# List of top-scoring protein chains for t04-100-30-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 1xh9A 350 3.55e-36 1apmE 350 7.72e-36 1cdkA d.144.1.7 41628 1o6lA 337 9.54e-36 d.144.1.7 81092 1rdqE 350 1.67e-35 d.144.1.7 97314 1xjdA 345 8.09e-35 2bfxA 284 2.04e-34 1mq4A 272 5.92e-34 d.144.1.7 91391 2bdwA 362 6.50e-34 1zrzA 364 2.22e-33 1h1wA 289 1.12e-32 d.144.1.7 83460 1yhvA 297 1.48e-32 1uu3A 310 1.75e-32 d.144.1.7 99999 1phk 298 2.18e-32 1cdkA d.144.1.7 41635 1f3mC 297 5.40e-32 1hcl d.144.1.7 41677 2f57A 317 5.51e-32 1jksA 294 1.93e-31 d.144.1.7 71710 2c30A 321 3.28e-31 1vzoA 355 5.21e-31 d.144.1.7 108971 2eueA 279 9.21e-31 1p4fA 293 2.04e-30 d.144.1.7 104063 1ia8A 289 1.14e-29 1ia8A d.144.1.7 62112 1omwA 689 6.24e-29 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1gz8A 299 9.88e-29 d.144.1.7 83405 1hcl 298 1.08e-28 1hcl d.144.1.7 41593 2ac5A 316 5.15e-28 2ac3A 316 2.22e-27 1xwsA 313 2.86e-27 2bikB 313 3.69e-27 2bvaA 292 3.84e-27 1tkiA 321 1.86e-26 1tkiA d.144.1.7 41638 1t4hA 290 2.56e-26 d.144.1.7 106420 1s9jA 341 4.08e-26 1tvoA 368 8.31e-26 1blxA 326 8.85e-26 1hcl d.144.1.7 41596 1pmnA 364 1.43e-25 d.144.1.7 94907 1zy4A 303 1.93e-25 2b9hA 353 2.71e-25 3erk 364 2.98e-25 1hcl d.144.1.7 41654 1ymiA 334 3.80e-25 1pme 380 4.38e-25 1hcl d.144.1.7 41653 1wbsA 360 6.42e-25 2evaA 307 6.99e-25 1r3cA 366 8.54e-25 d.144.1.7 96906 1zz2A 360 1.55e-24 1o6yA 299 1.58e-24 d.144.1.7 81106 1j1bA 420 2.54e-24 d.144.1.7 90758 1zzlA 351 2.63e-24 2a19B 284 3.53e-24 1ywrA 360 3.55e-24 1m2rA 327 4.10e-24 d.144.1.7 84760 2gfsA 372 7.24e-24 1om1A 332 8.25e-24 d.144.1.7 93347 1opjA 293 1.75e-23 d.144.1.7 87230 1qpcA 279 1.66e-22 1fgkA d.144.1.7 41685 1mp8A 281 2.43e-22 d.144.1.7 91384 2b7aA 293 3.02e-22 1ir3A 306 3.03e-22 1fmk d.144.1.7 41702 1z57A 339 3.17e-22 1x8bA 289 5.37e-22 1t46A 313 6.65e-22 d.144.1.7 106397 1jpaA 312 6.97e-22 d.144.1.7 67011 1fvrA 327 7.46e-22 d.144.1.7 60047 1xbbA 291 1.15e-21 1u59A 287 2.20e-21 d.144.1.7 107681 1fgkA 310 2.97e-21 1fgkA d.144.1.7 41693 1p4oA 322 4.80e-21 d.144.1.7 87775 2eu9A 355 5.66e-21 1r0pA 312 9.03e-21 d.144.1.7 96734 1howA 373 1.27e-20 1hcl d.144.1.7 41679 1q8yA 373 1.88e-20 d.144.1.7 96234 1u46A 291 2.43e-20 d.144.1.7 107656 1ywnA 316 2.80e-20 1vjyA 303 6.35e-19 d.144.1.7 108633 1py5A 326 1.00e-18 d.144.1.7 104389 1wbpA 397 4.71e-18 1ckiA 317 6.16e-17 1csn d.144.1.7 41660 1csn 298 3.68e-16 1csn d.144.1.7 41664 1tqmA 282 1.04e-05 a.4.5.56,d.144.1.9 107236,107237 1zarA 282 1.22e-05 1zthA 258 6.14e-05 1e7uA 961 1.23e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1e8yA 966 5.60e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1nd4A 264 3.68e-01 d.144.1.6 91815 1j7lA 264 5.01e-01 d.144.1.6 62697 2av5A 120 6.41e-01 1wchA 315 6.95e-01 1ifqA 138 9.95e-01 1ifqA d.110.4.1 62350 1k38A 254 1.11e+00 e.3.1.1 84303 2bkkA 264 1.37e+00 1w1oA 534 1.60e+00 d.58.32.4,d.145.1.1 109071,109072 1pixA 587 1.77e+00 c.14.1.4 94708 1k3eA 156 2.22e+00 d.198.1.1 68103 1jl2A 156 2.38e+00 c.55.3.1 66822 1txqA 93 2.85e+00 1e17A 150 3.00e+00 2hfh a.4.5.14 16143 1e4fT 419 3.30e+00 1e4fT c.55.1.1,c.55.1.1 33453,33454 2bs9A 503 3.49e+00 2bfgA 503 3.61e+00 2fm8A 135 3.96e+00 1g7sA 594 4.58e+00 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1q8bA 105 4.64e+00 d.58.4.6 96201 1f3vA 179 4.77e+00 1f3vA d.58.22.1 39382 1k6wA 426 4.85e+00 b.92.1.2,c.1.9.5 68236,68237 1b24A 188 5.13e+00 1b24A d.95.2.1,d.95.2.1 40573,40574 1zuwA 272 5.75e+00 2sqcA 631 6.57e+00 2sqcA a.102.4.2,a.102.4.2 18854,18855 1yixA 265 6.83e+00 1t71A 281 7.32e+00 2ap1A 327 7.59e+00 1fxlA 167 7.61e+00 1b7fA d.58.7.1,d.58.7.1 39183,39184 1z5oA 242 7.81e+00 1jysA 242 7.83e+00 c.56.2.1 77216 1a0p 290 7.83e+00 1a0p a.60.9.1,d.163.1.1 18105,42165 1u1iA 392 8.17e+00 c.2.1.3,d.81.1.3 107582,107583 1ecpA 238 8.26e+00 1ecpA c.56.2.1 33775 1k9sA 237 8.28e+00 c.56.2.1 68359 1i06A 180 8.40e+00 1mup b.60.1.1 27131 1b7gO 340 8.47e+00 1b7gO c.2.1.3,d.81.1.1 29992,39907 1ry9A 145 8.53e+00 d.198.1.1 98094 1pg4A 652 8.58e+00 e.23.1.1 88067 1wznA 252 8.82e+00 1usyA 275 9.02e+00 1dzkA 157 9.03e+00 1obpA b.60.1.1 27096 1xwyA 264 9.04e+00 1xel 338 9.07e+00 1xel c.2.1.2 29786 1gw5S 142 9.44e+00 d.110.4.2 70633 1t17A 148 9.46e+00 2fb0A 94 9.62e+00 2a6mA 155 9.64e+00 1vjpA 394 9.98e+00 c.2.1.3,d.81.1.3 100828,100829 2aeuA 374 9.99e+00 2ghpA 292 1.00e+01 1kyqA 274 1.00e+01 c.2.1.11,e.37.1.1 73281,73282 1dy9A 187 1.02e+01 1jxpA b.47.1.3 26400 1ek6A 348 1.03e+01 1xel c.2.1.2 29800 1hzdA 272 1.04e+01 c.14.1.3 65969 1gyxA 76 1.06e+01 d.80.1.1 76387 2ccjA 205 1.06e+01 1jl1A 155 1.08e+01 c.55.3.1 66821 1aj2 282 1.09e+01 1aj2 c.1.21.1 29665 1vgjA 184 1.10e+01 1dqaA 467 1.11e+01 1dqaA d.58.20.1,d.179.1.1 39364,42585 1ttwA 138 1.12e+01 d.198.1.1 107308 1souA 194 1.13e+01 c.124.1.6 105858 1kay 381 1.15e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1kfuL 699 1.15e+01 a.39.1.8,b.14.1.1,d.3.1.3 68571,68572,68573 1ww9A 392 1.18e+01 1nu0A 138 1.18e+01 c.55.3.8 92165 1mup 166 1.19e+01 1mup b.60.1.1 27133 1ia9A 280 1.22e+01 1ia9A d.144.1.5 62113 1dosA 358 1.22e+01 1dosA c.1.10.2 29175 2a7kA 250 1.23e+01 1udc 338 1.23e+01 1xel c.2.1.2 29785 1inlA 296 1.23e+01 c.66.1.17 66220 2rn2 155 1.25e+01 2rn2 c.55.3.1 33551 1i05A 180 1.25e+01 1mup b.60.1.1 27130 1yqtA 538 1.27e+01 1f21A 155 1.30e+01 2rn2 c.55.3.1 33550 2fyxA 143 1.31e+01 1iq8A 582 1.32e+01 c.1.20.1,b.122.1.1,d.17.6.1 71270,83074,83075 1oo0A 147 1.32e+01 d.232.1.1 87182 1vlyA 338 1.35e+01 b.44.2.1,d.250.1.1 108871,108872 1vzyA 291 1.36e+01 1va0A 239 1.36e+01 1itwA 741 1.37e+01 c.77.1.2 76793 1ex2A 189 1.37e+01 1ex2A c.51.4.2 33225 1l1qA 186 1.37e+01 c.61.1.1 77653 1zndA 174 1.38e+01 2bfdA 400 1.40e+01 1v5eA 590 1.40e+01 1f8rA 498 1.43e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 3cox 507 1.46e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1bf6A 291 1.48e+01 1pscA c.1.9.3 29065 1m2xA 223 1.49e+01 d.157.1.1 84764 1j6oA 268 1.51e+01 c.1.9.12 77088 1x7vA 99 1.51e+01 d.58.4.11 109501 1tl2A 236 1.52e+01 1tl2A b.67.1.1 27541 1jv4A 162 1.55e+01 b.60.1.1 67343 1cjaA 342 1.58e+01 1cjaA d.144.1.3 41708 1i7qA 519 1.61e+01 1qdlA d.161.1.1 61901 1z98A 281 1.62e+01 1f52A 468 1.64e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 1stzA 338 1.65e+01 a.4.5.51,d.110.2.3 106009,106010 1xkpC 143 1.67e+01 1f4qA 165 1.69e+01 1alvA a.39.1.8 17360 1auiA 521 1.69e+01 1auiA d.159.1.3 42085 1xkzA 255 1.71e+01 1xgsA 295 1.71e+01 1bn5 a.4.5.25,d.127.1.1 16216,41153 1i0rA 169 1.73e+01 1i0rA b.45.1.2 61489 1i0sA 169 1.73e+01 1i0rA b.45.1.2 61491 1xa1A 255 1.73e+01 e.3.1.1 109529 2bbeA 108 1.76e+01 1exmA 405 1.76e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1ha3A 405 1.77e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1o20A 427 1.79e+01 c.82.1.1 86556 1qksA 567 1.79e+01 1qksA a.3.1.2,b.70.2.1 15951,27710 1twdA 256 1.80e+01 c.1.30.1 107397 1umgA 362 1.82e+01 d.280.1.1 107956 1gd0A 122 1.85e+01 1dptA d.80.1.3 39834 1y63A 184 1.87e+01 1bupA 386 1.91e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1k94A 165 1.93e+01 a.39.1.8 68333 1reoA 486 1.93e+01 c.3.1.2,d.16.1.5 97325,97326 1gvnB 287 1.93e+01 c.37.1.21 76354 1on3A 523 1.94e+01 c.14.1.4,c.14.1.4 87107,87108 1w6uA 302 1.94e+01 1p49A 562 2.01e+01 c.76.1.2 94089 1z5nA 242 2.02e+01 2fnuA 375 2.03e+01 1uebA 184 2.05e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1r31A 428 2.05e+01 d.58.20.1,d.179.1.1 96897,96898 1szhA 161 2.05e+01 a.226.1.1 106157 2cwcA 303 2.05e+01 1y2qA 143 2.10e+01 351c 82 2.10e+01 451c a.3.1.1 15905 451c 82 2.10e+01 451c a.3.1.1 15904 2avnA 260 2.10e+01 2c78A 405 2.11e+01 1v1rA 400 2.18e+01 c.36.1.11 108272 1p4wA 99 2.22e+01 a.4.6.2 87783 1c17M 177 2.24e+01 1c17M f.18.1.1 43648 1iujA 106 2.26e+01 d.58.4.5 90701 1cliA 345 2.27e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 2ey4C 82 2.27e+01 1kcfA 258 2.28e+01 a.140.2.1,c.55.3.7 68434,68435 1vdxA 184 2.29e+01 1nrkA 328 2.30e+01 b.44.2.1,d.250.1.1 92089,92090 1nw1A 429 2.33e+01 d.144.1.8 86286 1hjrA 158 2.34e+01 1hjrA c.55.3.6 33727 1olsA 400 2.34e+01 c.36.1.11 93331 1qy1A 174 2.40e+01 b.60.1.1 96568 1s2dA 167 2.42e+01 c.23.14.1 98377 1yiiA 320 2.43e+01 1t6cA 315 2.45e+01 c.55.1.8,c.55.1.8 106558,106559 1yb3A 175 2.45e+01 1i50C 318 2.45e+01 d.74.3.1,d.181.1.1 61756,61757 1t2bA 397 2.45e+01 1s96A 219 2.49e+01 c.37.1.1 98740 1vheA 373 2.49e+01 b.49.3.1,c.56.5.4 100669,100670 1j93A 353 2.51e+01 c.1.22.1 66454 2a65A 519 2.52e+01 1uuqA 440 2.52e+01 c.1.8.3 100015 2be4A 272 2.54e+01 1o0xA 262 2.55e+01 d.127.1.1 80755 1p5zB 263 2.55e+01 c.37.1.1 87815 1nls 237 2.56e+01 1nls b.29.1.1 23928 2cbiA 594 2.57e+01 1gwiA 411 2.58e+01 a.104.1.1 76364 1nm1G 125 2.60e+01 d.109.1.1 80653 1yleA 342 2.65e+01 1hi9A 274 2.66e+01 1hi9A c.99.1.1 61063 1lenA 181 2.67e+01 1led b.29.1.1 24032 1p32A 209 2.69e+01 1p32A d.25.1.1 38379 1i9gA 280 2.75e+01 c.66.1.13 62090 1o97C 264 2.75e+01 c.26.2.3 81232 1rh9A 373 2.76e+01 1xsoA 150 2.78e+01 1mfmA b.1.8.1 22273 1ra0A 430 2.79e+01 1ugmA 125 2.81e+01 d.15.1.3 107827 2etvA 346 2.85e+01 1vr4A 103 2.91e+01 2b7oA 464 2.95e+01 1bjt 793 2.98e+01 1bjt e.11.1.1 43249 1zdzA 302 3.05e+01 1q52A 314 3.06e+01 c.14.1.3 95846 1b4vA 504 3.07e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1o0wA 252 3.10e+01 a.149.1.1,d.50.1.1 80751,80752 1d4xG 126 3.11e+01 1d0nA d.109.1.1 59109 1quqA 129 3.11e+01 1quqA b.40.4.3 25303 1g6aA 271 3.12e+01 1btl e.3.1.1 42704 1jqbA 351 3.15e+01 b.35.1.2,c.2.1.1 77151,77152 1x7yA 400 3.20e+01 1chuA 540 3.24e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 2govA 195 3.27e+01 1n4wA 504 3.28e+01 c.3.1.2,d.16.1.1 91676,91677 1t0fA 276 3.29e+01 1mxtA 504 3.29e+01 c.3.1.2,d.16.1.1 79671,79672 1wlyA 333 3.31e+01 2aamA 309 3.34e+01 1y2tA 142 3.34e+01 1d7uA 433 3.39e+01 2dkb c.67.1.4 34439 2bklA 695 3.39e+01 1vsrA 136 3.40e+01 1vsrA c.52.1.15 33332 2an9A 207 3.43e+01 1wlzA 105 3.47e+01 1i50F 155 3.47e+01 a.143.1.2 61760 1kb9C 385 3.47e+01 f.32.1.1,f.21.1.2 77315,77316 1ezvC 385 3.47e+01 1be3C f.32.1.1,f.21.1.2 75833,75834 2ltnA 181 3.49e+01 1led b.29.1.1 24024 7a3hA 303 3.55e+01 7a3hA c.1.8.3 28817 1xc3A 302 3.55e+01 1vjhA 122 3.56e+01 d.129.3.1 100811 1fecA 490 3.59e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30489,30490,40176 1regX 122 3.61e+01 1regX d.58.27.1 39406 1htjF 210 3.61e+01 1htjF a.91.1.1 61254 1a0cA 438 3.62e+01 1a0cA c.1.15.3 29529 1xrxA 50 3.62e+01 1f1zA 273 3.64e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1vhoA 346 3.74e+01 b.49.3.1,c.56.5.4 100694,100695 1bw3 125 3.76e+01 1bw4 b.52.1.2 26899 2dkb 433 3.79e+01 2dkb c.67.1.4 34438 1vqzA 341 3.82e+01 1e4mM 501 3.83e+01 1e70M c.1.8.4 59226 1y7pA 223 3.84e+01 1e2kA 331 3.85e+01 1qhiA c.37.1.1 31854 1twfF 155 3.86e+01 1e7rA 321 3.88e+01 1bsvA c.2.1.2 29808 1bcpA 235 3.90e+01 1bcpA d.166.1.1 42255 1hq0A 295 3.91e+01 1hzgA d.194.1.1 61122 3ladA 476 3.91e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1mdbA 539 3.94e+01 e.23.1.1 79008 1gk8A 475 4.01e+01 c.1.14.1,d.58.9.1 65234,65235 1z7gA 217 4.04e+01 1hxhA 253 4.06e+01 c.2.1.2 76725 1tiyA 164 4.07e+01 c.97.1.2 107012 1jyoA 130 4.08e+01 d.198.1.1 67483 1y0yA 353 4.08e+01 1nhp 447 4.08e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1nhs 447 4.11e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 1n2eA 300 4.16e+01 c.26.1.4 85268 1x89A 178 4.16e+01 1pmzA 86 4.19e+01 a.39.1.10 104195 2aw5A 541 4.22e+01 1x71A 178 4.23e+01 1omrA 201 4.25e+01 a.39.1.5 93349 1c93A 265 4.30e+01 2ebn c.1.8.5 28998 1kevA 351 4.36e+01 1pedA b.35.1.2,c.2.1.1 24749,29765 1ycqA 107 4.41e+01 1ycqA a.42.1.1 17419 1umdA 367 4.48e+01 c.36.1.11 99599 1dp0A 1023 4.48e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1zaiA 363 4.49e+01 1bco 327 4.50e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1qhiA 366 4.52e+01 1qhiA c.37.1.1 31860 1f94A 63 4.54e+01 1f94A g.7.1.1 44435 1zxiF 288 4.56e+01 1uh5A 329 4.57e+01 c.2.1.2 107840 2c6yA 111 4.60e+01 2bw3A 534 4.61e+01 1pmmA 466 4.64e+01 c.67.1.6 94901 1xo5A 183 4.67e+01 1evhA 112 4.67e+01 1evhA b.55.1.4 26997 2frnA 278 4.68e+01 1adoA 363 4.70e+01 1fbaA c.1.10.1 29124 1xksA 450 4.70e+01 1dmmA 131 4.71e+01 1opy d.17.4.3 38114 1eudA 311 4.72e+01 2scuA c.2.1.8,c.23.4.1 30312,31140 1r5mA 425 4.75e+01 1d8wA 426 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