# 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 1r71A 178 4.97e-01 1khdA 345 5.05e-01 a.46.2.1 77400 c.27.1.1 77401 1dmgA 225 8.64e-01 1dmgA c.22.1.1 31036 1vhxA 150 1.00e+00 unknown_sccs -7663 1hyeA 313 1.29e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1q48A 134 1.32e+00 unknown_sccs -9776 1oacA 727 1.44e+00 1oacA b.30.2.1 24390 d.17.2.1 38007 d.17.2.1 38008 d.82.1.1 40003 1exqA 154 1.45e+00 1b9dA c.55.3.2 33646 6paxA 133 1.71e+00 6paxA a.4.1.5 64758 a.4.1.5 64759 1on2A 142 1.91e+00 a.4.5.24 87103 a.76.1.1 87104 1bl3A 160 1.93e+00 1b9dA c.55.3.2 33655 1f5mA 180 2.14e+00 1f5mB d.110.2.1 40895 1ec7A 446 2.21e+00 1bqg c.1.11.2 29218 d.54.1.1 38862 1bj7 156 2.27e+00 1bj7 b.60.1.1 27113 1mkmA 249 2.37e+00 a.4.5.33 79242 d.110.2.2 79243 1lw9A 164 2.55e+00 d.2.1.3 84727 1p36A 164 2.79e+00 d.2.1.3 -8840 2dpmA 284 2.80e+00 2dpmA c.66.1.28 34246 1lldA 319 2.81e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 1oeyA 83 2.98e+00 d.15.2.2 -9162 1j54A 186 3.02e+00 c.55.3.5 77077 1rvkA 382 3.04e+00 c.1.11.2 -5568 d.54.1.1 -9826 1p0hA 318 3.23e+00 d.108.1.1 -10802 1egaA 301 3.30e+00 1egaA c.37.1.8 32150 d.52.3.1 38836 1f2tB 148 3.46e+00 1f2tB 1dkzA 219 3.66e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1itg 166 3.83e+00 1b9dA c.55.3.2 33661 1l7mA 211 4.78e+00 c.108.1.4 73664 1fsz 372 4.95e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1miwA 404 5.40e+00 a.173.1.1 79162 d.218.1.4 79163 1ej1A 190 5.42e+00 1ejhA d.86.1.1 40144 119l 164 5.45e+00 1l92 d.2.1.3 36622 1kk8B 139 5.76e+00 a.39.1.5 77430 1q06A 135 5.85e+00 a.6.1.3 -375 1pn0A 665 5.91e+00 c.3.1.2 -5992 c.47.1.10 -7513 d.16.1.2 -9210 1r9fA 136 5.93e+00 unknown_sccs -10736 1fohA 664 6.04e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1ns5A 155 6.07e+00 c.116.1.3 80705 1jpmA 366 6.09e+00 c.1.11.2 67031 d.54.1.1 67032 1b5eA 246 6.12e+00 1b5eA d.117.1.1 41056 1gw5S 142 6.38e+00 d.110.4.2 70633 2kinA 238 6.74e+00 1bg2 c.37.1.9 32190 1vhmA 195 7.25e+00 d.110.2.1 -10828 1ohuA 175 7.41e+00 f.1.4.1 -12058 1lmb3 92 7.42e+00 1lmb3 1fu1A 203 7.63e+00 1fu1B b.59.1.1 27076 h.1.11.1 45630 1mldA 314 7.71e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1om4A 422 7.94e+00 d.174.1.1 87067 1wdcB 156 8.01e+00 1wdcB a.39.1.5 17302 1o1zA 234 8.44e+00 c.1.18.3 86555 1m6jA 261 8.57e+00 c.1.1.1 78693 1o17A 345 8.62e+00 a.46.2.1 80765 c.27.1.1 80766 1oglA 283 8.89e+00 unknown_sccs -1512 1i1iP 681 8.90e+00 1i1iP d.92.1.5 40297 1hf8A 289 9.45e+00 1hg5A unknown_sccs -399 unknown_sccs -1628 1r1mA 164 9.78e+00 unknown_sccs -10431 1b0nA 111 9.85e+00 1b0nA a.34.1.1 17001 a.35.1.3 17064 1fvkA 189 1.02e+01 1fvkA unknown_sccs -7419 1m45A 148 1.02e+01 a.39.1.5 78598 1o54A 277 1.02e+01 c.66.1.13 -8095 1acvA 189 1.02e+01 1fvkA unknown_sccs -7428 1nrjA 158 1.04e+01 d.110.4.4 86124 1lb2B 84 1.06e+01 a.60.3.1 77871 1hyhA 309 1.18e+01 1hyhA c.2.1.5 30150 d.162.1.1 42117 1f1eA 154 1.19e+01 a.22.1.2 64927 1khyA 148 1.20e+01 a.174.1.1 77410 1914 232 1.23e+01 1914 d.49.1.1 83028 d.49.1.1 83029 1r89A 437 1.27e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1r6lA 239 1.29e+01 d.14.1.4 -9057 d.101.1.1 -10747 1mdbA 539 1.31e+01 e.23.1.1 79008 1vjlA 164 1.35e+01 unknown_sccs -11117 1d3gA 367 1.37e+01 1d3gA c.1.4.1 28600 1nrgA 261 1.38e+01 b.45.1.1 80694 6ldh 330 1.38e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1m22A 503 1.40e+01 c.117.1.1 78464 1r26A 125 1.41e+01 c.47.1.1 -7389 1j97A 211 1.41e+01 1f5sA c.108.1.4 62753 1bea 127 1.42e+01 1bea a.52.1.2 17826 1g8fA 511 1.44e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1hetA 374 1.51e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976 1b43A 340 1.52e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 1q0sA 259 1.56e+01 c.66.1.28 -8110 1n8kA 374 1.57e+01 b.35.1.2 80298 c.2.1.1 80299 1j7lA 264 1.57e+01 d.144.1.6 62697 1uasA 362 1.59e+01 b.71.1.1 88388 c.1.8.1 88389 1j1vA 94 1.61e+01 a.4.12.2 83981 1ad2 228 1.61e+01 1ad2 e.24.1.1 43353 1v8gA 329 1.63e+01 a.46.2.1 -953 c.27.1.1 -6644 1s7oA 113 1.66e+01 1p9oA 313 1.70e+01 unknown_sccs -8423 6gsvA 217 1.71e+01 1b8xA a.45.1.1 17633 c.47.1.5 32925 1top 162 1.77e+01 1ncx a.39.1.5 17223 1ptmA 329 1.78e+01 unknown_sccs -8456 1v8cA 168 1.80e+01 d.15.3.1 -9175 unknown_sccs -11012 1d4xG 126 1.80e+01 1d0nA d.109.1.1 59109 1c7qA 445 1.80e+01 2pgi c.80.1.2 35307 2tct 207 1.81e+01 2tct a.4.1.9 16063 a.121.1.1 19240 1vddA 228 1.87e+01 1h9oA 112 1.88e+01 1qadA d.93.1.1 60837 1pdo 135 1.88e+01 1pdo c.54.1.1 33376 1q0bA 367 1.88e+01 c.37.1.9 -7105 1ma3A 253 1.90e+01 c.31.1.5 78883 1k32A 1045 1.90e+01 b.36.1.3 68068 b.68.7.1 68069 b.69.9.1 68070 c.14.1.2 68071 2sak 121 1.93e+01 2sak d.15.5.1 37711 1hyvA 166 1.93e+01 1b9dA c.55.3.2 61424 2yhx 457 1.93e+01 2yhx i.12.1.1 46024 1l3lA 234 1.98e+01 a.4.6.2 73541 d.110.5.1 73542 1ubi 76 1.98e+01 1ubi d.15.1.1 37584 1jbkA 195 2.06e+01 c.37.1.20 71631 1fi4A 416 2.13e+01 1fi4A d.14.1.5 59847 d.58.26.2 59848 1f9vA 347 2.14e+01 1bg2 c.37.1.9 59745 1dp0A 1023 2.15e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1ezwA 349 2.17e+01 1ezwA c.1.16.3 29558 1lxjA 104 2.17e+01 d.58.48.1 84736 1pa7A 130 2.17e+01 a.40.1.1 -896 1tc5A 194 2.21e+01 1jz8A 1023 2.23e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1rliA 184 2.26e+01 unknown_sccs -6438 1ogwA 76 2.26e+01 d.15.1.1 87001 1q15A 503 2.28e+01 c.26.2.1 -6625 d.153.1.1 -11400 1spgA 144 2.30e+01 1abwA a.1.1.2 15409 1hssA 124 2.30e+01 1bea a.52.1.2 17819 1o6dA 163 2.34e+01 c.116.1.3 -6689 2ohxA 374 2.35e+01 2ohxA b.35.1.2 24669 c.2.1.1 29685 1hw7A 255 2.35e+01 1i7fA d.193.1.1 61297 1ei1A 391 2.36e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 5pal 109 2.43e+01 1a75A a.39.1.4 17215 1q8iA 783 2.43e+01 c.55.3.5 -7635 e.8.1.1 -11885 1d1gA 168 2.44e+01 1d1gA c.71.1.1 34889 1n81A 186 2.47e+01 a.185.1.1 85388 1ji8A 111 2.47e+01 d.203.1.1 66733 1oz9A 150 2.47e+01 unknown_sccs -10588 1cojA 212 2.48e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1k78A 149 2.55e+01 a.4.1.5 68255 a.4.1.5 68256 1fiuA 286 2.61e+01 1fiuA c.52.1.10 33317 1bt0A 76 2.62e+01 1ubi d.15.1.1 37607 1ld8A 382 2.63e+01 a.118.6.1 73838 1ry6A 360 2.66e+01 c.37.1.9 -7111 1bykA 255 2.66e+01 1bykA c.93.1.1 35706 1lp8A 254 2.74e+01 d.165.1.1 -11551 1g5tA 196 2.74e+01 1g5rA c.37.1.11 32366 1ugmA 125 2.77e+01 1nm1G 125 2.82e+01 d.109.1.1 80653 1eudB 396 2.87e+01 2scuB c.23.4.1 31150 d.142.1.4 41571 1ltzA 297 2.87e+01 d.178.1.1 74254 1bl0A 129 2.91e+01 1d5yA a.4.1.8 16053 a.4.1.8 16054 1i4jA 110 2.92e+01 d.55.1.1 76734 1a7j 290 2.92e+01 1a7j c.37.1.6 31952 1kw4A 89 2.94e+01 a.60.1.2 73077 1fseA 74 2.94e+01 1fseA a.4.6.2 60000 1hq1A 105 2.98e+01 1dulA a.36.1.1 17120 1noyA 388 2.99e+01 1clqA c.55.3.5 33713 1lrzA 426 3.00e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1o5xA 248 3.02e+01 c.1.1.1 -5157 1o7kA 131 3.03e+01 d.189.1.1 81144 1uwvA 433 3.07e+01 unknown_sccs -3950 unknown_sccs -8107 1hjrA 158 3.12e+01 1hjrA c.55.3.6 33727 1iugA 352 3.15e+01 c.67.1.3 -8176 1bxeA 113 3.16e+01 1bxeA d.55.1.1 38898 1fx3A 169 3.16e+01 1fx3B d.33.1.1 38524 1dwkA 156 3.17e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1a17 166 3.18e+01 1a17 a.118.8.1 19206 1nox 205 3.19e+01 1nox d.90.1.1 40242 1euvB 86 3.21e+01 1a5r d.15.1.1 37598 1cipA 353 3.22e+01 1cipA a.66.1.1 18210 c.37.1.8 32093 1m8uA 173 3.25e+01 b.11.1.1 -3027 b.11.1.1 -3028 1c52 131 3.28e+01 1c52 a.3.1.1 15810 1ugpB 226 3.41e+01 1o6zA 303 3.45e+01 c.2.1.5 81107 d.162.1.1 81108 1n4kA 381 3.45e+01 unknown_sccs 79992 b.42.6.1 79993 1eo6A 117 3.49e+01 1eo6A d.15.1.3 37609 2gar 212 3.54e+01 2gar c.65.1.1 34161 1ireB 228 3.55e+01 b.34.4.4 76770 1eyhA 144 3.56e+01 1eduA a.118.9.1 19214 1ilr1 152 3.62e+01 1irp 1dar 691 3.64e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1g2oA 268 3.65e+01 1b8oA c.56.2.1 60228 1q1oA 98 3.67e+01 d.15.2.2 -9172 1b4pA 217 3.68e+01 a.45.1.1 83158 c.47.1.5 83159 1nnhA 294 3.72e+01 d.104.1.1 -10772 1meoA 209 3.76e+01 c.65.1.1 79035 1huxA 270 3.78e+01 1huxA c.55.1.5 61278 1j58A 385 3.81e+01 b.82.1.2 71531 1ebmA 317 3.82e+01 1ebmA a.96.1.3 18751 d.129.1.2 41300 1nbaA 264 3.83e+01 1nbaA unknown_sccs 31753 1s14A 194 3.84e+01 d.122.1.2 -10973 1q87A 221 3.86e+01 unknown_sccs -12028 1ayaA 101 3.87e+01 1qadA d.93.1.1 40460 1bupA 386 3.88e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1eyvA 156 3.88e+01 1eyvA a.79.1.1 18446 1rpxA 230 3.89e+01 1rpxA c.1.2.2 28536 1e8aA 91 3.89e+01 1b4cA a.39.1.2 17188 1gvfA 286 3.96e+01 c.1.10.2 70599