.1.1 18741 2gdm 153 3.90e+01 2gdm a.1.1.2 15212 1hyeA 313 3.97e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1ohlA 342 4.02e+01 c.1.10.3 87035 1o0sA 605 4.11e+01 c.2.1.7,c.58.1.3 86540,86541 1qo2A 241 4.11e+01 1qo2A c.1.2.1 28533 1hx0A 496 4.15e+01 b.71.1.1,c.1.8.1 61346,61347 1ieaB 228 4.18e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1p30A 952 4.18e+01 b.121.2.2,b.121.2.2 93964,93965 1a9xA 1058 4.18e+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 1m2xA 223 4.21e+01 d.157.1.1 84764 1jnrA 643 4.23e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1irdB 146 4.24e+01 a.1.1.2 66287 1ijyA 130 4.38e+01 1ijxA a.141.1.1 62517 1cuk 203 4.39e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1jyeA 349 4.67e+01 c.93.1.1 67455 1ouoA 210 4.67e+01 d.4.1.6 93554 1qc7A 101 4.69e+01 1qc7A a.118.14.1 18456 1k20A 310 4.70e+01 c.107.1.1 68027 1jflA 228 4.70e+01 c.78.2.1,c.78.2.1 71656,71657 2evaA 307 4.75e+01 1a41 234 4.76e+01 1a41 d.163.1.2 42174 1kmqA 184 4.79e+01 c.37.1.8 84412 1jb0A 755 4.79e+01 1jb0A f.29.1.1 62820 1nm2A 317 4.80e+01 c.19.1.1,d.58.23.1 80654,80655 1pea 385 4.82e+01 1pea c.93.1.1 35662 1h3fA 432 4.85e+01 c.26.1.1,d.66.1.4 76631,76632 1w2wA 211 4.89e+01 c.124.1.5 109130 1o9iA 266 4.90e+01 a.25.1.3 92671 1n1cA 217 4.91e+01 a.184.1.1 85254 1g2iA 166 4.92e+01 1g2iA c.23.16.2 31438 1c3pA 375 4.92e+01 1c3pA c.42.1.2 32606 1m33A 258 4.94e+01 c.69.1.26 78514 1lucA 355 4.96e+01 1lucA c.1.16.1 29547 1smd 496 4.99e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1mw9X 592 5.00e+01 e.10.1.1 91480 1q15A 503 5.03e+01 c.26.2.1,d.153.1.1 95538,95539 1jubA 311 5.08e+01 c.1.4.1 90908 1sk4A 163 5.10e+01 d.118.1.1 105664 1n62B 809 5.12e+01 d.41.1.1,d.133.1.1 80092,80093 1f2tB 148 5.13e+01 1f2tB 1ae9A 179 5.14e+01 1ae9A d.163.1.1 42153 1khbA 625 5.26e+01 c.91.1.1,c.109.1.1 68606,68607 1qtoA 122 5.27e+01 1bylA d.32.1.2 38494 1p2zA 968 5.29e+01 b.121.2.2,b.121.2.2 93962,93963 1kq3A 376 5.39e+01 e.22.1.2 68790 1rqjA 299 5.40e+01 a.128.1.1 97744 1ug6A 431 5.45e+01 c.1.8.4 88490 1vlaA 150 5.46e+01 d.227.1.2 108735 1am9A 82 5.55e+01 1am9A a.38.1.1 17140 1rcwA 231 5.55e+01 a.132.1.4 97299 1gr0A 367 5.62e+01 c.2.1.3,d.81.1.3 70379,70380 1p4xA 250 5.74e+01 a.4.5.28,a.4.5.28 87784,87785 1k0fA 277 5.74e+01 c.92.2.2 71974 1ghpA 258 5.81e+01 1btl e.3.1.1 60520 1n97A 389 5.83e+01 a.104.1.1 80335 1oaa 259 5.83e+01 1oaa c.2.1.2 29829 1r6uA 437 5.86e+01 c.26.1.1 97163 1vpdA 299 5.92e+01 1toaA 313 5.97e+01 1toaA c.92.2.2 35598 1a6q 382 6.04e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1m6kA 251 6.06e+01 e.3.1.1 78695 1owfB 94 6.07e+01 a.55.1.1 87488 1m1nB 522 6.08e+01 c.92.2.3 78418 1hw6A 278 6.17e+01 1frb c.1.7.1 61296 1cs0A 1073 6.18e+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 2gwhA 298 6.19e+01 1cy5A 97 6.22e+01 1cy5A a.77.1.3 18430 1dd9A 338 6.28e+01 1dd9A e.13.1.1 43254 1rw6A 210 6.29e+01 a.47.4.1 105113 1n0uA 842 6.38e+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 1dcfA 136 6.40e+01 1dcfA c.23.1.2 31124 2lisA 136 6.45e+01 1lis a.19.1.1 16405 1gzsB 165 6.55e+01 a.168.1.1 76425 1qpcA 279 6.59e+01 1fgkA d.144.1.7 41685 1p94A 76 6.67e+01 a.43.1.3 94380 1qgiA 259 6.69e+01 1qgiA d.2.1.7 37001 1qhfA 240 6.70e+01 1qhfA c.60.1.1 33960 1dkiA 371 6.70e+01 1dkiA d.3.1.1 37090 1ib2A 349 6.73e+01 1ib2A a.118.1.8 62141 1giqA 413 6.75e+01 d.166.1.1,d.166.1.1 76224,76225 1p1mA 406 6.77e+01 b.92.1.4,c.1.9.9 87696,87697 1l5wA 796 6.83e+01 c.87.1.4 73605 1cjcA 460 6.86e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1bgc 174 6.90e+01 1bgc a.26.1.1 16822 1f0xA 571 7.06e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1earA 147 7.06e+01 b.107.1.1,d.58.38.1 64875,64876 1rss 151 7.08e+01 1rss a.75.1.1 18392 1ugpB 226 7.13e+01 b.34.4.4 107832 1dceA 567 7.15e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1n5uA 585 7.16e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1ryoA 327 7.21e+01 c.94.1.2 98108 1b3uA 588 7.25e+01 1b3uA a.118.1.2 19135 1khyA 148 7.30e+01 a.174.1.1 77410 1l6wA 220 7.30e+01 c.1.10.1 73632 1i36A 264 7.30e+01 a.100.1.8,c.2.1.6 71108,71109 1xqoA 256 7.31e+01 1l1qA 186 7.34e+01 c.61.1.1 77653 1q1fA 151 7.37e+01 a.1.1.2 104476 1e3oC 160 7.39e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1g8iA 190 7.42e+01 1rec a.39.1.5 60363 1n7oA 721 7.42e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1psyA 125 7.44e+01 a.52.1.3 95081 1gp6A 356 7.51e+01 b.82.2.1 65441 1dq3A 454 7.54e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1kk8B 139 7.54e+01 a.39.1.5 77430 1r12A 258 7.56e+01 e.4.1.1 96780 1lc5A 364 7.61e+01 c.67.1.1 73827 1fgkA 310 7.62e+01 1fgkA d.144.1.7 41693 1o6yA 299 7.66e+01 d.144.1.7 81106 1ez3A 127 7.67e+01 1dn1B a.47.2.1 17768 1dmlA 319 7.68e+01 1dmlA d.131.1.2,d.131.1.2 41380,41381 1z57A 339 7.76e+01 1m40A 263 7.77e+01 e.3.1.1 74437 1g6aA 271 7.88e+01 1btl e.3.1.1 42704 1xkpA 246 7.88e+01 1tmy 120 7.95e+01 1dbwA c.23.1.1 31083 1irqA 71 7.98e+01 a.43.1.4 66297 1iv8A 720 7.99e+01 b.71.1.1,c.1.8.1 76842,76843 1sw6A 327 8.00e+01 1sw6A d.211.1.1 19176 1b67A 68 8.05e+01 1a7w a.22.1.2 16474 1d3yA 301 8.09e+01 1d3yA e.12.1.1 43252 1hzdA 272 8.16e+01 c.14.1.3 65969 1jdhA 529 8.18e+01 a.118.1.1 66549 1qopB 396 8.23e+01 2tysB c.79.1.1 35270 1rgyA 360 8.26e+01 e.3.1.1 97456 1ynbA 173 8.27e+01 1nekC 129 8.29e+01 f.21.2.2 80431 1sazA 381 8.34e+01 2bikB 313 8.37e+01 1eyeA 280 8.43e+01 1aj2 c.1.21.1 29672 1ovnA 248 8.46e+01 a.71.1.1,c.47.1.7 93602,93603 1u8vA 490 8.47e+01 1nxuA 333 8.53e+01 c.122.1.1 86389 1fzcA 87 8.54e+01 1fzcA h.1.8.1 45590 1gqnA 252 8.60e+01 c.1.10.1 90514 1t98A 287 8.60e+01 1jr7A 311 8.66e+01 b.82.2.3 63255 1v58A 241 8.70e+01 c.47.1.9,d.17.3.1 108371,108372 1b7yB 785 8.72e+01 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 1r9dA 787 8.76e+01 c.7.1.1 104865 1r1hA 696 8.77e+01 d.92.1.4 104756 1ummA 172 8.77e+01 a.3.1.1 107958 1dptA 117 8.78e+01 1dptA d.80.1.3 39862 1csh 435 8.79e+01 1csh a.103.1.1 18880 1jdlA 121 8.82e+01 a.3.1.1 66557 1auiB 169 8.84e+01 1auiB a.39.1.5 17325 1n08A 163 8.85e+01 b.43.5.1 79730 1vhwA 253 8.85e+01 c.56.2.1 100706 1m6jA 261 8.90e+01 c.1.1.1 78693