# List of top-scoring protein chains for t06-100-30-str2-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 1t1uA 639 4.81e-02 2db0A 253 1.05e-01 1svmA 377 1.16e-01 1ugpA 203 1.46e-01 d.149.1.1 107831 256bA 106 1.90e-01 256bA a.24.3.1 16539 1h1dA 221 1.91e-01 c.66.1.1 83452 1e7lA 157 2.08e-01 1en7A a.140.4.1,d.4.1.5 64728,64729 2gshA 414 2.21e-01 1zgyA 272 3.72e-01 1ff9A 450 3.85e-01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1xwmA 217 5.86e-01 1odfA 290 7.04e-01 c.37.1.6 92782 1fpzA 212 7.85e-01 1fpzA c.45.1.1 59976 1z5hA 780 7.98e-01 1pcfA 66 9.53e-01 1pcfA d.18.1.1 38142 1l7mA 211 1.30e+00 c.108.1.4 73664 1pmi 440 1.35e+00 1pmi b.82.1.3 28114 1wvfA 520 1.46e+00 2ap1A 327 1.49e+00 1u61A 138 1.57e+00 a.149.1.1 107696 1pfvA 551 1.83e+00 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1me8A 503 1.85e+00 c.1.5.1 79028 1np3A 338 2.05e+00 a.100.1.2,c.2.1.6 85946,85947 1zczA 464 2.08e+00 2cosA 54 2.20e+00 1n4qB 377 2.22e+00 a.102.4.3 91636 2fk8A 318 2.58e+00 2a97A 439 2.61e+00 1edg 380 2.62e+00 1edg c.1.8.3 28807 1vefA 395 2.73e+00 1rcwA 231 2.80e+00 a.132.1.4 97299 1gpmA 525 2.96e+00 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 2czvC 120 3.01e+00 2b0oE 301 3.09e+00 1psrA 100 3.15e+00 1psrA a.39.1.2 17180 1jmsA 381 3.48e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1dzkA 157 3.67e+00 1obpA b.60.1.1 27096 1yz4A 160 3.69e+00 1jfzA 154 4.34e+00 a.149.1.1 66655 1h16A 759 4.41e+00 c.7.1.1 76462 1wmwA 330 4.49e+00 1auiB 169 4.55e+00 1auiB a.39.1.5 17325 1tkkA 366 4.70e+00 c.1.11.2,d.54.1.1 107089,107090 1oe4A 247 4.85e+00 c.18.1.3 86895 1xm3A 264 5.24e+00 1ir6A 424 5.26e+00 c.107.1.2 71342 1avsA 90 5.28e+00 1cll a.39.1.5 17226 1wkbA 810 5.31e+00 1zkdA 387 5.46e+00 1tr8A 102 5.64e+00 1sz2A 332 5.72e+00 1ei6A 406 5.74e+00 c.76.1.4 90443 1otvA 259 5.97e+00 a.132.1.4 93526 2gsq 202 6.01e+00 1pd21 a.45.1.1,c.47.1.5 17715,33009 1rrzA 86 6.09e+00 a.7.10.1 105086 1oz9A 150 6.17e+00 d.92.1.15 93808 1w6sB 74 6.25e+00 1tzzA 392 6.38e+00 1te5A 257 6.52e+00 d.153.1.1 106795 1j55A 95 6.54e+00 a.39.1.2 77078 1twyA 290 6.79e+00 2ck3A 510 6.93e+00 1mqoA 227 7.20e+00 d.157.1.1 103846 2gb7A 305 7.25e+00 2gfnA 209 7.38e+00 1m0kA 262 7.46e+00 f.13.1.1 78344 1v4pA 157 7.80e+00 1unkA 87 7.97e+00 1cei a.28.2.1 16935 1z8oA 404 8.15e+00 1b79A 119 8.26e+00 1b79A a.81.1.1 18451 1wstA 417 8.35e+00 2a3qA 170 8.42e+00 1on3A 523 8.43e+00 c.14.1.4,c.14.1.4 87107,87108 1wu7A 434 8.81e+00 1ygmA 118 8.84e+00 1jk0B 345 8.97e+00 a.25.1.2 63143 1h5wA 309 9.13e+00 e.27.1.1 65635 1pmzA 86 9.17e+00 a.39.1.10 104195 1hp1A 516 9.38e+00 d.114.1.1,d.159.1.2 70976,70977 1eu1A 780 9.54e+00 1dmr b.52.2.2,c.81.1.1 26903,35311 1ls1A 295 9.54e+00 a.24.13.1,c.37.1.10 78170,78171 1in4A 334 9.68e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 2f6mB 109 9.73e+00 1r9dA 787 9.77e+00 c.7.1.1 104865 1q74A 303 1.00e+01 c.134.1.1 96019 2fcjA 119 1.01e+01 1wx1A 335 1.03e+01 1zpyA 95 1.06e+01 2cp8A 54 1.10e+01 1in6A 334 1.10e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1ulyA 192 1.17e+01 1zchA 255 1.19e+01 1sgmA 191 1.20e+01 a.4.1.9,a.121.1.1 105537,105538 1hssA 124 1.26e+01 1bea a.52.1.2 17819 1rvkA 382 1.26e+01 c.1.11.2,d.54.1.1 97928,97929 1exrA 148 1.27e+01 1cll a.39.1.5 17299 1zxfA 155 1.29e+01 1yfsA 465 1.30e+01 1ddgA 374 1.32e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 1rk6A 496 1.35e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 1hb6A 86 1.39e+01 a.11.1.1 70959 1ehyA 294 1.40e+01 1ehyA c.69.1.11 34693 1r9jA 673 1.41e+01 1uc7A 125 1.43e+01 c.47.1.1 99163 1vrmA 325 1.50e+01 1wiwA 290 1.51e+01 1j1qA 261 1.51e+01 d.165.1.1 90768 1jogA 146 1.56e+01 a.24.16.2 77142 1oksA 56 1.58e+01 a.8.5.1 93271 7aatA 401 1.61e+01 1ajsA c.67.1.1 34250 1m0uA 249 1.64e+01 a.45.1.1,c.47.1.5 78359,78360 1fpoA 171 1.64e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2gpiA 91 1.65e+01 1p5tA 127 1.67e+01 b.55.1.2 94148 1rtwA 220 1.68e+01 a.132.1.3 97823 1nynA 131 1.72e+01 d.235.1.1 86410 1rfyA 102 1.73e+01 1rqtA 37 1.75e+01 a.108.1.1 97771 1a6s 87 1.80e+01 1a6s a.61.1.4 18134 1y10A 407 1.80e+01 2fpqA 444 1.81e+01 1iruK 201 1.81e+01 d.153.1.4 71362 1dm5A 315 1.82e+01 1avc a.65.1.1 18186 1vg8A 207 1.83e+01 c.37.1.8 108606 1h8eA 510 1.84e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1c44A 123 1.85e+01 1qndA d.106.1.1 40795 1iv3A 152 1.85e+01 d.79.5.1 76828 2bl0C 142 1.86e+01 1jg1A 235 1.86e+01 c.66.1.7 66661 2fkiA 126 1.87e+01 1wgxA 73 1.88e+01 1j5wA 298 1.88e+01 d.104.1.1 71589 2bo3A 94 1.97e+01 1lr7A 74 2.05e+01 g.3.11.3,g.68.1.1 84679,84680 1lla 628 2.06e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1h9mA 145 2.08e+01 1h9jA b.40.6.2,b.40.6.2 60833,60834 1pjr 724 2.09e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1o26A 232 2.11e+01 d.207.1.1 86566 1g8iA 190 2.12e+01 1rec a.39.1.5 60363 1ois 223 2.13e+01 1a36A e.15.1.1 43267 1ctj 89 2.16e+01 1ctj a.3.1.1 15798 1dkzA 219 2.21e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1lfkA 398 2.28e+01 a.104.1.1 77926 1gnwA 211 2.28e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 2fwhA 134 2.31e+01 1jb0I 38 2.33e+01 1jb0I f.23.17.1 62826 1x9zA 188 2.36e+01 1gnlA 544 2.37e+01 e.26.1.1 70287 1k8kA 418 2.39e+01 c.55.1.1,c.55.1.1 68305,68306 2axiA 115 2.39e+01 2rslA 140 2.42e+01 2rslA c.53.1.1 33345 2f7tA 227 2.49e+01 1k9uA 78 2.52e+01 a.39.1.10 84348 1p2xA 159 2.58e+01 a.40.1.1 104062 2iu5A 195 2.58e+01 2bdeA 470 2.58e+01 2bjfA 329 2.59e+01 2fbnA 198 2.61e+01 1dd9A 338 2.64e+01 1dd9A e.13.1.1 43254 1d3yA 301 2.65e+01 1d3yA e.12.1.1 43252 1a3aA 148 2.66e+01 1a3aA d.112.1.1 40917 1dro 122 2.69e+01 1btn b.55.1.1 26954 1ejgA 46 2.72e+01 1cbn g.13.1.1 44618 1ltqA 301 2.72e+01 c.108.1.9,c.37.1.1 78208,78209 1wu3I 161 2.78e+01 1nh2D 121 2.81e+01 a.32.1.1,b.56.1.1 91876,91877 1e8gA 560 2.89e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1b4pA 217 2.90e+01 a.45.1.1,c.47.1.5 83158,83159 1t3wA 148 2.91e+01 1g73A 162 2.92e+01 1fewA a.7.4.1 16332 1rxwA 336 2.99e+01 a.60.7.1,c.120.1.2 98059,98060 1x8vA 455 3.02e+01 1xouB 95 3.04e+01 1t3uA 104 3.04e+01 d.244.1.1 99120 2auhB 59 3.12e+01 1vkyA 347 3.16e+01 e.53.1.1 108696 1q0pA 223 3.18e+01 c.62.1.1 95507 1ouvA 273 3.18e+01 a.118.18.1 93570 1zs9A 261 3.20e+01 1qv1A 195 3.21e+01 a.39.1.5 96347 1pprM 312 3.23e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1z7uA 112 3.26e+01 1ztcA 221 3.26e+01 2aotA 292 3.31e+01 1ex0A 731 3.32e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1j2jB 45 3.32e+01 a.7.8.1 84017 1oh4A 179 3.32e+01 b.18.1.18 92978 2bg9A 370 3.39e+01 1ji1A 637 3.39e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1uhnA 189 3.45e+01 a.39.1.5 99399 1n8vA 112 3.46e+01 a.118.21.1 85457 2gdqA 382 3.47e+01 1uh4A 637 3.49e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1vhtA 218 3.52e+01 c.37.1.1 100700 1uz3A 102 3.52e+01 1xs5A 241 3.53e+01 1svy 114 3.53e+01 1svy d.109.1.1 40831 1chuA 540 3.55e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1zt2B 212 3.56e+01 1ynpA 317 3.57e+01 1mhnA 59 3.57e+01 b.34.9.1 84964 1ohzB 60 3.60e+01 a.139.1.1 93044 2es4D 332 3.66e+01 1o5zA 442 3.67e+01 c.59.1.2,c.72.2.2 92530,92531 1v54G 85 3.69e+01 f.23.2.1 100328 1obdA 306 3.72e+01 d.143.1.1 86767 1l3iA 192 3.73e+01 c.66.1.22 77676 1twfK 120 3.77e+01 1gweA 503 3.77e+01 e.5.1.1 70667 2ga1A 106 3.78e+01 1q8cA 151 3.78e+01 a.79.1.2 96202 2a3nA 355 3.83e+01 2f8xM 63 3.93e+01 2cw6A 298 3.95e+01 1jjfA 268 3.97e+01 c.69.1.2 66765 1tuwA 109 3.97e+01 d.58.4.8 107346 2cnqA 306 3.98e+01 2csbA 519 4.00e+01 1x79A 98 4.00e+01 1g2nA 264 4.04e+01 1lbd a.123.1.1 60227 2cu3A 64 4.05e+01 1rr7A 129 4.08e+01 a.4.1.14 105075 1nd4A 264 4.08e+01 d.144.1.6 91815 1ws0A 156 4.08e+01 1ajsA 412 4.19e+01 1ajsA c.67.1.1 34276 1r85A 379 4.25e+01 c.1.8.3 104839 1pxqA 35 4.29e+01 j.5.1.2 104382 2b1xA 470 4.35e+01 1pzxA 289 4.37e+01 c.119.1.1 95484 1f9yA 158 4.41e+01 d.58.30.1 83249 1cr1A 296 4.41e+01 1cr1A c.37.1.11 32286 2cmwA 310 4.42e+01 1s6cA 183 4.45e+01 a.39.1.5 98594 1ww9A 392 4.46e+01 2b8iA 77 4.48e+01 1un7A 400 4.50e+01 b.92.1.5,c.1.9.10 99657,99658 1ve0A 134 4.51e+01 1wleA 501 4.52e+01 2a61A 145 4.53e+01 1gk9B 557 4.59e+01 1r0mA 375 4.59e+01 c.1.11.2,d.54.1.1 104747,104748 1s0pA 176 4.61e+01 a.192.1.1 98300 1i39A 225 4.64e+01 1ekeA c.55.3.1 61585 1v7wA 807 4.66e+01 a.102.1.4,b.30.5.3 108411,108412 2al6A 375 4.67e+01 1e0eA 55 4.68e+01 1wjcA a.4.10.1 59147 1ve1A 304 4.68e+01 2b2aA 199 4.72e+01 2f1lA 187 4.73e+01 1eemA 241 4.76e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1ywfA 296 4.78e+01 1ztsA 139 4.79e+01 1lj9A 144 4.84e+01 a.4.5.28 78035 1fyhB 229 4.85e+01 1jrhI b.1.2.1,b.1.2.1 22055,22056 1mijA 152 4.86e+01 a.4.1.1 79150 1v71A 323 4.86e+01 1j6oA 268 4.90e+01 c.1.9.12 77088 1mexH 215 4.94e+01 b.1.1.1,b.1.1.2 91257,91258 2cvzA 289 4.96e+01 2f4mA 295 4.97e+01 1xnfA 275 4.99e+01 1idrA 136 4.99e+01 1dlyA a.1.1.1 62301 1zljA 78 5.02e+01 1qhqA 140 5.03e+01 1qhqA b.6.1.1 63326 1b9hA 388 5.07e+01 1b9hA c.67.1.4 34488 1q3iA 214 5.11e+01 d.220.1.1 104524 1wwlA 312 5.15e+01 2cyeA 133 5.16e+01 1apyB 141 5.21e+01 1apyB 1n2aA 201 5.23e+01 a.45.1.1,c.47.1.5 91553,91554 1mrg 263 5.25e+01 1mrj d.165.1.1 42183 1ccwB 483 5.29e+01 1cb7B c.1.19.2 29646 2a7oA 112 5.29e+01 1np7A 489 5.37e+01 a.99.1.1,c.28.1.1 80677,80678 1bqbA 301 5.48e+01 1hyt d.92.1.2 58962 1yn9A 169 5.50e+01 2d13A 227 5.50e+01 1j24A 143 5.53e+01 c.52.1.20 84008 1wxiA 275 5.65e+01 1z2wA 192 5.68e+01 1ly1A 181 5.70e+01 c.37.1.1 74334 1xkpA 246 5.74e+01 2arpF 152 5.75e+01 1u09A 476 5.77e+01 e.8.1.4 107545 1tv8A 340 5.79e+01 c.1.28.3 107352 1uanA 227 5.84e+01 c.134.1.1 99135 1qo7A 394 5.87e+01 1qo7A c.69.1.11 34697 1qwgA 251 5.89e+01 c.1.27.1 96473 1zarA 282 5.92e+01 1bj7 156 5.93e+01 1bj7 b.60.1.1 27113 2ahqA 76 5.94e+01 1f1eA 154 5.98e+01 a.22.1.2 64927 1b6a 478 6.02e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1q35A 320 6.06e+01 c.94.1.1 95661 2hddA 61 6.07e+01 2hddA a.4.1.1 15971 1brwA 433 6.07e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1cuk 203 6.08e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1pb1A 416 6.10e+01 c.77.1.1 88014 1regX 122 6.14e+01 1regX d.58.27.1 39406 1sfkA 76 6.17e+01 a.190.1.1 105488 1zpwX 90 6.19e+01 1ywmA 200 6.27e+01 2fyxA 143 6.34e+01 1tzvA 142 6.36e+01 a.79.1.1 107526 1g4wR 383 6.43e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1zroA 602 6.45e+01 1wdtA 665 6.45e+01 1lehA 364 6.47e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1f2tB 148 6.49e+01 1f2tB 1cby 259 6.53e+01 1cby d.103.1.1 40705 1ihbA 162 6.54e+01 1bd8 d.211.1.1 19161 1v5eA 590 6.55e+01 1q87A 221 6.56e+01 e.47.1.1 96192 1yz7A 188 6.59e+01 1wruA 379 6.64e+01 2g7sA 194 6.66e+01 1bqfA 25 6.66e+01 j.8.1.1 46113 2b7uA 257 6.69e+01 1qhoA 686 6.70e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1s9jA 341 6.71e+01 1tif 78 6.72e+01 1tif d.15.8.1 37836 1qfxA 460 6.75e+01 1qfxA c.60.1.2 33994 1pei 24 6.77e+01 j.14.1.1 46150 1xg5A 279 6.78e+01 5csmA 256 6.86e+01 5csmA a.130.1.2 19494 1k6kA 143 6.86e+01 a.174.1.1 77274 1vqvA 306 6.91e+01 2fsxA 148 7.05e+01 1x3sA 195 7.11e+01 1wy6A 172 7.14e+01 1vk4A 298 7.19e+01 c.72.1.1 100850 1gsoA 431 7.22e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1mxrA 375 7.27e+01 a.25.1.2 85197 2gm5A 139 7.27e+01 1k4zA 159 7.33e+01 b.80.5.1 72070 1e8cA 498 7.39e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 1ugpB 226 7.42e+01 b.34.4.4 107832 1yge 839 7.46e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1sx5A 244 7.46e+01 c.52.1.2 99023 1v54E 109 7.50e+01 a.118.11.1 100326 2au3A 407 7.53e+01 2g09A 297 7.53e+01 2aqjA 538 7.55e+01 1pufB 73 7.57e+01 a.4.1.1 95132 1kqpA 271 7.59e+01 c.26.2.1 72883 1s1fA 406 7.61e+01 1r6fA 310 7.62e+01 e.46.1.1 97149 1zb1A 392 7.65e+01 1hmt 132 7.68e+01 1hmt b.60.1.2 27169 1jjtA 228 7.75e+01 1a7tA d.157.1.1 63139 2citA 282 7.81e+01 1fl1A 230 7.82e+01 1at3A b.57.1.1 27023 1f35A 162 7.82e+01 1f35A b.94.1.1 59628 1yy7A 213 7.86e+01 1nxhA 126 7.92e+01 a.200.1.1 92300 2dlbA 80 7.94e+01 1rxqA 178 7.96e+01 a.213.1.1 105118 2choA 716 7.96e+01 1yhlA 362 7.97e+01 1kq6A 141 8.00e+01 d.189.1.1 91020 1yarH 217 8.01e+01 1yg2A 179 8.02e+01 1uc8A 280 8.03e+01 c.30.1.6,d.142.1.7 99165,99166 1tjvA 474 8.05e+01 a.127.1.1 107054 1bg1A 722 8.09e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1oq9A 363 8.12e+01 a.25.1.2 87257 1hf8A 289 8.14e+01 1hg5A a.7.8.2,a.118.9.3 90354,90355 1uuhA 159 8.14e+01 d.169.1.4 100008 1eu8A 409 8.15e+01 1eu8A c.94.1.1 59502 1su8A 636 8.16e+01 e.26.1.2 98999 2bk9A 153 8.25e+01 1z82A 335 8.26e+01 1k7wA 468 8.31e+01 a.127.1.1 72130 2b3yA 888 8.33e+01 2f6kA 307 8.41e+01 1fr3A 67 8.44e+01 1fr3A b.40.6.1 25436 1kzyC 259 8.51e+01 c.15.1.4,c.15.1.4 73383,73384 1w27A 714 8.57e+01 1jfbA 404 8.63e+01 a.104.1.1 66624 2chnA 716 8.67e+01 1p1lA 102 8.67e+01 d.58.5.2 87695 1u4qA 322 8.70e+01 1zk5A 176 8.80e+01 2f3yA 148 8.81e+01 2bfwA 200 8.81e+01 1uekA 275 8.86e+01 d.14.1.5,d.58.26.5 88483,88484 2bgcA 238 8.88e+01 1hnjA 317 8.89e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1iirA 415 8.97e+01 1iirA c.87.1.5 62453