# List of top-scoring protein chains for t04-100-30-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 2gwxA 267 8.88e-02 2prgA a.123.1.1 19323 1odfA 290 1.53e-01 c.37.1.6 92782 1n25A 368 3.16e-01 c.37.1.20 85264 1svmA 377 6.63e-01 2fk8A 318 7.81e-01 256bA 106 8.56e-01 256bA a.24.3.1 16539 1ireA 204 1.10e+00 d.149.1.1 76769 1ugpA 203 1.11e+00 d.149.1.1 107831 1ff9A 450 1.59e+00 1ff9A c.2.1.3,d.81.1.2 30039,39954 1z5hA 780 1.59e+00 1y6iA 233 1.81e+00 1tn4 159 1.99e+00 1ncx a.39.1.5 17248 1edg 380 2.41e+00 1edg c.1.8.3 28807 1fm9D 272 2.58e+00 2prgA a.123.1.1 19313 1e7lA 157 3.08e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1sgmA 191 3.68e+00 a.4.1.9,a.121.1.1 105537,105538 1otvA 259 4.29e+00 a.132.1.4 93526 1p4wA 99 4.35e+00 a.4.6.2 87783 2gshA 414 4.39e+00 2cosA 54 4.45e+00 1u61A 138 4.71e+00 a.149.1.1 107696 1ifyA 49 4.75e+00 a.5.2.1 71207 1oz9A 150 4.87e+00 d.92.1.15 93808 1zgyA 272 4.93e+00 1top 162 5.15e+00 1ncx a.39.1.5 17223 1pmi 440 5.26e+00 1pmi b.82.1.3 28114 1wu7A 434 5.33e+00 1ehyA 294 5.45e+00 1ehyA c.69.1.11 34693 1xwmA 217 5.51e+00 2ap1A 327 5.81e+00 1np3A 338 5.91e+00 a.100.1.2,c.2.1.6 85946,85947 2ct8A 497 5.99e+00 1pg5A 299 6.00e+00 c.78.1.1,c.78.1.1 104146,104147 2g7sA 194 6.57e+00 1ztcA 221 7.24e+00 1zkdA 387 7.31e+00 1h1dA 221 7.94e+00 c.66.1.1 83452 1ls1A 295 8.12e+00 a.24.13.1,c.37.1.10 78170,78171 1ak5 503 8.17e+00 1ak5 c.1.5.1 28639 1psrA 100 8.26e+00 1psrA a.39.1.2 17180 1yz4A 160 9.21e+00 1zchA 255 9.50e+00 1ezvC 385 9.60e+00 1be3C f.32.1.1,f.21.1.2 75833,75834 1kb9C 385 9.60e+00 f.32.1.1,f.21.1.2 77315,77316 1jipA 403 9.89e+00 a.104.1.1 66748 1pjr 724 1.00e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1zt2B 212 1.07e+01 1y10A 407 1.10e+01 1z8oA 404 1.13e+01 1gnlA 544 1.15e+01 e.26.1.1 70287 1in4A 334 1.31e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1avsA 90 1.32e+01 1cll a.39.1.5 17226 7aatA 401 1.33e+01 1ajsA c.67.1.1 34250 1l3iA 192 1.34e+01 c.66.1.22 77676 1dfoA 417 1.35e+01 1bj4A c.67.1.4 34480 1v4pA 157 1.41e+01 1vid 221 1.41e+01 1vid c.66.1.1 34178 1in6A 334 1.44e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1wkbA 810 1.46e+01 2a61A 145 1.48e+01 1on3A 523 1.53e+01 c.14.1.4,c.14.1.4 87107,87108 1wx1A 335 1.65e+01 2ng1 293 1.70e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1ri7A 171 1.74e+01 a.4.5.32,d.58.4.2 97504,97505 1b79A 119 1.81e+01 1b79A a.81.1.1 18451 1r5qA 102 1.84e+01 a.186.1.1 97103 2b8iA 77 1.84e+01 1floA 422 1.85e+01 1floA a.60.9.1,d.163.1.1 18106,42166 1wndA 495 1.86e+01 2b0oE 301 1.87e+01 1rxwA 336 1.97e+01 a.60.7.1,c.120.1.2 98059,98060 1mvwB 145 1.98e+01 i.15.1.1 79524 1wmwA 330 2.08e+01 1k3pA 426 2.14e+01 a.103.1.1 77237 1fpzA 212 2.21e+01 1fpzA c.45.1.1 59976 1rrzA 86 2.22e+01 a.7.10.1 105086 1eu1A 780 2.23e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1ir6A 424 2.24e+01 c.107.1.2 71342 1r9jA 673 2.30e+01 1me8A 503 2.30e+01 c.1.5.1 79028 1ouvA 273 2.31e+01 a.118.18.1 93570 2cp8A 54 2.40e+01 2a8aA 439 2.41e+01 1a48 306 2.47e+01 1a48 d.143.1.1 41590 1hb6A 86 2.49e+01 a.11.1.1 70959 1sz2A 332 2.51e+01 1j55A 95 2.56e+01 a.39.1.2 77078 1v4vA 376 2.63e+01 c.87.1.3 100313 2cw6A 298 2.67e+01 1gkzA 388 2.68e+01 a.29.5.1,d.122.1.4 65268,65269 2bl0C 142 2.83e+01 1k8kA 418 2.88e+01 c.55.1.1,c.55.1.1 68305,68306 1w6sB 74 2.97e+01 1wstA 417 3.02e+01 8abp 306 3.04e+01 8abp c.93.1.1 35647 2a3nA 355 3.05e+01 2gfnA 209 3.15e+01 1n4qB 377 3.16e+01 a.102.4.3 91636 1mijA 152 3.16e+01 a.4.1.1 79150 1qo7A 394 3.19e+01 1qo7A c.69.1.11 34697 1v1aA 309 3.20e+01 c.72.1.1 100249 1r9dA 787 3.22e+01 c.7.1.1 104865 1p5sA 203 3.23e+01 a.40.1.1 94147 1j33A 335 3.24e+01 c.39.1.1 77069 1yy7A 213 3.24e+01 1nynA 131 3.26e+01 d.235.1.1 86410 1obbA 480 3.27e+01 c.2.1.5,d.162.1.2 86760,86761 1j1qA 261 3.32e+01 d.165.1.1 90768 1h5wA 309 3.34e+01 e.27.1.1 65635 1gw5S 142 3.37e+01 d.110.4.2 70633 6gsvA 217 3.38e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1unkA 87 3.41e+01 1cei a.28.2.1 16935 1rr7A 129 3.55e+01 a.4.1.14 105075 1i9sA 210 3.56e+01 1i9sA c.45.1.1 62099 1hssA 124 3.57e+01 1bea a.52.1.2 17819 1v7wA 807 3.64e+01 a.102.1.4,b.30.5.3 108411,108412 1cei 94 3.66e+01 1cei a.28.2.1 16939 1f4lA 551 3.67e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1oahA 519 3.69e+01 a.138.1.3 86736 2fkiA 126 3.78e+01 1ckmA 330 3.79e+01 1ckmA b.40.4.6,d.142.2.3 25358,41585 1p80A 753 3.79e+01 c.23.16.3,e.5.1.1 94337,94338 1gc0A 398 3.83e+01 c.67.1.3 70168 1gsoA 431 3.84e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1j5wA 298 3.87e+01 d.104.1.1 71589 1gweA 503 3.91e+01 e.5.1.1 70667 1e5eA 404 3.92e+01 1ibjA c.67.1.3 59265 1tqmA 282 3.98e+01 a.4.5.56,d.144.1.9 107236,107237 1sszA 34 3.99e+01 j.35.1.1 105999 1cf9A 753 3.99e+01 1cf9A c.23.16.3,e.5.1.1 31441,42815 1y6zA 263 4.00e+01 1evuA 731 4.03e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1oe4A 247 4.05e+01 c.18.1.3 86895 1ex0A 731 4.11e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 2ck3A 510 4.17e+01 1h16A 759 4.18e+01 c.7.1.1 76462 1rcwA 231 4.20e+01 a.132.1.4 97299 3rabA 169 4.20e+01 1ctqA c.37.1.8 32018 1ys1X 320 4.22e+01 1hbzA 498 4.23e+01 1cf9A e.5.1.1 60937 1cm5A 759 4.24e+01 1cm5A c.7.1.1 30671 1e79A 510 4.26e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1dd9A 338 4.27e+01 1dd9A e.13.1.1 43254 1k9uA 78 4.31e+01 a.39.1.10 84348 1ypyA 184 4.34e+01 1xm3A 264 4.39e+01 1ijgA 309 4.45e+01 1fouA e.27.1.1 62493 1owcA 427 4.47e+01 a.103.1.1 104039 2bfdA 400 4.51e+01 1dzaA 129 4.56e+01 7rsa d.5.1.1 37275 1z2wA 192 4.63e+01 1uc7A 125 4.65e+01 c.47.1.1 99163 1vg5A 73 4.69e+01 2a97A 439 4.73e+01 2bzlA 325 4.79e+01 1q7zA 566 4.79e+01 c.1.21.2,c.1.26.1 96090,96091 1g7oA 215 4.84e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1m7jA 484 4.88e+01 b.92.1.6,b.92.1.6,c.1.9.11 78732,78733,78734 1eupA 403 4.90e+01 1rom a.104.1.1 18967 1j7nA 776 4.93e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 5abp 306 4.99e+01 8abp c.93.1.1 35651 1keaA 221 4.99e+01 a.96.1.2 68491 2au3A 407 5.00e+01 2fcjA 119 5.01e+01 1gx5A 536 5.02e+01 e.8.1.4 70682 1svy 114 5.03e+01 1svy d.109.1.1 40831 2c46A 241 5.05e+01 1hp1A 516 5.18e+01 d.114.1.1,d.159.1.2 70976,70977 1jsxA 207 5.20e+01 c.66.1.20 71846 1ush 550 5.23e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1c44A 123 5.24e+01 1qndA d.106.1.1 40795 1eljA 381 5.24e+01 4mbp c.94.1.1 35791 1gln 468 5.25e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1zarA 282 5.27e+01 1qtrA 317 5.28e+01 1qtrA c.69.1.7 34660 1jogA 146 5.30e+01 a.24.16.2 77142 3proC 166 5.32e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1r6rA 100 5.34e+01 a.190.1.1 97158 1auiB 169 5.39e+01 1auiB a.39.1.5 17325 1v71A 323 5.40e+01 1uwcA 261 5.45e+01 c.69.1.17 100101 1h8eA 510 5.47e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1oksA 56 5.49e+01 a.8.5.1 93271 1z2aA 168 5.57e+01 1j8uA 325 5.62e+01 d.178.1.1 71611 1t3wA 148 5.63e+01 1pfvA 551 5.68e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1xouB 95 5.69e+01 1q18A 332 5.89e+01 c.55.1.7,c.55.1.7 104470,104471 4pah 308 5.90e+01 4pah d.178.1.1 42576 2bc2A 227 5.90e+01 1a7tA d.157.1.1 42031 1w0bA 102 5.94e+01 a.7.11.1 108985 1v64A 108 5.98e+01 a.21.1.1 108392 1v54B 227 5.99e+01 b.6.1.2,f.17.2.1 100322,100323 1q8cA 151 5.99e+01 a.79.1.2 96202 2d09A 407 6.06e+01 1ly1A 181 6.09e+01 c.37.1.1 74334 1fp2A 352 6.14e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1fl1A 230 6.22e+01 1at3A b.57.1.1 27023 1k66A 149 6.22e+01 c.23.1.1 90941 1jfzA 154 6.25e+01 a.149.1.1 66655 1mqoA 227 6.28e+01 d.157.1.1 103846 1bqbA 301 6.37e+01 1hyt d.92.1.2 58962 1pmzA 86 6.38e+01 a.39.1.10 104195 1ctj 89 6.40e+01 1ctj a.3.1.1 15798 1wu3I 161 6.41e+01 1pd21 199 6.42e+01 1pd21 2aa4A 289 6.46e+01 2f6mB 109 6.49e+01 1z7uA 112 6.49e+01 1fjgD 209 6.56e+01 1c05A d.66.1.2 39553 1ei6A 406 6.58e+01 c.76.1.4 90443 1di0A 158 6.64e+01 1di0A c.16.1.1 30957 1vizA 240 6.67e+01 c.1.4.1 100784 1jb0I 38 6.69e+01 1jb0I f.23.17.1 62826 1rk6A 496 6.69e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1b8gA 429 6.71e+01 1b8gA c.67.1.4 34499 1cuk 203 6.74e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1ztsA 139 6.80e+01 1w24A 182 6.89e+01 1k6kA 143 6.93e+01 a.174.1.1 77274 1yg2A 179 7.06e+01 1yfsA 465 7.08e+01 1c7sA 858 7.11e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1v54G 85 7.11e+01 f.23.2.1 100328 1zpyA 95 7.13e+01 1xn8A 131 7.15e+01 1ihbA 162 7.19e+01 1bd8 d.211.1.1 19161 1y01A 102 7.21e+01 2a3qA 170 7.22e+01 1obdA 306 7.23e+01 d.143.1.1 86767 1ohzB 60 7.23e+01 a.139.1.1 93044 1qhqA 140 7.27e+01 1qhqA b.6.1.1 63326 1ve0A 134 7.31e+01 1zczA 464 7.33e+01 1j6rA 214 7.38e+01 d.173.1.2 71598 1yarA 233 7.39e+01 1g4wR 383 7.42e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1ynuA 473 7.53e+01 1uhnA 189 7.59e+01 a.39.1.5 99399 1v1rA 400 7.63e+01 c.36.1.11 108272 1w2xA 758 7.64e+01 c.14.1.4,c.14.1.4 109134,109135 1lmb3 92 7.67e+01 1lmb3 1enh 54 7.67e+01 2hddA a.4.1.1 15973 1jjfA 268 7.70e+01 c.69.1.2 66765 1rzrA 332 7.71e+01 1f66C 128 7.72e+01 1aoiC a.22.1.1 16442 1jfbA 404 7.74e+01 a.104.1.1 66624 1ltqA 301 7.75e+01 c.108.1.9,c.37.1.1 78208,78209 1xs5A 241 7.89e+01 2bjhA 260 7.91e+01 1rfyA 102 7.91e+01 1j97A 211 7.96e+01 1f5sA c.108.1.4 62753 2fbnA 198 7.97e+01 1m7yA 435 7.97e+01 c.67.1.4 78761 1vhtA 218 8.02e+01 c.37.1.1 100700 1np7A 489 8.03e+01 a.99.1.1,c.28.1.1 80677,80678 1lox 662 8.11e+01 1lox a.119.1.2,b.12.1.1 19238,23638 2fpqA 444 8.12e+01 2bg9A 370 8.24e+01 1l7mA 211 8.24e+01 c.108.1.4 73664 1t3uA 104 8.25e+01 d.244.1.1 99120 2fbwA 621 8.25e+01 1wgxA 73 8.31e+01 2gsq 202 8.33e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1wp1A 474 8.34e+01 1qfxA 460 8.35e+01 1qfxA c.60.1.2 33994 1apyB 141 8.38e+01 1apyB 1te5A 257 8.45e+01 d.153.1.1 106795 1e0eA 55 8.49e+01 1wjcA a.4.10.1 59147 1ddf 127 8.50e+01 1ddf a.77.1.2 18423 1w3iA 293 8.50e+01 c.1.10.1 109152 2f8xM 63 8.53e+01 1mrg 263 8.54e+01 1mrj d.165.1.1 42183 1v7oA 165 8.54e+01 d.67.1.2 100480 1j2jB 45 8.55e+01 a.7.8.1 84017 1x9zA 188 8.55e+01 1riqA 465 8.56e+01 a.203.1.1,d.104.1.1 97516,97517 1jk0B 345 8.61e+01 a.25.1.2 63143 1lehA 364 8.63e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1rxqA 178 8.75e+01 a.213.1.1 105118 1l1qA 186 8.75e+01 c.61.1.1 77653 1ygmA 118 8.77e+01 1pbyA 489 8.81e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 2occG 84 8.83e+01 2occG f.23.2.1 43522 1rqtA 37 8.91e+01 a.108.1.1 97771 2hddA 61 8.94e+01 2hddA a.4.1.1 15971 1jr7A 311 8.95e+01 b.82.2.3 63255 2f4mA 295 8.96e+01