# List of top-scoring protein chains for t04-100-30-dssp-ehl2-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 1.29e-02 2prgA a.123.1.1 19323 1odfA 290 6.39e-02 c.37.1.6 92782 2db0A 253 1.47e-01 1svmA 377 2.17e-01 1n25A 368 2.77e-01 c.37.1.20 85264 1oz9A 150 3.20e-01 d.92.1.15 93808 1h1dA 221 5.26e-01 c.66.1.1 83452 1vid 221 5.69e-01 1vid c.66.1.1 34178 1ff9A 450 5.73e-01 1ff9A c.2.1.3,d.81.1.2 30039,39954 1y6iA 233 1.11e+00 1edg 380 1.21e+00 1edg c.1.8.3 28807 256bA 106 1.26e+00 256bA a.24.3.1 16539 1ugpA 203 1.36e+00 d.149.1.1 107831 1ireA 204 1.38e+00 d.149.1.1 76769 1zczA 464 1.55e+00 1z5hA 780 1.66e+00 2gshA 414 1.99e+00 1yz4A 160 2.36e+00 1fm9D 272 2.39e+00 2prgA a.123.1.1 19313 1pmi 440 2.48e+00 1pmi b.82.1.3 28114 1zgyA 272 2.49e+00 1e7lA 157 2.78e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1jipA 403 3.11e+00 a.104.1.1 66748 1t1uA 639 3.48e+00 1pg5A 299 3.99e+00 c.78.1.1,c.78.1.1 104146,104147 1lox 662 4.36e+00 1lox a.119.1.2,b.12.1.1 19238,23638 2b0oE 301 4.87e+00 2ap1A 327 5.02e+00 1p4wA 99 5.23e+00 a.4.6.2 87783 1wu7A 434 5.41e+00 1tn4 159 5.44e+00 1ncx a.39.1.5 17248 2fpqA 444 5.56e+00 1rcwA 231 6.02e+00 a.132.1.4 97299 1l3iA 192 6.04e+00 c.66.1.22 77676 1ak5 503 6.99e+00 1ak5 c.1.5.1 28639 1xwmA 217 8.02e+00 1b79A 119 8.94e+00 1b79A a.81.1.1 18451 2ct8A 497 8.98e+00 1ri7A 171 9.01e+00 a.4.5.32,d.58.4.2 97504,97505 1fpzA 212 9.27e+00 1fpzA c.45.1.1 59976 1on3A 523 9.28e+00 c.14.1.4,c.14.1.4 87107,87108 1gsoA 431 9.88e+00 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2cosA 54 9.98e+00 1a6s 87 1.02e+01 1a6s a.61.1.4 18134 1r5qA 102 1.05e+01 a.186.1.1 97103 1ifyA 49 1.07e+01 a.5.2.1 71207 1r9jA 673 1.07e+01 1qtrA 317 1.08e+01 1qtrA c.69.1.7 34660 1xm3A 264 1.10e+01 1uc7A 125 1.13e+01 c.47.1.1 99163 1zchA 255 1.17e+01 1gpmA 525 1.21e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1dkqA 410 1.25e+01 1dklA c.60.1.2 33998 1r6rA 100 1.25e+01 a.190.1.1 97158 1pjr 724 1.25e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1q74A 303 1.26e+01 c.134.1.1 96019 1dkmA 410 1.26e+01 1dklA c.60.1.2 34000 1j7nA 776 1.28e+01 d.92.1.14,d.92.1.14,d.166.1.1 66409,66410,66411 2fwhA 134 1.28e+01 2gb7A 305 1.29e+01 1otvA 259 1.30e+01 a.132.1.4 93526 1jpmA 366 1.31e+01 c.1.11.2,d.54.1.1 67031,67032 1z8oA 404 1.31e+01 2bl0C 142 1.35e+01 1oksA 56 1.48e+01 a.8.5.1 93271 1top 162 1.49e+01 1ncx a.39.1.5 17223 1f4lA 551 1.50e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1pfvA 551 1.51e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 2a97A 439 1.51e+01 2bjhA 260 1.54e+01 1auiB 169 1.55e+01 1auiB a.39.1.5 17325 1o5zA 442 1.59e+01 c.59.1.2,c.72.2.2 92530,92531 6gsvA 217 1.59e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1u61A 138 1.62e+01 a.149.1.1 107696 1apyB 141 1.69e+01 1apyB 1hbzA 498 1.70e+01 1cf9A e.5.1.1 60937 1ehyA 294 1.77e+01 1ehyA c.69.1.11 34693 2czvC 120 1.77e+01 2b8iA 77 1.78e+01 2d0eA 407 1.78e+01 2fkiA 126 1.78e+01 2a3qA 170 1.79e+01 1gweA 503 1.79e+01 e.5.1.1 70667 2fk8A 318 1.80e+01 1rrzA 86 1.81e+01 a.7.10.1 105086 1uwcA 261 1.86e+01 c.69.1.17 100101 1p5sA 203 1.87e+01 a.40.1.1 94147 1wmwA 330 1.92e+01 2a8aA 439 1.95e+01 2czdA 208 1.95e+01 1np3A 338 2.03e+01 a.100.1.2,c.2.1.6 85946,85947 1me8A 503 2.04e+01 c.1.5.1 79028 1j97A 211 2.14e+01 1f5sA c.108.1.4 62753 1tkkA 366 2.14e+01 c.1.11.2,d.54.1.1 107089,107090 1w6sB 74 2.16e+01 1zkdA 387 2.19e+01 1l7mA 211 2.21e+01 c.108.1.4 73664 1hp1A 516 2.22e+01 d.114.1.1,d.159.1.2 70976,70977 1m7jA 484 2.24e+01 b.92.1.6,b.92.1.6,c.1.9.11 78732,78733,78734 1rk6A 496 2.27e+01 b.92.1.6,b.92.1.6,c.1.9.11 97599,97600,97601 2d09A 407 2.29e+01 1kpsB 171 2.30e+01 a.118.12.1 68787 1wx1A 335 2.31e+01 1vefA 395 2.37e+01 1g4wR 383 2.37e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 7aatA 401 2.38e+01 1ajsA c.67.1.1 34250 1eupA 403 2.43e+01 1rom a.104.1.1 18967 1jk0A 419 2.44e+01 a.25.1.2 63142 1psrA 100 2.45e+01 1psrA a.39.1.2 17180 1ygmA 118 2.48e+01 2bo3A 94 2.50e+01 1y10A 407 2.55e+01 1j33A 335 2.56e+01 c.39.1.1 77069 1dzkA 157 2.57e+01 1obpA b.60.1.1 27096 1cei 94 2.57e+01 1cei a.28.2.1 16939 1jfzA 154 2.59e+01 a.149.1.1 66655 2fbwA 621 2.61e+01 1su4A 994 2.62e+01 b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1 98993,98994,98995,98996 1avsA 90 2.63e+01 1cll a.39.1.5 17226 1wvfA 520 2.68e+01 2gfnA 209 2.70e+01 1qv1A 195 2.74e+01 a.39.1.5 96347 1wpgA 994 2.75e+01 2a61A 145 2.77e+01 1dd9A 338 2.78e+01 1dd9A e.13.1.1 43254 1r85A 379 2.81e+01 c.1.8.3 104839 1j55A 95 2.89e+01 a.39.1.2 77078 1eu1A 780 2.95e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1gw5S 142 3.01e+01 d.110.4.2 70633 1ls1A 295 3.13e+01 a.24.13.1,c.37.1.10 78170,78171 2h88A 621 3.25e+01 1jogA 146 3.29e+01 a.24.16.2 77142 1hb6A 86 3.30e+01 a.11.1.1 70959 1z2wA 192 3.34e+01 1wstA 417 3.41e+01 1jy5A 212 3.42e+01 d.124.1.1 71940 1ush 550 3.43e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1v4pA 157 3.49e+01 3rabA 169 3.51e+01 1ctqA c.37.1.8 32018 1w24A 182 3.52e+01 1jg1A 235 3.56e+01 c.66.1.7 66661 1u35C 120 3.57e+01 1ei6A 406 3.61e+01 c.76.1.4 90443 1ulyA 192 3.64e+01 1gnlA 544 3.75e+01 e.26.1.1 70287 1unkA 87 3.78e+01 1cei a.28.2.1 16935 1garA 212 3.79e+01 2gar c.65.1.1 34162 1ctj 89 3.84e+01 1ctj a.3.1.1 15798 1dfoA 417 3.88e+01 1bj4A c.67.1.4 34480 1ve1A 304 3.88e+01 2cmd 312 3.90e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1di0A 158 3.90e+01 1di0A c.16.1.1 30957 1h16A 759 3.96e+01 c.7.1.1 76462 1rxwA 336 4.04e+01 a.60.7.1,c.120.1.2 98059,98060 1floA 422 4.12e+01 1floA a.60.9.1,d.163.1.1 18106,42166 1jkxA 212 4.16e+01 c.65.1.1 66813 1zpyA 95 4.20e+01 2bnjA 303 4.20e+01 1ir6A 424 4.20e+01 c.107.1.2 71342 1wgxA 73 4.23e+01 1su8A 636 4.26e+01 e.26.1.2 98999 1i1wA 303 4.31e+01 c.1.8.3 76732 1oe4A 247 4.33e+01 c.18.1.3 86895 1k6kA 143 4.33e+01 a.174.1.1 77274 2gar 212 4.34e+01 2gar c.65.1.1 34161 1j5wA 298 4.39e+01 d.104.1.1 71589 1tr8A 102 4.44e+01 1jb0I 38 4.47e+01 1jb0I f.23.17.1 62826 1j1qA 261 4.52e+01 d.165.1.1 90768 1xnfA 275 4.55e+01 2fcjA 119 4.56e+01 2ng1 293 4.59e+01 1ng1 a.24.13.1,c.37.1.10 16962,32273 1eulA 994 4.61e+01 1eulA 1n4qB 377 4.61e+01 a.102.4.3 91636 1c44A 123 4.63e+01 1qndA d.106.1.1 40795 1v71A 323 4.70e+01 8abp 306 4.78e+01 8abp c.93.1.1 35647 1dkzA 219 4.79e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1v7oA 165 4.86e+01 d.67.1.2 100480 1zs9A 261 4.89e+01 1v4vA 376 4.91e+01 c.87.1.3 100313 1xpxA 163 5.02e+01 2au3A 407 5.04e+01 2gpiA 91 5.11e+01 1u13A 455 5.12e+01 a.104.1.1 107578 1oahA 519 5.13e+01 a.138.1.3 86736 1a48 306 5.14e+01 1a48 d.143.1.1 41590 1hssA 124 5.19e+01 1bea a.52.1.2 17819 1zt2B 212 5.19e+01 1z8sA 146 5.31e+01 1xouB 95 5.45e+01 1fpoA 171 5.58e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 2iu5A 195 5.59e+01 1jjfA 268 5.64e+01 c.69.1.2 66765 1iukA 140 5.64e+01 c.2.1.8 83712 2aqjA 538 5.67e+01 2cp8A 54 5.69e+01 1mvwB 145 5.75e+01 i.15.1.1 79524 1sgmA 191 5.77e+01 a.4.1.9,a.121.1.1 105537,105538 5abp 306 5.78e+01 8abp c.93.1.1 35651 1nynA 131 5.79e+01 d.235.1.1 86410 1pxqA 35 5.87e+01 j.5.1.2 104382 1ne6A 283 5.93e+01 b.82.3.2,b.82.3.2 91831,91832 1ly1A 181 6.00e+01 c.37.1.1 74334 1g7oA 215 6.01e+01 1g7oA a.45.1.1,c.47.1.5 60332,60333 1ddgA 374 6.11e+01 1amoA b.43.4.1,c.25.1.4 25671,31559 2f6mB 109 6.12e+01 1v54G 85 6.13e+01 f.23.2.1 100328 1cuk 203 6.26e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 2occG 84 6.29e+01 2occG f.23.2.1 43522 1gnwA 211 6.29e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1daqA 71 6.29e+01 1daqA a.139.1.1 59113 1wiwA 290 6.31e+01 1ejgA 46 6.31e+01 1cbn g.13.1.1 44618 1te6A 439 6.34e+01 c.1.11.1,d.54.1.1 106797,106798 1in6A 334 6.46e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1h5wA 309 6.48e+01 e.27.1.1 65635 1wfdA 93 6.51e+01 2bjfA 329 6.53e+01 1jmsA 381 6.62e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1w68A 390 6.64e+01 a.25.1.2 109216 1vimA 200 6.70e+01 c.80.1.3 100758 2d13A 227 6.73e+01 2b7uA 257 6.79e+01 1tqmA 282 6.84e+01 a.4.5.56,d.144.1.9 107236,107237 1kb9C 385 6.87e+01 f.32.1.1,f.21.1.2 77315,77316 1ezvC 385 6.89e+01 1be3C f.32.1.1,f.21.1.2 75833,75834 1in4A 334 6.90e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1sz2A 332 6.92e+01 1o26A 232 6.92e+01 d.207.1.1 86566 1ofuX 119 7.01e+01 c.37.1.22 86976 1zarA 282 7.07e+01 1s1fA 406 7.19e+01 1omiA 248 7.27e+01 b.82.3.3,a.4.5.4 87079,87080 1ad1A 266 7.28e+01 1aj2 c.1.21.1 29668 2f8xM 63 7.30e+01 1chuA 540 7.38e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1wwlA 312 7.46e+01 1mqoA 227 7.47e+01 d.157.1.1 103846 1hnjA 317 7.52e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 1j2jB 45 7.54e+01 a.7.8.1 84017 1z7uA 112 7.55e+01 1yoeA 322 7.57e+01 1xhbA 472 7.60e+01 1rvkA 382 7.61e+01 c.1.11.2,d.54.1.1 97928,97929 1ynpA 317 7.71e+01 2fbnA 198 7.72e+01 1rm6C 161 7.73e+01 1sdiA 213 7.91e+01 a.198.1.1 105437 1e79A 510 7.94e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1twyA 290 7.97e+01 1xn8A 131 7.98e+01 1uvqA 197 7.99e+01 b.1.1.2,d.19.1.1 100062,100063 1ohzB 60 8.06e+01 a.139.1.1 93044 2gsq 202 8.07e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1svy 114 8.08e+01 1svy d.109.1.1 40831 1zoyA 622 8.09e+01 1s5lU 134 8.15e+01 1rdr 461 8.18e+01 1rdr e.8.1.4 43116 1xs5A 241 8.22e+01 2ck3A 510 8.26e+01 1rqtA 37 8.27e+01 a.108.1.1 97771 1kp8A 547 8.34e+01 a.129.1.1,c.8.5.1,d.56.1.1 84414,84415,84416 1rr7A 129 8.34e+01 a.4.1.14 105075 1q0pA 223 8.35e+01 c.62.1.1 95507 2f4mA 295 8.42e+01 1y01A 102 8.46e+01 1wndA 495 8.52e+01 1lr7A 74 8.55e+01 g.3.11.3,g.68.1.1 84679,84680 1cg5A 141 8.59e+01 1abwA a.1.1.2 15406 1k8kA 418 8.59e+01 c.55.1.1,c.55.1.1 68305,68306 1utuA 108 8.61e+01 1zp7A 206 8.64e+01 1v74A 107 8.64e+01 d.243.1.1 100442 1hrhA 136 8.65e+01 1rthA c.55.3.1 33577 1lfkA 398 8.66e+01 a.104.1.1 77926 1hcuA 503 8.72e+01 a.102.2.1 65796 2c46A 241 8.75e+01 1i2aA 219 8.77e+01 e.24.1.1 90660 2bc2A 227 8.77e+01 1a7tA d.157.1.1 42031 1is2A 661 8.82e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 2akzA 439 8.84e+01 1l1qA 186 8.86e+01 c.61.1.1 77653 1yge 839 8.90e+01 1yge a.119.1.1,b.12.1.1 19234,23634 1wa8A 99 8.91e+01 1ihp 438 8.94e+01 1ihp c.60.1.2 33993 1y6zA 263 9.00e+01