# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1peeA 180 1.03e-01 1lngA 87 1.61e-01 d.201.1.1 74045 1pm1X 180 2.03e-01 1euoA 180 2.03e-01 1np1A b.60.1.1 27163 1b7yB 785 2.70e-01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 1kl1A 419 3.79e-01 c.67.1.4 72663 1ubi 76 6.53e-01 1ubi d.15.1.1 37584 1ogwA 76 6.53e-01 d.15.1.1 87001 1nbfD 76 6.84e-01 d.15.1.1 80390 1gefA 123 7.10e-01 1gefA c.52.1.18 60465 1ka9H 200 7.97e-01 c.23.16.1 77308 1j97A 211 8.61e-01 1f5sA c.108.1.4 62753 1l7mA 211 1.36e+00 c.108.1.4 73664 1iow 306 1.78e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1m65A 245 1.88e+00 c.6.3.1 84847 1tiqA 180 2.09e+00 1uiuA 502 2.20e+00 c.94.1.1 -8674 1ub0A 258 2.51e+00 c.72.1.2 88394 1seiA 130 2.53e+00 1seiA d.140.1.1 41463 1oglA 283 2.54e+00 unknown_sccs -1512 1kzfA 230 2.55e+00 d.108.1.3 73354 1oniA 137 2.63e+00 d.79.1.1 87144 1jfuA 186 2.91e+00 c.47.1.10 62940 1ooeA 236 3.02e+00 c.2.1.2 87196 1hh1A 143 3.05e+00 1gefA c.52.1.18 61036 1i1kA 309 3.15e+00 1daaA e.17.1.1 61533 1mzbA 136 3.39e+00 unknown_sccs -266 1bob 320 3.39e+00 1bob d.108.1.1 40816 1edg 380 3.93e+00 1edg c.1.8.3 28807 1ax4A 467 4.22e+00 1ax4A c.67.1.2 34391 1c1dA 355 4.46e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 1iyeA 309 4.53e+00 e.17.1.1 83786 1flmA 122 4.67e+00 1axj b.45.1.1 25747 1erxA 184 4.71e+00 1np1A b.60.1.1 27164 1sy3A 184 4.72e+00 1cmbA 104 4.75e+00 1cmbA unknown_sccs 17460 1koiA 184 4.78e+00 b.60.1.1 68725 1bj4A 470 4.97e+00 1bj4A c.67.1.4 34479 1qahA 136 5.25e+00 d.79.1.1 -10377 1em8B 112 6.02e+00 unknown_sccs -6364 1ppjA 446 6.38e+00 1rv3A 483 6.56e+00 1l0lA 446 6.60e+00 d.185.1.1 84482 d.185.1.1 84483 1hw1A 239 6.88e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1ixkA 315 6.92e+00 unknown_sccs -8099 1m2xA 223 6.99e+00 d.157.1.1 84764 1e19A 314 7.12e+00 1b7bA c.73.1.1 34967 1gv3A 248 7.31e+00 a.2.11.1 70585 d.44.1.1 70586 1lml 478 7.55e+00 1lml d.92.1.3 40295 1r44A 202 7.83e+00 1ceo 343 8.05e+00 1ceo c.1.8.3 28808 1acf 125 8.06e+00 3nul d.110.1.1 40882 1j5yA 187 8.21e+00 a.4.5.1 71592 d.94.2.1 71593 1h3nA 878 8.23e+00 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1us5A 314 8.41e+00 c.94.1.1 -8686 1kn6A 90 8.78e+00 d.58.3.3 72770 1q15A 503 9.03e+00 c.26.2.1 -6625 d.153.1.1 -11400 1qu9A 128 9.15e+00 1qu9A d.79.1.1 39755 1gps 47 9.23e+00 1gpt g.3.7.5 44176 2pii 112 9.40e+00 2pii d.58.5.1 39071 1c24A 263 9.60e+00 1c24A d.127.1.1 41148 1ui0A 205 9.74e+00 c.18.1.2 -6328 1c7gA 456 9.83e+00 c.67.1.2 -8153 1nddA 76 1.11e+01 1ubi d.15.1.1 37599 1v39 322 1.21e+01 3mag c.66.1.25 34206 1jg5A 83 1.26e+01 d.205.1.1 66666 1c4kA 730 1.28e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1s3iA 310 1.29e+01 b.46.1.1 -4111 c.65.1.1 -8042 1np7A 489 1.31e+01 a.99.1.1 80677 c.28.1.1 80678 1vjoA 393 1.38e+01 c.67.1.3 -8173 1ek6A 348 1.41e+01 1xel c.2.1.2 29800 1v2xA 194 1.44e+01 c.116.1.1 -6704 1lj9A 144 1.46e+01 a.4.5.28 78035 1uj6A 227 1.49e+01 1vp9 322 1.51e+01 3mag c.66.1.25 34210 1vi6A 208 1.52e+01 c.23.15.1 -6489 1ccwA 137 1.53e+01 1be1 c.23.6.1 31238 1rvgA 305 1.53e+01 c.1.10.2 -5500 1p3wA 404 1.54e+01 c.67.1.3 87752 1gc5A 467 1.55e+01 1gc5A c.72.1.3 60429 1r0vA 305 1.61e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1m32A 366 1.61e+01 c.67.1.3 78508 1sr9A 644 1.64e+01 1ih8A 271 1.67e+01 2nsyA c.26.2.1 62377 1jztA 246 1.69e+01 c.104.1.1 63319 1npk 154 1.72e+01 1npk d.58.6.1 39099 1kz7A 353 1.74e+01 a.87.1.1 73333 b.55.1.1 73334 1tns 76 1.77e+01 1qpmA a.6.1.7 16228 1vpt 348 1.78e+01 3mag c.66.1.25 34207 8abp 306 1.80e+01 8abp c.93.1.1 35647 1pvc3 238 1.80e+01 1aym3 1pfvA 551 1.86e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1jxhA 288 1.93e+01 c.72.1.2 67415 1f4lA 551 1.93e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1tbxA 99 1.95e+01 1f46A 140 2.10e+01 1f46A d.129.4.1 59643 1ri6A 343 2.11e+01 unknown_sccs -4621 1qgiA 259 2.13e+01 1qgiA d.2.1.7 37001 1qwgA 251 2.18e+01 unknown_sccs -5678 1c1yB 77 2.19e+01 1c1yB d.15.1.5 37618 1soxA 466 2.26e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1jvnA 555 2.27e+01 c.1.2.1 67355 c.23.16.1 67356 1onxA 390 2.31e+01 b.92.1.7 87176 c.1.9.13 87177 1jnyA 435 2.32e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1p9eA 331 2.32e+01 1nx8A 273 2.43e+01 b.82.2.8 86374 1hdoA 206 2.43e+01 1he2A c.2.1.2 60965 1sdjA 310 2.47e+01 d.21.1.2 -9420 d.21.1.2 -9421 1bjt 793 2.47e+01 1bjt e.11.1.1 43249 1d4oA 184 2.52e+01 1d4oA c.31.1.4 31748 1iyxA 432 2.52e+01 c.1.11.1 83815 d.54.1.1 83816 1a9xA 1058 2.57e+01 a.92.1.1 18550 c.24.1.1 31479 c.30.1.1 31657 c.30.1.1 31658 d.142.1.2 41502 d.142.1.2 41503 1g71A 347 2.58e+01 1g71A unknown_sccs 43268 1fh9A 312 2.58e+01 1taxA c.1.8.3 28913 1k3eA 156 2.58e+01 d.198.1.1 68103 1aq0A 306 2.58e+01 1aq0A c.1.8.3 28842 1aoy 78 2.61e+01 1aoy a.4.5.3 16087 1d1gA 168 2.62e+01 1d1gA c.71.1.1 34889 1ekfA 365 2.67e+01 1ekfA e.17.1.1 59445 1kx5B 102 2.68e+01 a.22.1.1 77594 1l2lA 457 2.69e+01 c.72.1.3 77656 1hq3D 103 2.70e+01 1aoiB a.22.1.1 16464 1tzyD 103 2.70e+01 1p5jA 372 2.72e+01 1fe0A 68 2.79e+01 1cc8A d.58.17.1 39345 1avyA 74 2.80e+01 1avyB h.1.17.1 45656 1f00I 282 2.81e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1fhdA 312 2.85e+01 1taxA c.1.8.3 28915 1b5pA 385 2.86e+01 c.67.1.1 -8133 1p8kZ 254 2.87e+01 d.95.2.1 -10648 d.95.2.1 -10649 1rkqA 282 2.94e+01 c.108.1.10 -6847 1l0wA 580 2.95e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1gpmA 525 2.96e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1pkp 150 3.00e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1ukkA 142 3.00e+01 d.227.1.1 -11206 1e44B 96 3.04e+01 1e44B b.101.1.1 59220 1ktaA 365 3.05e+01 e.17.1.1 77533 1bt0A 76 3.05e+01 1ubi d.15.1.1 37607 1cs8A 316 3.07e+01 1cs8A d.3.1.1 37065 1n6zA 105 3.09e+01 unknown_sccs 85369 1pysA 350 3.20e+01 1pysA d.104.1.1 40775 1j6oA 268 3.22e+01 c.1.9.12 77088 1g5cA 170 3.23e+01 1g5cA c.53.2.1 60264 1kllA 130 3.23e+01 d.32.1.2 72720 1r7lA 110 3.25e+01 1q06A 135 3.30e+01 a.6.1.3 -375 1qgoA 264 3.34e+01 1qgoA c.92.1.2 35596 1k07A 263 3.37e+01 d.157.1.1 77218 1bjwA 382 3.38e+01 1bjwA c.67.1.1 34349 1teaA 299 3.42e+01 1q1hA 110 3.43e+01 unknown_sccs -262 1qhtA 775 3.44e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1rfs 139 3.45e+01 1rfs b.33.1.1 24434 1jdw 423 3.45e+01 1jdw d.126.1.2 41129 1lba 146 3.48e+01 1lba d.118.1.1 41062 3rubS 123 3.48e+01 1rboC d.73.1.1 39616 1gw5S 142 3.48e+01 d.110.4.2 70633 1nlnA 204 3.50e+01 d.3.1.7 -8897 1gx3A 284 3.52e+01 d.3.1.5 70678 1khyA 148 3.59e+01 a.174.1.1 77410 1skoA 143 3.67e+01 1jjeA 222 3.69e+01 1a7tA d.157.1.1 63117 1uc8A 280 3.72e+01 unknown_sccs -6718 unknown_sccs -11230 1kqpA 271 3.75e+01 c.26.2.1 72883 3chbD 104 3.76e+01 3chbD b.40.2.1 24970 1hnr 47 3.76e+01 1hnr a.155.1.1 17896 1nox 205 3.80e+01 1nox d.90.1.1 40242 1b8aA 438 3.80e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1vhqA 232 3.82e+01 c.23.16.2 -6514 1b04A 318 3.83e+01 1b04A d.142.2.2 41579 1nkiA 135 3.83e+01 d.32.1.2 -9544 1o4sA 389 3.99e+01 c.67.1.1 86620