# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1dbxA 158 4.04e-18 1dbuA d.116.1.1 40928 1vjfA 180 1.05e-13 d.116.1.1 -10941 1vkiA 181 2.46e-13 1t1vA 93 5.47e-02 1j0fA 100 2.18e-01 unknown_sccs -7483 1ng4A 390 2.98e-01 c.3.1.2 85666 d.16.1.3 85667 1o4vA 183 3.18e-01 c.23.8.1 86628 1l7mA 211 3.56e-01 c.108.1.4 73664 1rktA 205 4.14e-01 a.4.1.9 -210 a.121.1.1 -1663 1j97A 211 6.34e-01 1f5sA c.108.1.4 62753 1tia 279 6.84e-01 3tgl c.69.1.17 34737 1vicA 262 8.57e-01 c.68.1.13 -8252 1b78A 193 9.70e-01 1b78A c.51.4.1 33221 1lvaA 258 1.09e+00 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 1nmeA 146 1.37e+00 c.17.1.1 85874 1mkmA 249 1.41e+00 a.4.5.33 79242 d.110.2.2 79243 1n5dA 288 1.48e+00 c.2.1.2 80030 1qyaA 307 1.64e+00 1hu4A 288 1.67e+00 1hu4A 1pytA 94 1.74e+00 1pytA d.58.3.1 39064 1v84A 253 1.75e+00 1qbjA 81 2.02e+00 1qbjA a.4.5.19 16155 1evlA 401 2.05e+00 1qf6A c.51.1.1 33202 d.104.1.1 40751 1j0aA 325 2.09e+00 c.79.1.1 83871 1whi 122 2.15e+00 1whi b.39.1.1 24810 1sdjA 310 2.19e+00 d.21.1.2 -9420 d.21.1.2 -9421 1qahA 136 2.55e+00 d.79.1.1 -10377 3csuA 310 2.57e+00 3csuA c.78.1.1 35094 c.78.1.1 35095 1dkuA 317 2.62e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1or7A 194 2.71e+00 a.4.13.2 87332 a.177.1.1 87333 1ub0A 258 2.91e+00 c.72.1.2 88394 1vgyA 393 3.04e+00 c.56.5.4 -7882 d.58.19.1 -10106 1pufB 73 3.06e+00 a.4.1.1 -192 1vjqA 79 3.14e+00 unknown_sccs -13478 1in6A 334 3.52e+00 1hqcA a.4.5.11 62601 c.37.1.20 62602 1in4A 334 3.59e+00 1hqcA a.4.5.11 62597 c.37.1.20 62598 1nrjA 158 3.69e+00 d.110.4.4 86124 1f6bA 198 3.94e+00 c.37.1.8 64986 1h75A 81 3.96e+00 1h75A c.47.1.1 60716 5pal 109 4.13e+00 1a75A a.39.1.4 17215 1b72B 87 4.25e+00 1akhA a.4.1.1 16001 1o1zA 234 4.75e+00 c.1.18.3 86555 1vj1A 363 4.76e+00 b.35.1.2 -3728 c.2.1.1 -5752 1nnwA 252 4.79e+00 d.159.1.5 80674 1oniA 137 4.94e+00 d.79.1.1 87144 1rpjA 288 4.98e+00 2dri c.93.1.1 35656 1mu5A 471 5.18e+00 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1s7oA 113 5.46e+00 1ku3A 73 5.50e+00 a.4.13.2 73000 1gudA 288 5.71e+00 c.93.1.1 83326 1ngr 85 5.86e+00 1ngr a.77.1.2 18422 1rwyA 109 5.95e+00 a.39.1.4 -825 1rec 201 6.11e+00 1rec a.39.1.5 17326 1pamA 686 6.73e+00 1cxlA b.1.18.2 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1omrA 201 6.78e+00 a.39.1.5 -854 1kngA 156 7.17e+00 c.47.1.10 72777 1pb6A 212 7.41e+00 a.4.1.9 88017 a.121.1.1 88018 1r69 69 7.52e+00 1r69 a.35.1.2 17028 1lmb3 92 7.56e+00 1lmb3 1f74A 293 7.86e+00 1nal3 c.1.10.1 29079 1hgxA 183 8.01e+00 1tc1A c.61.1.1 34027 1scuA 288 8.20e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1q1hA 110 8.81e+00 unknown_sccs -262 1qu9A 128 8.87e+00 1qu9A d.79.1.1 39755 1fjlA 81 9.03e+00 2hddA a.4.1.1 16017 1v7rA 186 9.04e+00 c.51.4.1 -7546 1hnjA 317 9.22e+00 1hn9A c.95.1.1 35969 c.95.1.1 35970 2tct 207 9.26e+00 2tct a.4.1.9 16063 a.121.1.1 19240 1ogdA 131 9.33e+00 unknown_sccs -8007 1mr3F 181 9.39e+00 c.37.1.8 79422 1gvfA 286 9.59e+00 c.1.10.2 70599 1mb3A 124 9.67e+00 c.23.1.1 78907 1p9qC 256 9.94e+00 3kvt 115 9.98e+00 1t1dA d.42.1.2 38642 1t95A 240 1.03e+01 1qlmA 316 1.03e+01 1qlmA d.147.1.1 41765 1aba 87 1.04e+01 1aba c.47.1.1 32760 1ihjA 98 1.04e+01 1pdr b.36.1.1 62382 1km4A 247 1.06e+01 c.1.2.3 72740 1ktgA 138 1.06e+01 d.113.1.1 72972 1d3cA 686 1.09e+01 1cxlA b.1.18.2 21827 b.3.1.1 22496 b.71.1.1 27734 c.1.8.1 28721 1e0eA 55 1.10e+01 1wjcA a.4.10.1 59147 1ckv 141 1.13e+01 1ckv d.137.1.1 41452 1p99A 295 1.14e+01 c.94.1.1 -8697 1gln 468 1.15e+01 1gln a.97.1.1 18752 c.26.1.1 31588 1dvjA 246 1.15e+01 1dvjA c.1.2.3 28546 1fpzA 212 1.20e+01 1fpzA c.45.1.1 59976 1e5kA 201 1.20e+01 1fr9A c.68.1.8 34578 1r72A 211 1.20e+01 unknown_sccs -215 unknown_sccs -5981 1em8B 112 1.20e+01 unknown_sccs -6364 1rhcA 330 1.21e+01 c.1.16.3 -5606 1ru8A 232 1.22e+01 c.26.2.1 -6635 1nv8A 284 1.23e+01 c.66.1.30 86224 1qtnA 164 1.26e+01 1pauA c.17.1.1 30999 1q1aA 289 1.27e+01 c.31.1.5 -6781 1b25A 619 1.29e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1j9iA 68 1.30e+01 a.6.1.5 71619 1l1qA 186 1.32e+01 c.61.1.1 77653 1cmcA 104 1.32e+01 1cmbA unknown_sccs 17462 1vhnA 318 1.33e+01 c.1.4.1 -5209 1h4vB 421 1.35e+01 1adjA c.51.1.1 60624 d.104.1.1 60625 1adjA 421 1.38e+01 1adjA c.51.1.1 33188 d.104.1.1 40737 1ass 159 1.38e+01 1a6dA c.8.5.2 30818 2prd 174 1.38e+01 2prd b.40.5.1 25435 2sas 185 1.40e+01 2sas a.39.1.5 17258 1rfzA 168 1.42e+01 unknown_sccs -1206 1uz5A 402 1.44e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1gtmA 419 1.44e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1cmbA 104 1.47e+01 1cmbA unknown_sccs 17460 1top 162 1.47e+01 1ncx a.39.1.5 17223 1vkmA 297 1.51e+01 1o6uA 403 1.51e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1ru3A 732 1.56e+01 e.26.1.3 -12021 1ogwA 76 1.56e+01 d.15.1.1 87001 1rxyA 253 1.57e+01 c.56.2.1 -7834 1nnlA 225 1.60e+01 c.108.1.4 85906 1h2rL 534 1.64e+01 1h2rL e.18.1.1 43298 1ugiA 84 1.65e+01 1ugiA d.17.5.1 38125 1c4oA 664 1.66e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1h7mA 102 1.67e+01 d.79.3.1 83485 1iioA 84 1.67e+01 a.39.4.1 66150 1iloA 77 1.68e+01 c.47.1.1 66205 1jbeA 128 1.70e+01 3chy c.23.1.1 62845 1ubi 76 1.71e+01 1ubi d.15.1.1 37584 1st9A 143 1.72e+01 c.47.1.10 -7503 1ecfA 504 1.74e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1dpgA 485 1.77e+01 1dpgA c.2.1.3 30074 d.81.1.5 39989 1k20A 310 1.77e+01 c.107.1.1 68027 1q44A 326 1.77e+01 c.37.1.5 -7037 1nthA 458 1.78e+01 c.1.25.1 80730 1qczA 169 1.79e+01 1qczA c.23.8.1 31276 1eu8A 409 1.81e+01 1eu8A c.94.1.1 59502 1ryjA 70 1.82e+01 d.15.3.2 -9179 1m1hA 248 1.82e+01 b.114.1.1 78415 d.58.42.1 78416 1b0nA 111 1.84e+01 1b0nA a.34.1.1 17001 a.35.1.3 17064 1e3dB 542 1.94e+01 1h2rL e.18.1.1 59189 1gz8A 299 1.95e+01 d.144.1.7 83405 1a4mA 349 1.96e+01 1a4mA c.1.9.1 29014 1on2A 142 1.97e+01 a.4.5.24 87103 a.76.1.1 87104 1gsoA 431 1.98e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1eg5A 384 1.99e+01 1ecxA c.67.1.3 34429 1kq3A 376 2.03e+01 e.22.1.2 68790 1d2mA 665 2.07e+01 1d2mA c.37.1.19 32417 c.37.1.19 32418 1k0sA 151 2.08e+01 b.40.7.1 67969 1m8uA 173 2.14e+01 b.11.1.1 -3027 b.11.1.1 -3028 1tmy 120 2.14e+01 1dbwA c.23.1.1 31083 1nbwB 117 2.17e+01 c.51.3.2 80396 1le6A 123 2.17e+01 a.133.1.2 73862 1vjnA 220 2.20e+01 unknown_sccs -11458 1lyxA 248 2.20e+01 c.1.1.1 78304 1fyxA 149 2.21e+01 1fyvA c.23.2.1 31128 1ooyA 481 2.26e+01 unknown_sccs -6867 unknown_sccs -6873 1ubkL 534 2.26e+01 e.18.1.1 88422 1qksA 567 2.31e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1mjhA 162 2.33e+01 1mjhA c.26.2.4 31639 1bt0A 76 2.36e+01 1ubi d.15.1.1 37607 1qh3A 260 2.38e+01 1qh5A d.157.1.2 42059 1rypD 241 2.44e+01 1rypD d.153.1.4 41935 1r89A 437 2.48e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1ufmA 84 2.48e+01 1eziA 228 2.49e+01 1eyrA c.68.1.13 34512 1gox 370 2.50e+01 1gox c.1.4.1 28607 1dfoA 417 2.53e+01 1bj4A c.67.1.4 34480 1oz9A 150 2.53e+01 unknown_sccs -10588 1sfe 180 2.54e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 4cpv 109 2.55e+01 1a75A a.39.1.4 17198 1mx3A 347 2.55e+01 c.2.1.4 79638 c.23.12.1 79639 1v5xA 203 2.58e+01 c.1.2.4 -5169 1tyfA 193 2.58e+01 1tyfA c.14.1.1 30885 1lc5A 364 2.60e+01 c.67.1.1 73827 1kepA 348 2.60e+01 c.2.1.2 68536 3tgl 269 2.61e+01 3tgl c.69.1.17 34733 1o5xA 248 2.65e+01 c.1.1.1 -5157 3chy 128 2.67e+01 3chy c.23.1.1 31038 1i5pA 633 2.69e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1qh5A 260 2.71e+01 1qh5A d.157.1.2 42057 1jhfA 202 2.76e+01 a.4.5.2 63057 b.87.1.1 63058 1i60A 278 2.76e+01 c.1.15.4 71118 1i27A 73 2.77e+01 1i27A a.4.5.30 61555 1jihA 531 2.84e+01 unknown_sccs -10212 unknown_sccs -11922 1d4oA 184 2.85e+01 1d4oA c.31.1.4 31748 1kxpD 458 2.86e+01 a.126.1.1 73160 a.126.1.1 73161 a.126.1.1 73162 1v32A 101 2.87e+01 a.42.1.1 -912 1kqwA 134 2.89e+01 b.60.1.2 72887 1kkhA 317 2.92e+01 d.14.1.5 72645 d.58.26.3 72646 1lx7A 253 2.92e+01 c.56.2.1 74329 1uc8A 280 2.94e+01 unknown_sccs -6718 unknown_sccs -11230 1jqgA 433 3.01e+01 c.56.5.1 71791 d.58.3.1 71792 1auoA 218 3.03e+01 1auoA c.69.1.14 34716 1nu0A 138 3.05e+01 unknown_sccs -7658 1mzjA 339 3.06e+01 c.95.1.1 79700 c.95.1.1 79701 1bebA 162 3.07e+01 1bebA b.60.1.1 27115 1p4wA 99 3.08e+01 a.4.6.2 87783 1gdhA 320 3.09e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1o2dA 371 3.09e+01 e.22.1.2 86591 1meoA 209 3.12e+01 c.65.1.1 79035 1nrkA 328 3.12e+01 unknown_sccs -4071 unknown_sccs -10176 1r3sA 367 3.13e+01 c.1.22.1 -5648 1o0uA 429 3.13e+01 c.118.1.1 80743 1fkx 349 3.14e+01 1a4mA c.1.9.1 29018 1hyoA 421 3.15e+01 1qcnA b.34.8.1 59001 d.177.1.1 59002 1ycqA 107 3.17e+01 1ycqA a.42.1.1 17419 1ni9A 338 3.19e+01 e.7.1.2 85739 1lucA 355 3.19e+01 1lucA c.1.16.1 29547 1fxrA 64 3.19e+01 1fxd d.58.1.4 38993 1e0gA 48 3.25e+01 1e01A d.7.1.1 37325 1qycA 308 3.27e+01 c.2.1.2 -5782 1php 394 3.27e+01 16pk c.86.1.1 35452 1mwyA 73 3.27e+01 d.58.17.1 79616 1rdr 461 3.30e+01 1rdr e.8.1.4 43116 1ul7A 102 3.31e+01 unknown_sccs -11020 1pvaA 110 3.32e+01 1a75A a.39.1.4 17207 1lxnA 99 3.32e+01 d.58.48.1 84737 1j09A 468 3.33e+01 a.97.1.1 77025 c.26.1.1 77026 1ujsA 88 3.35e+01 a.14.1.1 -463 1np6A 174 3.38e+01 c.37.1.10 85954 1k1eA 180 3.46e+01 c.108.1.5 67995 1fseA 74 3.48e+01 1fseA a.4.6.2 60000 1gvjA 146 3.49e+01 a.4.5.21 -293 1hqz1 141 3.50e+01 1hcl 298 3.52e+01 1hcl d.144.1.7 41593 1idk 359 3.54e+01 1qcxA b.80.1.2 28025 1xxaA 78 3.55e+01 1xxaA d.74.2.1 39700 4uagA 437 3.57e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1umqA 81 3.64e+01 unknown_sccs -203 1s7hA 200 3.66e+01 1oi7A 288 3.68e+01 c.2.1.8 87049 c.23.4.1 87050 1fukA 165 3.79e+01 1fukA c.37.1.19 32409 1j5yA 187 3.80e+01 a.4.5.1 71592 d.94.2.1 71593 1fmjA 351 3.80e+01 c.37.1.5 59879 1m26A 133 3.84e+01 1fs7A 485 3.85e+01 1qdbA a.138.1.3 19691 1grx 85 3.87e+01 1kte c.47.1.1 32766 1nogA 177 3.90e+01 a.25.2.2 85923 1gs5A 258 3.96e+01 c.73.1.2 70395