# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1rz1A 161 3.82e-26 b.45.1.2 -4088 1ejeA 192 5.62e-24 1ejeA b.45.1.2 25757 1uscA 178 3.81e-23 b.45.1.2 -4074 1i0sA 169 3.25e-21 1i0rA b.45.1.2 61491 1i0rA 169 4.77e-21 1i0rA b.45.1.2 61489 1ubeA 349 1.22e-01 c.37.1.11 88412 d.48.1.1 88413 1ytw 306 1.28e-01 1ytw c.45.1.2 32689 1gmlA 178 1.68e-01 c.8.5.2 70273 1jnyA 435 3.10e-01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1br9 194 3.78e-01 1br9 b.40.3.1 25235 1lyvA 306 3.91e-01 c.45.1.2 74348 1pxvA 183 4.75e-01 d.3.1.1 -8881 1krhA 338 5.24e-01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1jb3A 131 5.51e-01 1jc7A b.40.3.2 62833 1s0uA 408 5.80e-01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 2reb 352 5.96e-01 2reb c.37.1.11 32282 d.48.1.1 38767 1ass 159 6.33e-01 1a6dA c.8.5.2 30818 1p0kA 349 9.26e-01 c.1.4.1 87648 1miuA 738 9.52e-01 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1eulA 994 1.10e+00 1eulA 1i1qA 520 1.35e+00 1qdlA d.161.1.1 61543 1su4A 994 1.40e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1kzlA 208 1.47e+00 b.43.4.3 77635 b.43.4.3 77636 1cr1A 296 1.60e+00 1cr1A c.37.1.11 32286 1pswA 348 1.89e+00 c.87.1.7 88287 1exmA 405 2.05e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 2shpA 525 2.36e+00 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1s7jA 262 2.85e+00 d.21.1.2 -9424 1iukA 140 2.86e+00 c.2.1.8 83712 1fl2A 310 3.14e+00 1hyuA c.3.1.5 59869 c.3.1.5 59870 1ks9A 291 3.17e+00 a.100.1.7 68857 c.2.1.6 68858 2dnjA 260 3.19e+00 3dni d.151.1.1 41790 1igs 248 3.26e+00 1a53 c.1.2.4 28565 1iq6A 134 3.49e+00 d.38.1.4 76755 1a53 247 3.84e+00 1a53 c.1.2.4 28564 1ha3A 405 3.86e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1rxxA 421 4.07e+00 unknown_sccs -10982 1g4wR 383 4.24e+00 1g4uS a.24.11.1 16644 c.45.1.2 32692 1h6hA 143 5.29e+00 d.189.1.1 65681 1jofA 365 5.91e+00 b.69.10.1 71775 1dar 691 6.09e+00 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1lk9A 448 6.32e+00 c.67.1.1 78057 1ivg 388 6.47e+00 2qwc b.68.1.1 27578 1tufA 434 7.04e+00 1epwA 1290 7.20e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1qmvA 197 7.25e+00 1qq2A c.47.1.10 33066 1p6oA 161 7.66e+00 c.97.1.2 -8774 1twiA 434 7.90e+00 1io2A 213 8.05e+00 1ekeA c.55.3.1 62612 1fljA 260 8.07e+00 2cba b.74.1.1 27954 1quqB 121 8.24e+00 1quqB b.40.4.3 25305 1vybA 238 8.77e+00 1d2eA 397 8.89e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1r89A 437 9.02e+00 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1whi 122 9.15e+00 1whi b.39.1.1 24810 1hxxA 340 9.28e+00 2omf f.4.3.1 61385 2omf 340 9.44e+00 2omf f.4.3.1 43749 1jalA 363 9.46e+00 c.37.1.8 84138 d.15.10.2 84139 1lc0A 294 9.77e+00 c.2.1.3 73823 d.81.1.4 73824 1sr4B 261 9.87e+00 3dni 260 9.91e+00 3dni d.151.1.1 41791 1ogpA 393 1.03e+01 b.1.18.6 -2744 d.176.1.1 -11708 1lugA 259 1.07e+01 b.74.1.1 -4726 1ppjA 446 1.07e+01 1kk1A 410 1.12e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1p35A 299 1.13e+01 1p35A b.28.1.1 23925 1qc5A 192 1.14e+01 1aoxA c.62.1.1 34147 1l0lA 446 1.16e+01 d.185.1.1 84482 d.185.1.1 84483 1qhtA 775 1.18e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1pt6A 213 1.19e+01 c.62.1.1 -7975 1f60A 458 1.21e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1sqgA 429 1.23e+01 1nqcA 217 1.25e+01 d.3.1.1 86024 1g7sA 594 1.28e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1qw2A 102 1.28e+01 unknown_sccs -9601 1pxfA 111 1.29e+01 b.40.4.4 88341 1rcqA 357 1.39e+01 1nnwA 252 1.40e+01 d.159.1.5 80674 1mg7A 417 1.41e+01 d.14.1.6 84954 d.58.26.6 84955 1fhgA 154 1.41e+01 1tlk b.1.1.4 21706 1b8aA 438 1.44e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1b6a 478 1.49e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1vpsA 289 1.50e+01 1vpsA b.121.6.1 23336 1tlk 154 1.51e+01 1tlk b.1.1.4 21707 1ri6A 343 1.57e+01 unknown_sccs -4621 1v5xA 203 1.59e+01 c.1.2.4 -5169 1f7lA 121 1.62e+01 1f7lA d.150.1.2 59666 1qqp2 218 1.67e+01 1qqp2 1mx3A 347 1.68e+01 c.2.1.4 79638 c.23.12.1 79639 1qhfA 240 1.71e+01 1qhfA c.60.1.1 33960 1aohA 147 1.73e+01 1aohA b.2.2.2 22401 2fcbA 173 1.75e+01 2fcbA b.1.1.4 21781 b.1.1.4 21782 1ptvA 321 1.83e+01 1pty c.45.1.2 32665 1jdpA 441 1.89e+01 c.93.1.1 62906 1n3yA 198 1.97e+01 c.62.1.1 79976 1bkb 136 1.97e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1fthA 122 2.01e+01 d.150.1.2 60028 1l0wA 580 2.07e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1gx3A 284 2.09e+01 d.3.1.5 70678 1larA 575 2.16e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1n0uA 842 2.18e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1ltlA 279 2.24e+01 b.40.4.11 84701 1umgA 362 2.25e+01 1senA 164 2.25e+01 1pa1A 310 2.34e+01 c.45.1.2 -7332 1oxsC 353 2.37e+01 b.40.6.3 87519 c.37.1.12 87520 1i8dA 213 2.41e+01 b.43.4.3 61953 b.43.4.3 61954 1rfzA 168 2.46e+01 unknown_sccs -1206 1fbnA 230 2.50e+01 1fbnA c.66.1.3 34181 1mr3F 181 2.51e+01 c.37.1.8 79422 1eu8A 409 2.52e+01 1eu8A c.94.1.1 59502 1fr7A 260 2.53e+01 2cba b.74.1.1 27828 1khdA 345 2.57e+01 a.46.2.1 77400 c.27.1.1 77401 1oxxK 353 2.57e+01 b.40.6.3 -3969 c.37.1.12 -7187 1kcvH 217 2.58e+01 b.1.1.1 72315 b.1.1.2 72316 2pgd 482 2.60e+01 2pgd a.100.1.1 18778 c.2.1.6 30190 1gcuA 295 2.68e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1pfo 500 2.68e+01 1pfo f.9.1.1 43826 1atzA 189 2.70e+01 1atzA c.62.1.1 34132 4dpvZ 584 2.77e+01 2cas b.121.5.2 23377 1budA 197 2.77e+01 1atlA d.92.1.9 40328 1gx5A 536 2.85e+01 e.8.1.4 70682 1b1cA 181 2.92e+01 1amoA c.23.5.2 31212 1g8sA 230 2.95e+01 c.66.1.3 -8047 1h09A 338 3.16e+01 b.109.1.1 83420 c.1.8.8 83421 1sfsA 240 3.24e+01 c.1.8.8 -5407 2cba 260 3.28e+01 2cba b.74.1.1 27821 1g291 372 3.30e+01 1g291 1qovH 260 3.32e+01 6prcH b.41.1.1 25464 f.23.10.1 43457 1fm2B 520 3.47e+01 1fm2B 1ne2A 200 3.48e+01 c.66.1.32 85586 1me8A 503 3.56e+01 c.1.5.1 79028 1r61A 207 3.60e+01 unknown_sccs -6086 1l3iA 192 3.63e+01 c.66.1.22 77676 1f2aA 215 3.64e+01 1cs8A d.3.1.1 37040 1fwkA 296 3.77e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1gd7A 109 3.77e+01 b.40.4.4 60441 1vavA 222 3.77e+01 1mw7A 240 3.99e+01 e.39.1.1 79557