# List of top-scoring protein chains for t04-100-30-n_notor2-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 1ad3A 452 1.05e+00 1ad3A c.82.1.1 35335 1mdbA 539 1.13e+00 e.23.1.1 79008 1uohA 226 2.14e+00 d.211.1.1 99690 1h16A 759 2.38e+00 c.7.1.1 76462 1wvfA 520 2.81e+00 1hl9A 449 3.51e+00 b.71.1.3,c.1.8.11 90650,90651 1ru3A 732 3.63e+00 e.26.1.3 97835 1ye8A 178 3.81e+00 1h8eD 482 4.50e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1tag 324 4.93e+00 1cipA a.66.1.1,c.37.1.8 18197,32080 1auk 489 5.02e+00 1auk c.76.1.2 35030 1xfkA 336 5.77e+00 1vl2A 421 5.80e+00 c.26.2.1,d.210.1.1 108708,108709 1epwA 1290 6.04e+00 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1hjxA 362 6.22e+00 c.1.8.5,d.26.3.1 83512,83513 1jb9A 316 6.35e+00 1fnc b.43.4.2,c.25.1.1 62840,62841 1ep3B 262 6.75e+00 1ep2B b.43.4.2,c.25.1.3 25664,31554 1edzA 320 6.91e+00 1ee9A c.2.1.7,c.58.1.2 30287,33935 1uf5A 303 7.25e+00 d.160.1.2 107808 1xocA 520 7.39e+00 1eejA 216 7.72e+00 1eejA c.47.1.9,d.17.3.1 33057,38071 1ztpA 251 7.92e+00 1zlqA 502 8.19e+00 1erzA 303 8.88e+00 1erzA d.160.1.2 59498 1ve6A 582 8.97e+00 1n8fA 350 9.58e+00 c.1.10.4 85397 1jndA 420 1.07e+01 c.1.8.5,d.26.3.1 71757,71758 1kekA 1231 1.11e+01 c.36.1.8,c.36.1.12,c.48.1.3,c.64.1.1,d.58.1.5 68524,68525,68526,68527,68528 1eq2A 310 1.17e+01 1eq2A c.2.1.2 29814 1ppjA 446 1.24e+01 d.185.1.1,d.185.1.1 104252,104253 1womA 271 1.24e+01 2ffeA 311 1.28e+01 1ir3A 306 1.34e+01 1fmk d.144.1.7 41702 1reqB 637 1.37e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1vdeA 454 1.38e+01 1vdeA b.86.1.2,d.95.2.2,d.95.2.2 28378,40581,40582 1cb0A 283 1.41e+01 1cb0A c.56.2.1 33790 1vheA 373 1.43e+01 b.49.3.1,c.56.5.4 100669,100670 1yxcA 292 1.45e+01 1lqtA 456 1.45e+01 c.3.1.1,c.4.1.1 74198,74199 1q8iA 783 1.48e+01 c.55.3.5,e.8.1.1 96208,96209 1kw3B 292 1.49e+01 d.32.1.3,d.32.1.3 77549,77550 1hnjA 317 1.50e+01 1hn9A c.95.1.2,c.95.1.2 35969,35970 2a6nA 292 1.51e+01 1a48 306 1.53e+01 1a48 d.143.1.1 41590 1xesA 413 1.57e+01 1oyeA 1049 1.62e+01 d.58.44.1,d.58.44.1,d.58.44.1,d.58.44.1,d.225.1.1,d.225.1.1,f.35.1.1,f.35.1.1 87587,87588,87589,87590,87591,87592,87593,87594 1ccwB 483 1.63e+01 1cb7B c.1.19.2 29646 1nu5A 370 1.64e+01 c.1.11.2,d.54.1.1 92183,92184 1ile 821 1.64e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1iz5A 249 1.68e+01 d.131.1.2,d.131.1.2 83834,83835 2basA 431 1.68e+01 1zj8A 566 1.76e+01 1zd3A 555 1.77e+01 1ja1A 622 1.78e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1e20A 209 1.82e+01 1e20A c.34.1.1 31759 1xtoA 311 1.87e+01 2ohxA 374 1.88e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1han 297 1.90e+01 1han d.32.1.3,d.32.1.3 38506,38507 1xwfA 431 1.91e+01 2bnfB 241 1.91e+01 3csuA 310 1.92e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1o66A 275 1.96e+01 c.1.12.8 92547 1yyhA 253 1.98e+01 1qr6A 584 1.99e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1l5jA 865 2.02e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1jx2B 315 2.03e+01 c.37.1.8 67404 1tyjA 170 2.03e+01 1hyuA 521 2.04e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1f0xA 571 2.05e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1b9oA 123 2.09e+01 3lzt d.2.1.2 36597 1u3wA 374 2.10e+01 2fokA 579 2.18e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 2bk7B 222 2.21e+01 2bo9B 222 2.21e+01 1qy6A 274 2.24e+01 b.47.1.1 96574 1gypA 358 2.26e+01 1dssG c.2.1.3,d.81.1.1 30004,39919 1fl2A 310 2.27e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1pl8A 356 2.28e+01 b.35.1.2,c.2.1.1 94878,94879 1ez0A 510 2.31e+01 1eyyA c.82.1.1 35385 1pjjA 271 2.36e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1bqcA 302 2.38e+01 1bqcA c.1.8.3 28831 1nxiA 132 2.41e+01 d.58.47.1 86381 1a9xB 379 2.42e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1d4fA 431 2.45e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1zk4A 251 2.46e+01 1f75A 249 2.47e+01 1f75A c.101.1.1 59662 1j08A 226 2.55e+01 c.47.1.2,c.47.1.2 83855,83856 1k7hA 476 2.59e+01 c.76.1.1 72101 1poxA 585 2.60e+01 1poxA c.31.1.3,c.36.1.5,c.36.1.9 31731,31793,31794 1zfjA 491 2.63e+01 1ak5 c.1.5.1,d.37.1.1,d.37.1.1 28638,38540,38541 1ixh 321 2.65e+01 1ixh c.94.1.1 35761 1onwA 390 2.70e+01 b.92.1.7,c.1.9.13 87172,87173 1y8qA 346 2.77e+01 1qtrA 317 2.78e+01 1qtrA c.69.1.7 34660 2napA 723 2.79e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1vdnA 162 2.86e+01 2a6lA 292 2.88e+01 1riiA 265 2.89e+01 1xt8A 292 2.93e+01 2fbhA 146 3.01e+01 1fsu 492 3.04e+01 1auk c.76.1.2 35032 1wy5A 317 3.05e+01 1reoA 486 3.06e+01 c.3.1.2,d.16.1.5 97325,97326 1zj6A 187 3.07e+01 1v5dA 386 3.11e+01 1nrwA 288 3.12e+01 c.108.1.10 86128 1sz6A 249 3.16e+01 1z6gA 218 3.24e+01 2bfwA 200 3.26e+01 1vj5A 555 3.46e+01 c.108.1.2,c.69.1.11 100799,100800 1x0pA 143 3.53e+01 1h8eA 510 3.56e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1to6A 371 3.63e+01 c.141.1.1 107170 1wvgA 359 3.63e+01 1jqbA 351 3.66e+01 b.35.1.2,c.2.1.1 77151,77152 1tedA 393 3.76e+01 c.95.1.2 106807 1r5zA 323 3.80e+01 f.40.1.1 97135 2bjbA 462 3.80e+01 1ta8A 332 3.83e+01 1w2yA 229 3.90e+01 a.204.1.1 109140 1jvsA 400 3.98e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1mc0A 368 4.02e+01 d.110.2.1,d.110.2.1 78937,78938 1l0qA 391 4.05e+01 b.1.3.1,b.69.2.3 77644,77645 1zczA 464 4.12e+01 1b4vA 504 4.12e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1zy9A 564 4.17e+01 1bf2 750 4.17e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 2eu9A 355 4.18e+01 1m1nB 522 4.19e+01 c.92.2.3 78418 1pwmA 316 4.19e+01 c.1.7.1 95231 2bnuA 203 4.20e+01 1kvkA 395 4.23e+01 d.14.1.5,d.58.26.3 73060,73061 1tdzA 272 4.26e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1anf 370 4.27e+01 4mbp c.94.1.1 35776 1ydwA 362 4.31e+01 2cmuA 342 4.31e+01 1hleA 345 4.32e+01 1ovaA e.1.1.1 42618 1w78A 422 4.35e+01 1w24A 182 4.37e+01 1ht6A 405 4.37e+01 b.71.1.1,c.1.8.1 83629,83630 1ivyA 452 4.41e+01 1ivyA c.69.1.5 34654 2bsaA 303 4.42e+01 1yifA 533 4.46e+01 1exrA 148 4.46e+01 1cll a.39.1.5 17299 1kcmA 270 4.48e+01 d.129.3.4 72300 1b65A 375 4.50e+01 1b65A d.154.1.1 42020 1r64A 481 4.51e+01 b.18.1.20,c.41.1.1 97140,97141 1ktbA 405 4.57e+01 b.71.1.1,c.1.8.1 72960,72961 1lycA 343 4.61e+01 a.93.1.1 74344 2agtA 319 4.65e+01 1c2pA 576 4.69e+01 1quvA e.8.1.4 43117 1obbA 480 4.71e+01 c.2.1.5,d.162.1.2 86760,86761 1k9sA 237 4.73e+01 c.56.2.1 68359 1r2rA 248 4.74e+01 c.1.1.1 96875 1v0wA 506 4.75e+01 d.136.1.2,d.136.1.2 108220,108221 1fo3A 460 4.77e+01 1dl2A a.102.2.1 18845 1ojrA 274 4.77e+01 c.74.1.1 93147 1ido 192 4.82e+01 1ido c.62.1.1 34139 1ogiA 303 4.82e+01 b.43.4.2,c.25.1.1 92914,92915 2bzsA 236 4.86e+01 2bs3C 256 4.86e+01 1aqcA 172 4.87e+01 1x11A b.55.1.2 26983 2f6hX 419 4.88e+01 1qo0D 196 4.89e+01 1qo0D c.23.1.3 31125 2bz6H 254 4.96e+01 2bcqA 335 4.99e+01 2gu3A 136 5.00e+01 1ush 550 5.01e+01 1ush d.114.1.1,d.159.1.2 40923,42079 1rdr 461 5.04e+01 1rdr e.8.1.4 43116 1xfjA 261 5.09e+01 d.194.1.2 109585 2b3oA 532 5.18e+01 1danH 254 5.23e+01 5ptp b.47.1.2 26292 1i9zA 347 5.27e+01 1i9yA d.151.1.2 62102 1bo1A 416 5.44e+01 1bo1A d.143.1.2 41591 1gtdA 85 5.45e+01 d.284.1.1 76344 1e8uA 454 5.46e+01 1e8tA b.68.1.1 59389 1j31A 262 5.49e+01 d.160.1.2 90808 1hfeL 421 5.52e+01 1fehA c.96.1.1,d.58.1.5 36018,39001 1hp1A 516 5.54e+01 d.114.1.1,d.159.1.2 70976,70977 1aisA 182 5.59e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1zmdA 474 5.61e+01 1e8cA 498 5.74e+01 c.98.1.1,c.59.1.1,c.72.2.1 59377,59378,59379 2avnA 260 5.75e+01 2a2kA 175 5.90e+01 1n0qA 93 5.94e+01 k.37.1.1 79754 1eexG 173 5.96e+01 1dioG a.23.2.1 16490 2bsxA 253 6.09e+01 2ajfA 597 6.12e+01 1oi7A 288 6.19e+01 c.2.1.8,c.23.4.1 87049,87050 1q4gA 553 6.20e+01 a.93.1.2,g.3.11.1 95789,95790 2ac5A 316 6.22e+01 1gq6A 313 6.30e+01 c.42.1.1 70341 1ku0A 388 6.32e+01 c.69.1.18 72994 1m2kA 249 6.34e+01 c.31.1.5 84754 1h70A 255 6.35e+01 1h70A d.126.1.3 60711 1ot8A 239 6.36e+01 d.211.1.1 93507 1mp9A 198 6.36e+01 d.129.1.1,d.129.1.1 91385,91386 1x1iA 752 6.37e+01 1vm9A 111 6.39e+01 b.33.1.1 108886 1txdA 385 6.40e+01 a.87.1.1,b.55.1.1 107422,107423 1qe3A 489 6.42e+01 2bce c.69.1.1 34630 1se0A 116 6.43e+01 g.52.1.1 98814 1txnA 328 6.43e+01 1nox 205 6.48e+01 1nox d.90.1.1 40242 1odmA 331 6.49e+01 b.82.2.1 86875 3ladA 476 6.51e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30573,30574,40208 1aszB 490 6.51e+01 1b8aA b.40.4.1,d.104.1.1 25241,40762 1ynfA 458 6.54e+01 1xr4A 509 6.56e+01 1jetA 517 6.59e+01 1jevA c.94.1.1 35718 1w5fA 353 6.60e+01 1ncwL 219 6.62e+01 b.1.1.1,b.1.1.2 85557,85558 1ex0A 731 6.64e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1b79A 119 6.66e+01 1b79A a.81.1.1 18451 1p1xA 260 6.68e+01 c.1.10.1 104060 1zotA 358 6.68e+01 1t1gA 364 6.75e+01 c.41.1.2 106246 1ih8A 271 6.78e+01 2nsyA c.26.2.1 62377 1cznA 169 6.82e+01 1rcf c.23.5.1 31181 1ivg 388 6.84e+01 2qwc b.68.1.1 27578 1de4C 640 6.86e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1zcbA 362 6.89e+01 1qhdA 398 6.94e+01 1qhdA a.115.1.2,b.19.1.1 63324,63325 2gnpA 266 6.98e+01 1cl8A 276 6.99e+01 1ckqA c.52.1.1 33230 1lcyA 325 7.10e+01 b.36.1.4,b.47.1.1 73834,73835 1evuA 731 7.10e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1x9dA 538 7.10e+01 1vf8A 377 7.13e+01 1w34A 304 7.15e+01 1jnrA 643 7.20e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1u9cA 224 7.21e+01 1orvA 728 7.22e+01 b.70.3.1,c.69.1.24 87354,87355 1nnjA 271 7.27e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1wz9A 375 7.28e+01 1gz8A 299 7.30e+01 d.144.1.7 83405 1tph1 247 7.31e+01 1amk 1z0wA 207 7.33e+01 1fjgB 256 7.35e+01 1fjfB c.23.15.1 31400 1d2zB 153 7.36e+01 1d2zB a.77.1.2 18439 1n62C 288 7.36e+01 d.87.2.1,d.145.1.3 80094,80095 1jjfA 268 7.40e+01 c.69.1.2 66765 1b1cA 181 7.42e+01 1amoA c.23.5.2 31212 1x1nA 524 7.46e+01 2btfA 375 7.47e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1ycsB 239 7.50e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1oaoC 729 7.53e+01 e.26.1.3 86746 1cs1A 386 7.60e+01 1ibjA c.67.1.3 34399 1txuA 273 7.64e+01 a.222.1.1 107439 2cunA 410 7.66e+01 2fjbA 643 7.68e+01 1f8rA 498 7.71e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1yq2A 1024 7.74e+01 1eluA 390 7.81e+01 1elqA c.67.1.3 34434 1kliH 254 7.85e+01 b.47.1.2 77435 1vk8A 106 7.88e+01 d.58.48.1 108636 1gnd 447 7.91e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1hnnA 282 7.92e+01 c.66.1.15 65895 1alvA 173 7.95e+01 1alvA a.39.1.8 17370 1lc5A 364 7.96e+01 c.67.1.1 73827 1v1aA 309 7.99e+01 c.72.1.1 100249 1qj2C 285 8.01e+01 1qj2C 1ydlA 79 8.02e+01 1g4mA 393 8.11e+01 b.1.18.11,b.1.18.11 65143,65144 1ee8A 266 8.14e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1dywA 173 8.27e+01 2cpl b.62.1.1 27505 1a99A 344 8.27e+01 1pot c.94.1.1 35812 1vj7A 393 8.29e+01 a.211.1.1,d.218.1.8 100801,100802 1z6kA 293 8.34e+01 2cw6A 298 8.38e+01 1ea9C 583 8.40e+01 b.1.18.2,b.71.1.1,c.1.8.1 70087,70088,70089 1sfnA 246 8.52e+01 b.82.1.11 105496 1xd8A 289 8.56e+01 1hlgA 371 8.57e+01 1hlgA c.69.1.6 34656 1f0kA 364 8.65e+01 1f0kA c.87.1.2 35465 1juvA 193 8.67e+01 c.71.1.1 90912 2fv7A 331 8.69e+01 1tn6B 437 8.70e+01 1bvyF 191 8.71e+01 1bvyF c.23.5.1 31207 1sazA 381 8.75e+01 1sqnA 261 8.76e+01 a.123.1.1 105944 2cy2A 174 8.76e+01 1xrhA 351 8.79e+01 2bvyA 475 8.79e+01 1m6pA 152 8.89e+01 1m6pA b.64.1.1 27519 1xv5A 401 8.96e+01 1auiB 169 8.97e+01 1auiB a.39.1.5 17325