# List of top-scoring protein chains for t2k-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 1iv3A 152 3.00e-02 d.79.5.1 76828 1hfoA 113 1.28e-01 d.80.1.3 61006 1mfiA 114 1.96e-01 1dptA d.80.1.3 39856 1mjc 69 3.18e-01 1mjc b.40.4.5 25319 1dptA 117 3.71e-01 1dptA d.80.1.3 39862 1gd0A 122 3.82e-01 1dptA d.80.1.3 39834 1jwqA 179 3.91e-01 unknown_sccs -7897 1qysA 106 4.30e-01 unknown_sccs -13432 2cb5A 453 5.21e-01 3gcb d.3.1.1 37035 1cg5B 141 6.77e-01 1cg5B a.1.1.2 15585 1fjgJ 105 8.30e-01 1fjfJ d.58.15.1 39330 1bif 469 8.49e-01 1bif c.37.1.7 31961 c.60.1.4 34003 1r3nA 462 8.80e-01 c.56.5.4 -7872 d.58.19.1 -10096 1spgB 147 9.70e-01 1cg5B a.1.1.2 15588 1s0yA 76 1.01e+00 d.80.1.1 -10434 3bifA 468 1.05e+00 1bif c.37.1.7 31962 c.60.1.4 34008 2lhb 149 1.35e+00 2fal a.1.1.2 15597 1oshA 232 1.42e+00 a.123.1.1 -1697 1kkoA 413 1.52e+00 c.1.11.2 68675 d.54.1.1 68676 1gyxA 76 1.62e+00 d.80.1.1 76387 1eluA 390 1.75e+00 1elqA c.67.1.3 34434 1p4kA 295 1.88e+00 d.153.1.5 87772 9gafA 295 1.98e+00 1apyA d.153.1.5 42008 1elqA 390 1.99e+00 1elqA c.67.1.3 34436 3mefA 69 2.03e+00 1mjc b.40.4.5 25320 1bk0 331 2.20e+00 1bk0 b.82.2.1 28118 1eluB 390 2.21e+00 1elqA c.67.1.3 34435 1otgA 125 2.29e+00 1otgA d.80.1.2 39831 1odmA 331 2.31e+00 b.82.2.1 86875 1c9oA 66 2.42e+00 1mjc b.40.4.5 25325 1qlmA 316 2.72e+00 1qlmA d.147.1.1 41765 1ffkI 194 2.94e+00 1ffkI d.12.1.2 37494 2bifA 469 3.06e+00 1bif c.37.1.7 31963 c.60.1.4 34009 1m4jA 142 3.07e+00 d.109.1.2 78602 1odoA 408 3.12e+00 a.104.1.1 -1463 1ig8A 486 3.16e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1goiA 499 3.27e+00 b.72.2.1 65413 c.1.8.5 65414 d.26.3.1 65415 1uu1A 335 3.49e+00 c.67.1.1 -8146 1i37A 260 3.67e+00 1a28A a.123.1.1 61583 1a6r 471 3.80e+00 3gcb d.3.1.1 37033 1ev0A 58 3.99e+00 1ev0A d.71.1.1 39594 2reb 352 4.01e+00 2reb c.37.1.11 32282 d.48.1.1 38767 1d5mB 192 4.04e+00 1iakB b.1.1.2 21618 d.19.1.1 38192 3gcb 470 4.29e+00 3gcb d.3.1.1 37032 1e6pA 499 4.32e+00 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 2gsq 202 4.53e+00 1pd21 a.45.1.1 17715 c.47.1.5 33009 1jznA 135 4.97e+00 d.169.1.1 84262 1e15A 499 4.99e+00 1e15A b.72.2.1 27810 c.1.8.5 29006 d.26.3.1 38440 2phlA 397 5.22e+00 1dgwA b.82.1.2 28082 b.82.1.2 28083 1s3jA 155 5.33e+00 a.4.5.28 -227 1sdoA 203 5.70e+00 unknown_sccs -7558 1fhjB 146 5.74e+00 1abwA a.1.1.2 59838 1diiC 80 5.84e+00 1diiC a.3.1.1 15925 1p7tA 731 6.18e+00 c.1.13.1 -5600 2ifeA 100 6.27e+00 1tig d.68.1.1 39567 1cqqA 180 6.31e+00 1cqqA b.47.1.4 26422 1i60A 278 7.16e+00 c.1.15.4 71118 1di0A 158 7.63e+00 1di0A c.16.1.1 30957 1o5xA 248 7.64e+00 c.1.1.1 -5157 1d7uA 433 7.87e+00 2dkb c.67.1.4 34439 1cknA 330 7.99e+00 1ckmA b.40.4.6 25360 d.142.2.3 41587 1aoxA 203 8.09e+00 1aoxA c.62.1.1 34151 1gcb 454 8.09e+00 3gcb d.3.1.1 37034 1qd1A 325 8.25e+00 1qd1A d.58.34.1 39493 d.58.34.1 39494 1dlhB 188 8.26e+00 1iakB b.1.1.2 21598 d.19.1.1 38172 1ur1A 378 8.29e+00 c.1.8.3 -5311 1souA 194 8.45e+00 1exbA 332 8.55e+00 1qrqA c.1.7.1 28666 1hgxA 183 8.57e+00 1tc1A c.61.1.1 34027 1d2eA 397 8.61e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1lyxA 248 8.81e+00 c.1.1.1 78304 1s9rA 410 8.87e+00 unknown_sccs -10989 2ay1A 394 8.88e+00 1ajsA c.67.1.1 34357 1bawA 105 8.89e+00 1plc b.6.1.1 22868 1gwiA 411 9.14e+00 a.104.1.1 76364 1liaA 164 9.23e+00 1cpcA a.1.1.3 15661 1babA 143 9.34e+00 1abwA a.1.1.2 15235 1qk3A 233 9.35e+00 1qk3A c.61.1.1 34031 1reoA 486 9.61e+00 c.3.1.2 -5997 d.16.1.5 -9217 1dm1A 146 9.64e+00 2fal a.1.1.2 15153 1j3wA 163 9.70e+00 unknown_sccs -10870 1qpbA 563 9.92e+00 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1pta 318 9.94e+00 1pscA c.1.9.3 29064 1qhtA 775 9.97e+00 1tgoA c.55.3.5 33722 e.8.1.1 43011 1abwA 283 1.02e+01 1abwA a.1.1.2 15288 a.1.1.2 15289 1kufA 203 1.16e+01 d.92.1.9 73007 1g8fA 511 1.17e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 7aatA 401 1.21e+01 1ajsA c.67.1.1 34250 1jnyA 435 1.25e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ckmA 330 1.31e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1irdA 141 1.38e+01 a.1.1.2 66286 1bz4A 144 1.39e+01 1nfn a.24.1.1 16521 1gw9A 388 1.43e+01 c.1.15.3 70658 1gp6A 356 1.45e+01 b.82.2.1 65441 1kugA 203 1.46e+01 d.92.1.9 73008 1cr1A 296 1.49e+01 1cr1A c.37.1.11 32286 1tgoA 773 1.51e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1qqrA 138 1.52e+01 1bmlC d.15.5.1 37721 1j7yA 141 1.52e+01 a.1.1.2 66426 1pq4A 291 1.56e+01 c.92.2.2 -8633 1k5oA 86 1.58e+01 a.165.1.1 77269 2chsA 127 1.63e+01 2chsA d.79.1.2 39764 1b25A 619 1.64e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1lxyA 409 1.66e+01 unknown_sccs -10987 1gp4A 356 1.70e+01 b.82.2.1 65439 1f3cA 89 1.71e+01 1cmiA d.39.1.1 38557 1ortA 335 1.71e+01 1othA c.78.1.1 35204 c.78.1.1 35205 1ibrB 462 1.72e+01 1qgrA a.118.1.1 19120 1tph1 247 1.74e+01 1amk 1ed1A 135 1.76e+01 1hiwA a.61.1.1 18130 2ts1 419 1.77e+01 2ts1 c.26.1.1 31564 1ozjA 144 1.81e+01 d.164.1.1 -11537 1id0A 152 1.81e+01 d.122.1.3 66111 2xis 387 1.85e+01 4xis c.1.15.3 29427 1ad3A 452 1.94e+01 1ad3A c.82.1.1 35335 1jo0A 98 1.96e+01 d.68.4.1 77140 1mugA 168 1.99e+01 1mugA c.18.1.2 31030 1rl6A 177 2.03e+01 1rl6A d.141.1.1 41473 d.141.1.1 41474 1kr4A 125 2.04e+01 d.58.5.2 72889 1fsgA 233 2.07e+01 1qk3A c.61.1.1 34029 1t0yA 122 2.09e+01 d.15.1.1 -9151 1mnzA 388 2.09e+01 c.1.15.3 79328 1i74A 309 2.13e+01 1i74A c.107.1.1 61867 1nzeA 149 2.14e+01 unknown_sccs -599 1ujnA 348 2.18e+01 e.22.1.1 -11998 1i9zA 347 2.18e+01 1i9yA d.151.1.2 62102 1cmiA 85 2.20e+01 1cmiA d.39.1.1 38551 1i9yA 347 2.25e+01 1i9yA d.151.1.2 62101 1btkA 169 2.28e+01 1btkA b.55.1.1 26959 1dfoA 417 2.30e+01 1bj4A c.67.1.4 34480 1nrjA 158 2.32e+01 d.110.4.4 86124 1jf3A 147 2.33e+01 a.1.1.2 71642 1cjbA 231 2.35e+01 1qk3A c.61.1.1 34079 1nnlA 225 2.37e+01 c.108.1.4 85906 1ah7 245 2.40e+01 1ah7 a.124.1.1 19339 1nw3A 416 2.40e+01 c.66.1.31 86288 1gs9A 165 2.42e+01 a.24.1.1 83313 1dbfA 127 2.47e+01 2chsA d.79.1.2 39761 4ts1A 319 2.48e+01 2ts1 c.26.1.1 31565 1mp1A 111 2.50e+01 unknown_sccs -996 1lnzA 342 2.57e+01 b.117.1.1 78112 c.37.1.8 78113 1bjnA 360 2.57e+01 1bjnA c.67.1.4 34469 1jtaA 361 2.58e+01 b.80.1.1 71859 1n2zA 245 2.59e+01 c.92.2.2 79865 1lpe 144 2.60e+01 1nfn a.24.1.1 16524 1pvdA 537 2.62e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 3xis 387 2.65e+01 4xis c.1.15.3 29423 1qjbA 245 2.65e+01 1qjaA a.118.7.1 19202 8ohm 435 2.65e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1cg5A 141 2.68e+01 1abwA a.1.1.2 15406 1khbA 625 2.69e+01 c.91.1.1 68606 c.109.1.1 68607 1b91A 118 2.69e+01 1b91A 1on2A 142 2.70e+01 a.4.5.24 87103 a.76.1.1 87104 1m64A 571 2.70e+01 a.138.1.3 78683 c.3.1.4 78684 d.168.1.1 78685 1lkvX 232 2.71e+01 a.118.14.1 73980 1xis 387 2.79e+01 4xis c.1.15.3 29422 1pmi 440 2.83e+01 1pmi b.82.1.3 28114 4xis 387 2.88e+01 4xis c.1.15.3 29421 1rcwA 231 2.89e+01 unknown_sccs -1921 1mba 147 2.89e+01 2fal a.1.1.2 15149 1dhr 241 2.89e+01 1dhr c.2.1.2 29832 1g5cA 170 2.92e+01 1g5cA c.53.2.1 60264 1ha3A 405 3.02e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1nowA 507 3.02e+01 c.1.8.6 85936 d.92.2.1 85937 1b68A 191 3.09e+01 1nfn a.24.1.1 59076 1cr0A 296 3.10e+01 1cr1A c.37.1.11 32287 1r2rA 248 3.13e+01 c.1.1.1 -5147 1lj1A 571 3.14e+01 a.138.1.3 78023 c.3.1.4 78024 d.168.1.1 78025 1dkrA 317 3.25e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1v8dA 235 3.25e+01 1o6dA 163 3.25e+01 c.116.1.3 -6689 1qjaA 245 3.34e+01 1qjaA a.118.7.1 19204 1go3F 107 3.38e+01 a.60.8.2 65407 1nouA 507 3.40e+01 c.1.8.6 85932 d.92.2.1 85933 1sviA 195 3.41e+01 1tig 94 3.42e+01 1tig d.68.1.1 39566 1ln4A 104 3.43e+01 d.68.4.1 74043 1g291 372 3.43e+01 1g291 1q6aA 107 3.51e+01 unknown_sccs -960 1bjoA 360 3.54e+01 1bjnA c.67.1.4 34471 1a88A 275 3.56e+01 1brt c.69.1.12 34707 1j4wA 174 3.59e+01 d.51.1.1 71529 d.51.1.1 71530 1mhdA 132 3.59e+01 1mhdA d.164.1.1 42175 1ufaA 520 3.60e+01 unknown_sccs -421 unknown_sccs -6065 1i05A 180 3.66e+01 1mup b.60.1.1 27130 1uedA 406 3.70e+01 a.104.1.1 -1459 1eb6A 177 3.72e+01 d.92.1.12 64895 1lldA 319 3.73e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1rp4A 389 3.74e+01 1jgtA 513 3.75e+01 c.26.2.1 66684 d.153.1.1 66685 1kssA 571 3.81e+01 a.138.1.3 72928 c.3.1.4 72929 d.168.1.1 72930 1qjdA 571 3.81e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1qrqA 325 3.84e+01 1qrqA c.1.7.1 28667 1bywA 110 3.87e+01 1bywA d.110.3.6 40912 1owfA 99 3.95e+01 a.55.1.1 87487 1q9iA 571 3.99e+01 a.138.1.3 -2051 c.3.1.4 -6041 d.168.1.1 -11607