# List of top-scoring protein chains for t04-100-30-dssp-ehl2 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 1lngA 87 1.22e-01 d.201.1.1 74045 1gefA 123 2.32e-01 1gefA c.52.1.18 60465 1peeA 180 5.46e-01 1euoA 180 5.90e-01 1np1A b.60.1.1 27163 1tiqA 180 7.14e-01 1kzfA 230 7.91e-01 d.108.1.3 73354 1j97A 211 1.11e+00 1f5sA c.108.1.4 62753 1ka9H 200 1.17e+00 c.23.16.1 77308 1l7mA 211 1.25e+00 c.108.1.4 73664 1b7yB 785 1.32e+00 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 1pm1X 180 1.39e+00 1hh1A 143 2.16e+00 1gefA c.52.1.18 61036 1gps 47 2.51e+00 1gpt g.3.7.5 44176 1lml 478 2.64e+00 1lml d.92.1.3 40295 1b8aA 438 2.73e+00 1b8aA b.40.4.1 25244 d.104.1.1 40765 1r44A 202 2.75e+00 1kl1A 419 2.78e+00 c.67.1.4 72663 1mzbA 136 3.36e+00 unknown_sccs -266 1ub0A 258 3.55e+00 c.72.1.2 88394 1ax4A 467 3.67e+00 1ax4A c.67.1.2 34391 1seiA 130 3.72e+00 1seiA d.140.1.1 41463 1acf 125 4.73e+00 3nul d.110.1.1 40882 1q1hA 110 5.04e+00 unknown_sccs -262 1flmA 122 5.04e+00 1axj b.45.1.1 25747 1ixkA 315 5.24e+00 unknown_sccs -8099 1oglA 283 5.53e+00 unknown_sccs -1512 1edg 380 6.90e+00 1edg c.1.8.3 28807 1uiuA 502 7.08e+00 c.94.1.1 -8674 1iow 306 7.20e+00 1iow c.30.1.2 31713 d.142.1.1 41481 1nbfD 76 7.90e+00 d.15.1.1 80390 1kn6A 90 7.96e+00 d.58.3.3 72770 1qipA 183 8.08e+00 1qipA d.32.1.1 38470 1lj9A 144 8.33e+00 a.4.5.28 78035 1tns 76 8.54e+00 1qpmA a.6.1.7 16228 1ooeA 236 8.57e+00 c.2.1.2 87196 1p8kZ 254 8.62e+00 d.95.2.1 -10648 d.95.2.1 -10649 1gc5A 467 9.02e+00 1gc5A c.72.1.3 60429 1h3nA 878 9.09e+00 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1c1dA 355 9.25e+00 1bw9A c.2.1.7 30270 c.58.1.1 33918 1qhtA 775 9.44e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1tbxA 99 9.48e+00 1q6cA 495 1.00e+01 c.1.8.1 -5300 1v3hA 495 1.01e+01 1fh0A 221 1.05e+01 1cs8A d.3.1.1 59832 1i1kA 309 1.09e+01 1daaA e.17.1.1 61533 3htsB 102 1.13e+01 2hts a.4.5.22 16175 1ogwA 76 1.17e+01 d.15.1.1 87001 1ubi 76 1.17e+01 1ubi d.15.1.1 37584 1byb 495 1.21e+01 1byb c.1.8.1 28790 1npk 154 1.38e+01 1npk d.58.6.1 39099 1f02T 66 1.39e+01 1f02T j.67.1.1 46360 1jfuA 186 1.39e+01 c.47.1.10 62940 1e19A 314 1.49e+01 1b7bA c.73.1.1 34967 1iyeA 309 1.49e+01 e.17.1.1 83786 1d8cA 723 1.50e+01 1d8cA c.1.13.1 29325 1l2lA 457 1.58e+01 c.72.1.3 77656 1p7tA 731 1.58e+01 c.1.13.1 -5600 1skoA 143 1.58e+01 1ui0A 205 1.63e+01 c.18.1.2 -6328 1rvgA 305 1.65e+01 c.1.10.2 -5500 1f46A 140 1.68e+01 1f46A d.129.4.1 59643 1rewA 114 1.74e+01 g.17.1.2 -12600 1jg5A 83 1.74e+01 d.205.1.1 66666 1kz7A 353 1.75e+01 a.87.1.1 73333 b.55.1.1 73334 1v2xA 194 1.76e+01 c.116.1.1 -6704 1gv3A 248 1.80e+01 a.2.11.1 70585 d.44.1.1 70586 1n13A 52 1.92e+01 d.155.1.2 85248 1hl9A 449 1.93e+01 unknown_sccs -4694 unknown_sccs -5365 1uc8A 280 2.08e+01 unknown_sccs -6718 unknown_sccs -11230 1bjt 793 2.11e+01 1bjt e.11.1.1 43249 1qu9A 128 2.17e+01 1qu9A d.79.1.1 39755 1v39 322 2.27e+01 3mag c.66.1.25 34206 1vp9 322 2.27e+01 3mag c.66.1.25 34210 1m65A 245 2.29e+01 c.6.3.1 84847 3mag 307 2.33e+01 3mag c.66.1.25 34205 1aoy 78 2.34e+01 1aoy a.4.5.3 16087 1c7gA 456 2.36e+01 c.67.1.2 -8153 1oniA 137 2.43e+01 d.79.1.1 87144 1sy3A 184 2.51e+01 1f4lA 551 2.53e+01 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1pfvA 551 2.54e+01 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1nx8A 273 2.58e+01 b.82.2.8 86374 1kamA 194 2.59e+01 c.26.1.3 72254 1khyA 148 2.59e+01 a.174.1.1 77410 1hdoA 206 2.65e+01 1he2A c.2.1.2 60965 1nm2A 317 2.82e+01 c.19.1.1 80654 d.58.23.1 80655 1r0vA 305 2.82e+01 c.52.2.1 -7572 c.52.2.1 -7573 d.75.1.1 -10344 1ukkA 142 2.87e+01 d.227.1.1 -11206 1jxhA 288 2.95e+01 c.72.1.2 67415 1vj1A 363 2.98e+01 b.35.1.2 -3728 c.2.1.1 -5752 1qwgA 251 2.98e+01 unknown_sccs -5678 1qahA 136 2.99e+01 d.79.1.1 -10377 1em8B 112 3.00e+01 unknown_sccs -6364 1sr9A 644 3.01e+01 1gsa 316 3.02e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1v5wA 343 3.06e+01 1cs8A 316 3.09e+01 1cs8A d.3.1.1 37065 1p5jA 372 3.11e+01 1erxA 184 3.20e+01 1np1A b.60.1.1 27164 1koiA 184 3.20e+01 b.60.1.1 68725 1aq0A 306 3.27e+01 1aq0A c.1.8.3 28842 1vpt 348 3.35e+01 3mag c.66.1.25 34207 1fh9A 312 3.35e+01 1taxA c.1.8.3 28913 1bj4A 470 3.40e+01 1bj4A c.67.1.4 34479 1ddwA 120 3.45e+01 1evhA b.55.1.4 27001 1dmlB 36 3.46e+01 1dmlB 1l0lA 446 3.57e+01 d.185.1.1 84482 d.185.1.1 84483 1r1tA 122 3.63e+01 1jalA 363 3.67e+01 c.37.1.8 84138 d.15.10.2 84139 1vetA 124 3.69e+01 1hw1A 239 3.75e+01 1e2xA a.4.5.6 16111 a.78.1.1 18441 1f9zA 135 3.77e+01 1qipA d.32.1.1 38484 1o5oA 221 3.78e+01 c.61.1.1 -7954 1m32A 366 3.84e+01 c.67.1.3 78508 1vi6A 208 3.85e+01 c.23.15.1 -6489 1ktaA 365 3.95e+01 e.17.1.1 77533 1kkhA 317 3.98e+01 d.14.1.5 72645 d.58.26.3 72646