# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1v6fA 151 4.14e-21 1f7sA 139 6.39e-20 1cof d.109.1.2 40857 1hqz1 141 1.65e-16 1m4jA 142 1.53e-15 d.109.1.2 78602 1udmA 149 6.25e-12 1nm1G 125 4.03e-03 d.109.1.1 80653 1d4xG 126 4.53e-03 1d0nA d.109.1.1 59109 1svy 114 4.61e-03 1svy d.109.1.1 40831 1p8xA 344 3.53e-02 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1kcqA 104 3.98e-02 d.109.1.1 68449 1ako 268 8.88e-02 1ako d.151.1.1 41779 1jx4A 352 1.52e-01 unknown_sccs -10188 unknown_sccs -11898 1i9zA 347 1.62e-01 1i9yA d.151.1.2 62102 1jtkA 136 2.59e-01 c.97.1.1 71862 1qsmA 152 2.63e-01 1qsmA d.108.1.1 40808 1j3wA 163 2.77e-01 unknown_sccs -10870 1vybA 238 2.87e-01 1ijgA 309 4.16e-01 1fouA e.27.1.1 62493 1qsoA 149 5.08e-01 1qsmA d.108.1.1 40812 1mml 265 5.11e-01 1mml e.8.1.2 43015 1ex2A 189 5.26e-01 1ex2A c.51.4.2 33225 1uwzA 136 6.84e-01 1unnC 115 7.04e-01 unknown_sccs -10216 1qk8A 146 7.58e-01 1ewxA c.47.1.10 33061 1n9bA 265 8.31e-01 e.3.1.1 85463 1btl 263 1.74e+00 1btl e.3.1.1 42691 1pmhX 185 1.75e+00 2dnjA 260 1.82e+00 3dni d.151.1.1 41790 1hfoA 113 1.85e+00 d.80.1.3 61006 1o8xA 146 1.92e+00 c.47.1.10 86681 1h5wA 309 2.04e+00 e.27.1.1 65635 1skoB 130 2.06e+00 1gv3A 248 2.11e+00 a.2.11.1 70585 d.44.1.1 70586 1i5gA 144 2.21e+00 1ewxA c.47.1.10 61784 1qqqA 264 2.24e+00 1bkpA d.117.1.1 40931 1ermA 263 2.31e+00 1btl e.3.1.1 42690 1mai 131 2.38e+00 1mai b.55.1.1 26951 1hynP 379 2.45e+00 1hynP d.112.1.2 61408 1evfA 264 2.50e+00 1bkpA d.117.1.1 40932 1m40A 263 3.02e+00 e.3.1.1 74437 3dni 260 3.13e+00 3dni d.151.1.1 41791 1ifqA 138 3.55e+00 1ifqA d.110.4.1 62350 2hgsA 474 3.72e+00 2hgsA c.30.1.4 31722 d.142.1.6 75997 1my6A 199 4.02e+00 a.2.11.1 85232 d.44.1.1 85233 1burS 123 4.04e+00 1rboC 1vicA 262 4.18e+00 c.68.1.13 -8252 1r5tA 142 4.26e+00 1oi0A 124 4.74e+00 unknown_sccs -8782 1bg2 325 5.00e+00 1bg2 c.37.1.9 32189 1fw9A 164 5.12e+00 1fw9A d.190.1.1 60059 1gd0A 122 5.14e+00 1dptA d.80.1.3 39834 1hw7A 255 5.22e+00 1i7fA d.193.1.1 61297 1ua4A 455 6.06e+00 c.72.1.3 -8416 1vhxA 150 6.43e+00 unknown_sccs -7663 1s3zA 165 6.97e+00 1go4A 205 7.02e+00 d.135.1.1 70292 1iscA 192 7.14e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1eejA 216 7.17e+00 1eejA c.47.1.9 33057 d.17.3.1 38071 1poiB 260 7.24e+00 1poiB unknown_sccs 34155 1s96A 219 7.34e+00 c.37.1.1 -6972 1i6iA 366 7.65e+00 1bg2 c.37.1.9 61844 1kjnA 157 8.07e+00 c.115.1.1 72614 8rucI 123 8.16e+00 1rboC d.73.1.1 39629 1jfuA 186 8.20e+00 c.47.1.10 62940 1p7gA 222 8.37e+00 a.2.11.1 -108 d.44.1.1 -9742 1qauA 112 8.45e+00 1qauA b.36.1.1 24779 1qd1A 325 8.58e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 1no5A 114 8.59e+00 unknown_sccs -9785 1rifA 282 8.77e+00 unknown_sccs -7265 1o1zA 234 9.04e+00 c.1.18.3 86555 1hnf 182 9.25e+00 1qa9A b.1.1.1 19741 b.1.1.3 21680 1ly1A 181 9.49e+00 c.37.1.1 74334 1q6hA 224 9.70e+00 d.26.1.1 -9487 1mngA 203 9.76e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1npyA 271 1.01e+01 c.2.1.7 85995 c.58.1.5 85996 1fb6A 105 1.01e+01 1thx c.47.1.1 32739 1vkiA 181 1.03e+01 1mu5A 471 1.11e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1iicA 422 1.15e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1nrwA 288 1.20e+01 c.108.1.10 86128 1b77A 228 1.26e+01 1b77A d.131.1.2 41362 d.131.1.2 41363 1r6lA 239 1.27e+01 d.14.1.4 -9057 d.101.1.1 -10747 1ihgA 370 1.28e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1o6sB 105 1.29e+01 b.1.6.1 81096 1hd7A 318 1.30e+01 1bix d.151.1.1 41780 1czaN 917 1.31e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1ix9A 205 1.31e+01 a.2.11.1 76899 d.44.1.1 76900 1o4vA 183 1.32e+01 c.23.8.1 86628 1i0hA 205 1.32e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1lniA 96 1.34e+01 d.1.1.2 74046 1gggA 226 1.42e+01 1lst c.94.1.1 35817 1larA 575 1.46e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1uesA 191 1.46e+01 1l4iA 206 1.51e+01 b.1.11.1 73564 b.7.2.1 73565 1ebfA 358 1.51e+01 1ebuA c.2.1.3 30033 d.81.1.2 39948 1gvjA 146 1.51e+01 a.4.5.21 -293 1bcpB 199 1.52e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1jidA 128 1.57e+01 d.201.1.1 66735 1i4uA 181 1.59e+01 b.60.1.1 61732 1vhyA 257 1.59e+01 b.122.1.2 -5129 c.116.1.5 -6705 1bo4A 168 1.63e+01 1bo4A d.108.1.1 40798 1jb0D 138 1.65e+01 1jb0D d.187.1.1 62823 1edzA 320 1.66e+01 1ee9A c.2.1.7 30287 c.58.1.2 33935 3rubS 123 1.67e+01 1rboC d.73.1.1 39616 1nijA 318 1.69e+01 c.37.1.10 85741 d.237.1.1 85742 1cbf 285 1.70e+01 1cbf c.90.1.1 35587 1lu4A 136 1.72e+01 c.47.1.10 -7509 1qnnA 191 1.75e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1bbpA 173 1.78e+01 1bbpA b.60.1.1 27147 1e5pA 151 1.78e+01 1bj7 b.60.1.1 59272 1pne 140 1.79e+01 1pne d.110.1.1 40866 1i5pA 633 1.79e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1dbxA 158 1.84e+01 1dbuA d.116.1.1 40928 3nul 130 1.84e+01 3nul d.110.1.1 40891 1fhuA 320 1.92e+01 1fhuA c.1.11.2 29234 d.54.1.1 38878 1qhxA 178 2.01e+01 1qhsA c.37.1.3 31936 1avmA 201 2.04e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1jlnA 297 2.09e+01 1pty c.45.1.2 63172 1n8fA 350 2.10e+01 c.1.10.4 85397 1v04A 355 2.18e+01 unknown_sccs -4592 1qysA 106 2.18e+01 unknown_sccs -13432 1js8A 394 2.21e+01 a.86.1.1 67219 b.112.1.1 67220 1ou8A 111 2.22e+01 unknown_sccs -3799 1a79A 171 2.27e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1f46A 140 2.29e+01 1f46A d.129.4.1 59643 1pxfA 111 2.34e+01 b.40.4.4 88341 1uldA 150 2.37e+01 b.29.1.3 -3423 1d7yA 408 2.39e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1n8jA 186 2.39e+01 c.47.1.10 85401 1rgeA 96 2.40e+01 1rgeA d.1.1.2 36028 1ltlA 279 2.41e+01 b.40.4.11 84701 1cojA 212 2.42e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1auvA 311 2.42e+01 1auvA c.30.1.5 31723 d.142.1.3 41558 1ej1A 190 2.42e+01 1ejhA d.86.1.1 40144 1nu0A 138 2.45e+01 unknown_sccs -7658 2phlA 397 2.50e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1nlnA 204 2.52e+01 d.3.1.7 -8897 1oejA 193 2.54e+01 unknown_sccs -4461 1ooyA 481 2.59e+01 unknown_sccs -6867 unknown_sccs -6873 1odfA 290 2.59e+01 c.37.1.6 -7045 1g1sA 162 2.59e+01 d.169.1.1 65100 g.3.11.1 65101 1jmsA 381 2.60e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 1ff9A 450 2.61e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1bsmA 201 2.65e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1o58A 303 2.70e+01 c.79.1.1 -8503 1g71A 347 2.72e+01 1g71A unknown_sccs 43268 2polA 366 2.74e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1914 232 2.74e+01 1914 d.49.1.1 83028 d.49.1.1 83029 1ne9A 335 2.77e+01 d.108.1.4 -10805 d.108.1.4 -10806 1p0zA 131 2.79e+01 unknown_sccs -10853 1jsdB 176 2.79e+01 h.3.1.1 63259 1gdhA 320 2.80e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1kngA 156 2.81e+01 c.47.1.10 72777 1qtqA 553 2.82e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1o1yA 239 2.86e+01 c.23.16.1 86554 1otgA 125 2.89e+01 1otgA d.80.1.2 39831 1gxqA 106 2.93e+01 a.4.6.1 70721 1okgA 373 2.94e+01 c.46.1.2 -7367 c.46.1.2 -7368 unknown_sccs -9494 1korA 400 2.95e+01 c.26.2.1 72824 d.210.1.1 72825 1usgA 346 2.95e+01 c.93.1.1 -8635 1q0bA 367 2.96e+01 c.37.1.9 -7105 1bzyA 217 2.98e+01 1qk3A c.61.1.1 34071 1kshB 152 3.02e+01 b.1.18.8 72915 1k8rB 110 3.02e+01 d.15.1.5 72180 1jofA 365 3.05e+01 b.69.10.1 71775 1d02A 202 3.06e+01 1d02A c.52.1.8 33313 1rliA 184 3.07e+01 unknown_sccs -6438 1qwyA 291 3.08e+01 unknown_sccs -5023 1k82A 268 3.09e+01 a.156.1.2 75866 b.113.1.1 75867 g.39.1.8 75868 1v9kA 228 3.11e+01 1gsoA 431 3.13e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1gdoA 240 3.15e+01 1gdoA d.153.1.1 41804 1k8tA 510 3.21e+01 e.41.1.1 68316 1nf2A 268 3.22e+01 c.108.1.10 -6842 1mdwA 328 3.30e+01 d.3.1.3 84934 1b4pA 217 3.31e+01 a.45.1.1 83158 c.47.1.5 83159 1thx 115 3.32e+01 1thx c.47.1.1 32732 1gg1A 350 3.32e+01 1qr7A c.1.10.4 29187 1musA 477 3.33e+01 c.55.3.4 79494 1pa1A 310 3.34e+01 c.45.1.2 -7332 1enp 312 3.36e+01 1enp c.2.1.2 29906 1jzuA 157 3.38e+01 b.60.1.1 84271 1uc7A 125 3.40e+01 c.47.1.1 -7414 1h3nA 878 3.42e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1ujxA 119 3.43e+01 b.26.1.2 -3325 1smpI 101 3.48e+01 1smpI b.61.2.1 27417 1lrzA 426 3.49e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1vddA 228 3.51e+01 1od3A 168 3.54e+01 b.18.1.10 86825 1h2kA 349 3.58e+01 b.82.2.6 76572 1s4nA 348 3.58e+01 unknown_sccs -8262 1rkqA 282 3.59e+01 c.108.1.10 -6847 1plq 258 3.59e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1nykA 165 3.60e+01 b.33.1.1 86408 1r53A 382 3.63e+01 unknown_sccs -11177 1n71A 180 3.66e+01 d.108.1.1 85370 1jkxA 212 3.67e+01 c.65.1.1 66813 1m7vA 363 3.69e+01 d.174.1.1 78748 1kkcA 221 3.70e+01 a.2.11.1 68660 d.44.1.1 68661 1a62 130 3.71e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1fcjA 322 3.75e+01 1oasA c.79.1.1 35289 1b06A 210 3.78e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1d7oA 297 3.82e+01 1enp c.2.1.2 29907 2tpsA 227 3.85e+01 2tpsA c.1.3.1 28591 1uyrA 737 3.87e+01 c.14.1.4 -6258 c.14.1.4 -6259 2trxA 108 3.88e+01 1thx c.47.1.1 32719 1nxzA 246 3.91e+01 b.122.1.2 86391 c.116.1.5 86392 1uctA 218 3.92e+01 b.1.1.4 88467 b.1.1.4 88468 1iz5A 249 3.93e+01 d.131.1.2 83834 d.131.1.2 83835 1qhlA 227 3.96e+01 1qhlA c.37.1.12 32382