# List of top-scoring protein chains for t04-100-30-str2 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 1.27e-29 b.45.1.2 -4088 1ejeA 192 1.52e-26 1ejeA b.45.1.2 25757 1uscA 178 1.98e-24 b.45.1.2 -4074 1i0rA 169 1.34e-23 1i0rA b.45.1.2 61489 1i0sA 169 1.34e-23 1i0rA b.45.1.2 61491 1d1gA 168 1.38e-02 1d1gA c.71.1.1 34889 1ytw 306 1.67e-01 1ytw c.45.1.2 32689 1krhA 338 1.74e-01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1rxxA 421 1.75e-01 unknown_sccs -10982 1lyvA 306 2.68e-01 c.45.1.2 74348 1fhgA 154 2.76e-01 1tlk b.1.1.4 21706 1tlk 154 2.98e-01 1tlk b.1.1.4 21707 1p6oA 161 5.71e-01 c.97.1.2 -8774 1t62A 166 7.56e-01 1br9 194 8.27e-01 1br9 b.40.3.1 25235 2shpA 525 9.61e-01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1v5xA 203 1.03e+00 c.1.2.4 -5169 1nb8A 353 1.12e+00 d.3.1.9 80385 1p0kA 349 1.28e+00 c.1.4.1 87648 1gmlA 178 1.49e+00 c.8.5.2 70273 1jb3A 131 1.50e+00 1jc7A b.40.3.2 62833 1i58A 189 1.56e+00 1b3qA d.122.1.3 61773 1pda 315 1.63e+00 1pda c.94.1.1 35751 d.50.2.1 38794 1vcaA 202 1.66e+00 1vcaA b.1.1.3 21649 b.1.1.4 21685 1h6hA 143 1.72e+00 d.189.1.1 65681 1ne2A 200 2.02e+00 c.66.1.32 85586 1ggxA 223 2.11e+00 1ggxA d.22.1.1 38367 1fxxA 482 2.43e+00 1fxxA c.55.3.5 33726 1nbfA 353 2.52e+00 d.3.1.9 80387 1f7lA 121 2.56e+00 1f7lA d.150.1.2 59666 1ubeA 349 2.57e+00 c.37.1.11 88412 d.48.1.1 88413 1gtkA 313 2.62e+00 c.94.1.1 76346 d.50.2.1 76347 1ass 159 2.66e+00 1a6dA c.8.5.2 30818 1fthA 122 2.90e+00 d.150.1.2 60028 1p9oA 313 2.99e+00 unknown_sccs -8423 1r6xA 395 3.22e+00 b.122.1.3 -5125 c.26.1.5 -6620 1s9rA 410 3.35e+00 unknown_sccs -10989 1larA 575 3.37e+00 1larA c.45.1.2 32693 c.45.1.2 32694 1flmA 122 3.56e+00 1axj b.45.1.1 25747 1jlnA 297 3.83e+00 1pty c.45.1.2 63172 1uhvA 500 3.91e+00 b.71.1.2 -4683 c.1.8.3 -5354 1g8fA 511 4.06e+00 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1jdw 423 4.52e+00 1jdw d.126.1.2 41129 1epwA 1290 4.70e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1kzlA 208 4.99e+00 b.43.4.3 77635 b.43.4.3 77636 1dcfA 136 5.00e+00 1dcfA c.23.1.2 31124 2reb 352 5.13e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1ivg 388 5.22e+00 2qwc b.68.1.1 27578 1qhfA 240 5.34e+00 1qhfA c.60.1.1 33960 1fc6A 388 5.70e+00 1fc6A b.36.1.3 64738 c.14.1.2 64739 1zpdA 568 5.97e+00 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1o5kA 306 6.08e+00 c.1.10.1 -5482 1twiA 434 6.26e+00 1i3cA 149 6.26e+00 c.23.1.1 71112 1rcqA 357 6.41e+00 1kkcA 221 6.45e+00 a.2.11.1 68660 d.44.1.1 68661 1eqjA 511 6.49e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1smvA 260 6.70e+00 1smvA b.121.4.7 23288 1k9sA 237 7.26e+00 c.56.2.1 68359 1o98A 511 7.72e+00 c.105.1.1 86684 c.76.1.3 86685 1tufA 434 8.02e+00 1qw2A 102 8.48e+00 unknown_sccs -9601 1ecpA 238 8.75e+00 1ecpA c.56.2.1 33775 1pswA 348 9.12e+00 c.87.1.7 88287 1zxq 192 9.26e+00 1zxq b.1.1.3 21657 b.1.1.4 21693 1vavA 222 9.28e+00 1fjgL 135 1.02e+01 1fjfL b.40.4.5 25346 1n0uA 842 1.05e+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 2dnjA 260 1.09e+01 3dni d.151.1.1 41790 1tvlA 454 1.15e+01 1nktA 922 1.16e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1o22A 170 1.20e+01 d.238.1.1 86557 1hywA 68 1.23e+01 1hywA d.186.1.1 61425 1ri5A 298 1.27e+01 unknown_sccs -8063 1gt6A 269 1.28e+01 c.69.1.17 76342 1vjuA 309 1.29e+01 unknown_sccs -9594 1bkb 136 1.31e+01 1bkb b.34.5.2 24609 b.40.4.5 25341 1g7sA 594 1.32e+01 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1vi1A 345 1.33e+01 unknown_sccs -8466 1e79D 482 1.34e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1l0wA 580 1.35e+01 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1h8eD 482 1.39e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1pxfA 111 1.39e+01 b.40.4.4 88341 1vkdA 338 1.49e+01 1h09A 338 1.53e+01 b.109.1.1 83420 c.1.8.8 83421 1izcA 339 1.60e+01 c.1.12.5 83838 1stfI 98 1.62e+01 1stfI d.17.1.2 38006 1iq6A 134 1.73e+01 d.38.1.4 76755 1whi 122 1.77e+01 1whi b.39.1.1 24810 1jofA 365 1.78e+01 b.69.10.1 71775 1dxy 333 1.85e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1hruA 188 1.88e+01 1hruA d.115.1.1 40926 1kk1A 410 1.99e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1evfA 264 1.99e+01 1bkpA d.117.1.1 40932 1nytA 271 2.03e+01 c.2.1.7 86417 c.58.1.5 86418 1sr4B 261 2.05e+01 1nrkA 328 2.05e+01 unknown_sccs -4071 unknown_sccs -10176 1k6dA 220 2.14e+01 unknown_sccs 72082 1sluA 142 2.18e+01 1sluA b.16.1.1 23685 1v2bA 177 2.19e+01 1tvfA 369 2.20e+01 1aohA 147 2.22e+01 1aohA b.2.2.2 22401 1di2A 69 2.32e+01 1di2A d.50.1.1 38780 1e58A 249 2.33e+01 1qhfA c.60.1.1 59262 1cqkA 101 2.38e+01 1cqkA b.1.1.2 21547 1ou8A 111 2.42e+01 unknown_sccs -3799 1mkp 144 2.59e+01 1vhrA c.45.1.1 32654 1qfjA 232 2.62e+01 1qfjA b.43.4.2 25655 c.25.1.1 31545 1cydA 244 2.66e+01 1cydA c.2.1.2 29825 1pa1A 310 2.67e+01 c.45.1.2 -7332 1budA 197 2.69e+01 1atlA d.92.1.9 40328 1eulA 994 2.72e+01 1eulA 1gmxA 108 2.73e+01 c.46.1.3 65355 1qhtA 775 2.74e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1louA 101 2.85e+01 1ris d.58.14.1 39323 1iakA 199 2.90e+01 1iakA b.1.1.2 21625 d.19.1.1 38199 1igs 248 2.94e+01 1a53 c.1.2.4 28565 1o4vA 183 2.96e+01 c.23.8.1 86628 1k3eA 156 2.99e+01 d.198.1.1 68103 1g4wR 383 3.02e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1a53 247 3.06e+01 1a53 c.1.2.4 28564 1havA 217 3.11e+01 1havA b.47.1.4 26423 1o13A 136 3.12e+01 c.55.5.1 80762 1mg7A 417 3.13e+01 d.14.1.6 84954 d.58.26.6 84955 1i8kA 107 3.16e+01 b.1.1.1 71130 1pxvA 183 3.18e+01 d.3.1.1 -8881 1njhA 119 3.23e+01 b.128.1.1 85787 1ptvA 321 3.25e+01 1pty c.45.1.2 32665 1mkyA 439 3.29e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1b8aA 438 3.29e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1lswA 131 3.31e+01 d.110.3.2 78181 1a8h 500 3.36e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1jnyA 435 3.38e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1cr5A 189 3.40e+01 1cr5A b.52.2.3 26931 d.31.1.1 38465 1qfgA 725 3.46e+01 1by5A f.4.3.3 43803 1pcfA 66 3.49e+01 1pcfA d.18.1.1 38142 1q8iA 783 3.53e+01 c.55.3.5 -7635 e.8.1.1 -11885 1o2dA 371 3.55e+01 e.22.1.2 86591 1quqB 121 3.72e+01 1quqB b.40.4.3 25305 2mprA 421 3.78e+01 2mprA f.4.3.2 43788 1wm1A 317 3.79e+01 3dni 260 3.82e+01 3dni d.151.1.1 41791 1miuA 738 3.92e+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 1b1cA 181 3.93e+01 1amoA c.23.5.2 31212 1m6eX 359 3.94e+01 unknown_sccs -8071