# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1d8hA 311 2.69e-01 1d8iA d.63.1.1 39544 1gm6A 175 2.77e-01 b.60.1.1 70272 1d8iA 311 3.07e-01 1d8iA d.63.1.1 39541 1cjxA 357 5.61e-01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1p9vA 310 5.74e-01 d.21.1.2 88007 d.21.1.2 88008 1sdjA 310 5.74e-01 1sqc 631 1.12e+00 2sqcA a.102.4.2 18858 a.102.4.2 18859 1gtdA 85 1.23e+00 d.58.45.1 76344 1ew3A 159 1.42e+00 1mup b.60.1.1 27114 1lfpA 249 1.69e+00 e.39.1.1 73885 1o4sA 389 1.85e+00 c.67.1.1 86620 1jeoA 180 2.34e+00 c.80.1.3 66611 1kk9A 221 2.35e+00 d.115.1.1 77432 1k7jA 206 2.43e+00 d.115.1.1 72103 1rhs 296 2.52e+00 1rhs c.46.1.2 32703 c.46.1.2 32704 1czaN 917 2.77e+00 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1v8cA 168 2.81e+00 2sqcA 631 2.83e+00 2sqcA a.102.4.2 18854 a.102.4.2 18855 1hkcA 917 2.91e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1i4uA 181 3.18e+00 b.60.1.1 61732 1hkbA 917 3.24e+00 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1eg5A 384 3.52e+00 1ecxA c.67.1.3 34429 1rkqA 282 3.53e+00 1h91A 180 3.60e+00 b.60.1.1 60805 1iq4A 179 3.66e+00 1iq4A d.77.1.1 62641 1nnhA 294 3.75e+00 1ecxA 384 3.77e+00 1ecxA c.67.1.3 34431 1dgkN 917 4.12e+00 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1k3eA 156 4.16e+00 d.198.1.1 68103 1bh5A 183 4.26e+00 1qipA d.32.1.1 38476 1ukuA 102 4.27e+00 1l7mA 211 4.35e+00 c.108.1.4 73664 1sqsA 242 4.35e+00 1f5sA 211 4.38e+00 1f5sA c.108.1.4 59656 1j97A 211 4.41e+00 1f5sA c.108.1.4 62753 1r9cA 139 5.03e+00 1jwyB 315 5.45e+00 c.37.1.8 67401 1ax4A 467 5.59e+00 1ax4A c.67.1.2 34391 1qipA 183 5.84e+00 1qipA d.32.1.1 38470 1imuA 107 5.87e+00 d.204.1.1 66218 1iznA 286 5.89e+00 e.43.1.1 83847 1hn2A 159 6.44e+00 b.60.1.1 65890 1gt1A 159 6.45e+00 1rwsA 77 6.53e+00 1l6rA 227 6.79e+00 c.108.1.10 77768 1f1xA 322 6.87e+00 d.32.1.3 83208 d.32.1.3 83209 1g2qA 187 7.20e+00 c.61.1.1 65117 1ajsA 412 7.71e+00 1ajsA c.67.1.1 34276 1kr4A 125 8.27e+00 d.58.5.2 72889 1f1uA 323 8.95e+00 d.32.1.3 83200 d.32.1.3 83201 1ex2A 189 9.09e+00 1ex2A c.51.4.2 33225 1esgA 213 9.59e+00 1bam c.52.1.3 33286 1c0aA 585 9.60e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1n25A 368 9.80e+00 c.37.1.20 85264 1j5yA 187 1.02e+01 a.4.5.1 71592 d.94.2.1 71593 1ks2A 219 1.02e+01 c.35.1.2 72908 d.58.40.1 72909 1atiA 505 1.03e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 1gseA 221 1.08e+01 1pgtA a.45.1.1 17667 c.47.1.5 32961 1tplA 426 1.09e+01 1ax4A c.67.1.2 34387 1jflA 228 1.10e+01 c.78.2.1 71656 c.78.2.1 71657 1d7kA 421 1.15e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1k3lA 221 1.17e+01 a.45.1.1 77229 c.47.1.5 77230 1k3yA 221 1.17e+01 a.45.1.1 77245 c.47.1.5 77246 7odcA 424 1.18e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1n7oA 721 1.21e+01 a.102.3.2 80259 b.24.1.1 80260 b.30.5.2 80261 1e8cA 498 1.28e+01 c.98.1.1 59377 c.59.1.1 59378 c.72.2.1 59379 1a88A 275 1.28e+01 1brt c.69.1.12 34707 1rxyA 253 1.28e+01 1aw0 72 1.29e+01 1aw0 d.58.17.1 39342 1oz9A 150 1.32e+01 1g8lA 411 1.32e+01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1c96A 753 1.33e+01 1amj c.8.2.1 30727 c.83.1.1 35403 2pflA 759 1.35e+01 1cm5A c.7.1.1 30675 1lngA 87 1.37e+01 d.201.1.1 74045 1qtoA 122 1.37e+01 1bylA d.32.1.2 38494 3pflA 759 1.39e+01 1cm5A c.7.1.1 30673 1hbkA 94 1.39e+01 1aca a.11.1.1 60887 1atiB 505 1.39e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1cm5A 759 1.41e+01 1cm5A c.7.1.1 30671 1h16A 759 1.42e+01 c.7.1.1 76462 1jc4A 148 1.43e+01 1jc4A d.32.1.4 62863 1tdj 514 1.43e+01 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1r6lA 239 1.45e+01 1lx7A 253 1.47e+01 c.56.2.1 74329 8acn 754 1.48e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1qhaA 917 1.49e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1qqsA 174 1.53e+01 1nglA b.60.1.1 27143 1ub3A 220 1.55e+01 c.1.10.1 88395 6acn 754 1.60e+01 1amj c.8.2.1 30721 c.83.1.1 35397 1eguA 731 1.60e+01 1eguA a.102.3.2 18850 b.24.1.1 23899 b.30.5.2 24423 1lkzA 219 1.61e+01 c.35.1.2 73991 d.58.40.1 73992 1vioA 243 1.61e+01 1rhd 293 1.62e+01 1rhs c.46.1.2 32715 c.46.1.2 32716 1amj 754 1.64e+01 1amj c.8.2.1 30725 c.83.1.1 35401 1l0bA 229 1.64e+01 c.15.1.3 73391 c.15.1.3 73392 3bamB 213 1.70e+01 1bam c.52.1.3 33289 1nrzA 164 1.71e+01 c.38.1.1 86131 1p8kZ 254 1.72e+01 1lmzA 187 1.73e+01 a.96.1.4 74037 1j0hA 588 1.73e+01 b.1.18.2 77027 b.71.1.1 77028 c.1.8.1 77029 1irxA 523 1.74e+01 a.97.1.2 71378 c.26.1.1 71379 7acn 754 1.75e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1jyhA 157 1.77e+01 d.60.1.3 71956 3bamA 213 1.83e+01 1bam c.52.1.3 33288 1guzA 310 1.85e+01 c.2.1.5 65586 d.162.1.1 65587 1ejdA 419 1.85e+01 1uae d.68.2.2 39576 1jvnA 555 1.85e+01 c.1.2.1 67355 c.23.16.1 67356 1avqA 228 1.87e+01 1avqA c.52.1.13 33326 1j6uA 469 1.90e+01 c.5.1.1 77094 c.59.1.1 77095 c.72.2.1 77096 1d2eA 397 1.93e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1b0jA 754 1.95e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1dzlA 505 1.98e+01 1dzlA b.121.6.1 23586 1dcpA 104 1.98e+01 1dcpA d.74.1.1 39672 1obpA 159 1.99e+01 1obpA b.60.1.1 27092 1r6uA 437 1.99e+01 1iv3A 152 2.03e+01 d.79.5.1 76828 1qgvA 142 2.04e+01 1qgvA c.47.1.8 33056 1kw3B 292 2.06e+01 d.32.1.3 77549 d.32.1.3 77550 1dcoA 104 2.07e+01 1dcpA d.74.1.1 39680 1dgsA 667 2.09e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1kn6A 90 2.13e+01 d.58.3.3 72770 1itg 166 2.15e+01 1b9dA c.55.3.2 33661 1mkp 144 2.15e+01 1vhrA c.45.1.1 32654 1s7jA 262 2.20e+01 1ofv 169 2.28e+01 1rcf c.23.5.1 31184 1uae 419 2.28e+01 1uae d.68.2.2 39574 1dhy 292 2.32e+01 1han d.32.1.3 38504 d.32.1.3 38505 2rslA 140 2.36e+01 2rslA c.53.1.1 33345 1cznA 169 2.44e+01 1rcf c.23.5.1 31181 1ka1A 357 2.44e+01 e.7.1.1 68369 1qgxA 357 2.45e+01 1qgxA e.7.1.1 42973 1p3wA 404 2.50e+01 c.67.1.3 87752 1h72C 296 2.51e+01 d.14.1.5 60712 d.58.26.1 60713 1i60A 278 2.52e+01 c.1.15.4 71118 1jjyA 636 2.52e+01 1jjyA e.26.1.2 63141 2cpgA 45 2.54e+01 2cpgA a.43.1.2 17455 1f93A 104 2.66e+01 1dcpA d.74.1.1 39688 1h4rA 314 2.68e+01 a.11.2.1 65616 b.55.1.5 65617 d.15.1.4 65618 1bed 181 2.69e+01 1fvkA a.44.1.1 17514 c.47.1.4 32808 1mli 96 2.74e+01 1mli d.58.4.1 39070 1ii7A 333 2.75e+01 1ii7A d.159.1.4 62415 1gr8A 412 2.75e+01 1ockA 412 2.75e+01 c.117.1.1 86802 1pgtA 210 2.78e+01 1pgtA a.45.1.1 17515 c.47.1.5 32809 1jx2B 315 2.80e+01 c.37.1.8 67404 1fuiA 591 2.82e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1gdgA 293 2.83e+01 1b8aA 438 2.85e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1cs1C 386 2.90e+01 1ibjA c.67.1.3 34401 1k3fA 253 2.92e+01 c.56.2.1 68105 1fa8A 135 2.96e+01 1qipA d.32.1.1 38486 1d3uB 201 2.96e+01 1aisB a.74.1.2 18386 a.74.1.2 18387 1ng6A 148 3.01e+01 a.182.1.1 85670 1qdlA 422 3.01e+01 1qdlA d.161.1.1 42088 1lgtA 297 3.03e+01 d.32.1.3 77956 d.32.1.3 77957 1jslA 327 3.04e+01 c.88.1.1 67233 1ej0A 180 3.04e+01 1ej0A c.66.1.2 34179 1r5jA 337 3.05e+01 1ewqA 765 3.07e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1o7jA 327 3.07e+01 c.88.1.1 81140 1mzhA 225 3.10e+01 c.1.10.1 79698 1b7yA 350 3.11e+01 1pysA d.104.1.1 40776 1jsrA 327 3.14e+01 c.88.1.1 67237 1iu9A 111 3.21e+01 1oglA 283 3.23e+01 1ytbB 180 3.24e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1c7gA 456 3.27e+01 1rfmA 344 3.29e+01 1f9zA 135 3.32e+01 1qipA d.32.1.1 38484 2ay1A 394 3.34e+01 1ajsA c.67.1.1 34357 1jbeA 128 3.38e+01 3chy c.23.1.1 62845 1tbaB 180 3.38e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1f3aA 222 3.41e+01 1pgtA a.45.1.1 17701 c.47.1.5 32995 1nh8A 304 3.41e+01 c.94.1.1 80507 d.58.5.3 80508 1rcf 169 3.48e+01 1rcf c.23.5.1 31170 1ah6 220 3.49e+01 1yer d.122.1.1 41094 1oboA 169 3.53e+01 c.23.5.1 86776 1hruA 188 3.55e+01 1hruA d.115.1.1 40926 1qwdA 177 3.56e+01 1e4fT 419 3.57e+01 1e4fT c.55.1.1 33453 c.55.1.1 33454 1e6mA 128 3.60e+01 3chy c.23.1.1 31039 1ytbA 180 3.61e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1ltqA 301 3.62e+01 c.108.1.9 78208 c.37.1.1 78209 1nd4A 264 3.63e+01 1k8wA 327 3.63e+01 b.122.1.1 83094 d.58.35.2 68317 d.58.35.2 83095 1j7lA 264 3.66e+01 d.144.1.6 62697 1fwkA 296 3.67e+01 1fwkA d.14.1.5 37576 d.58.26.1 39398 1rliA 184 3.70e+01 1f60A 458 3.70e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1f1zA 273 3.72e+01 1f1zA a.4.5.27 16081 c.52.1.16 33334 1bgp 309 3.78e+01 1bgp a.93.1.1 18690 1hgxA 183 3.80e+01 1tc1A c.61.1.1 34027 1dqwA 267 3.81e+01 1dqwA c.1.2.3 28551 1n91A 108 3.84e+01 d.206.1.1 80326 1o89A 345 3.85e+01 1qg6A 261 3.86e+01 1eny c.2.1.2 29919 1r69 69 3.88e+01 1r69 a.35.1.2 17028 1tkaA 678 3.88e+01 1trkA c.36.1.6 31816 c.36.1.10 31815 c.48.1.1 33096 1ry9A 145 3.89e+01 1su8A 636 3.89e+01 1m93B 245 3.91e+01 3ssi 113 3.92e+01 3ssi d.84.1.1 40032 1oghA 204 3.94e+01 b.85.4.1 86994 1d5mC 239 3.94e+01 3seb b.40.2.2 25185 d.15.6.1 37774 1mjoA 104 3.97e+01 1cmbA a.43.1.2 17466