# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 1exrA 148 6.09e-02 1cll a.39.1.5 17299 1gd8A 118 9.23e-02 d.188.1.1 60445 1rdfA 267 1.86e-01 c.108.1.3 104884 1yirA 408 2.15e-01 1rqlA 267 2.26e-01 c.108.1.3 97750 1swvA 267 2.35e-01 1ggzA 148 2.52e-01 a.39.1.5 70176 1jl5A 454 7.46e-01 c.10.2.6 66830 1fezA 256 8.90e-01 1fezA c.108.1.3 43343 1ufiA 64 9.27e-01 a.30.4.1 99336 1xqaA 113 9.62e-01 2f3yA 148 1.07e+00 1g4yR 148 1.35e+00 1cll a.39.1.5 60252 1vq0A 302 1.62e+00 1sziA 247 2.10e+00 a.24.23.1 106159 2b20A 403 2.18e+00 1g4iA 123 2.43e+00 1poa a.133.1.2 60241 2fupA 168 2.83e+00 1qysA 106 2.94e+00 k.41.1.1 96603 1ujwB 135 3.44e+00 h.4.9.1 99472 1x6iA 91 4.03e+00 1yg2A 179 4.34e+00 1twuA 139 4.39e+00 d.32.1.8 107413 1xttA 216 4.46e+00 1zoyC 140 4.83e+00 1jy2O 56 4.91e+00 h.1.8.1 67441 1m5yA 408 4.99e+00 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1g0uG 252 5.00e+00 d.153.1.4 41952 1nkpB 83 5.05e+00 a.38.1.1 80574 1x1tA 260 5.44e+00 2ahqA 76 5.66e+00 1rypA 243 5.76e+00 1pmaA d.153.1.4 41932 1tn4 159 6.27e+00 1ncx a.39.1.5 17248 1avsA 90 6.37e+00 1cll a.39.1.5 17226 1qqgA 264 6.69e+00 1qqgA b.55.1.2,b.55.1.2 26987,26988 1kllA 130 6.74e+00 d.32.1.2 72720 1q1vA 70 6.77e+00 a.159.4.1 104479 1m12A 84 6.79e+00 a.64.1.1 84745 1dat 174 6.84e+00 2fha a.25.1.1 16677 1kveB 77 7.52e+00 1kveB 1uyrA 737 7.58e+00 c.14.1.4,c.14.1.4 100188,100189 1mijA 152 7.59e+00 a.4.1.1 79150 1ty9A 222 8.53e+00 1gpjA 404 8.77e+00 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1xpxA 163 8.90e+00 1g8iA 190 9.06e+00 1rec a.39.1.5 60363 1td6A 306 9.39e+00 1yruB 74 9.40e+00 1xawA 140 9.42e+00 1hn4A 131 9.90e+00 a.133.1.2 65893 1p4kA 295 1.02e+01 d.153.1.5 87772 1tvlA 454 1.05e+01 c.1.16.4 107366 1tjlA 151 1.11e+01 a.2.14.1,g.39.1.13 107027,107028 1z5bA 469 1.13e+01 1go4E 100 1.14e+01 h.1.22.1 70296 2fjlA 150 1.26e+01 1nepA 130 1.31e+01 b.1.18.7 80440 1yrvA 169 1.34e+01 2gd5A 179 1.35e+01 1mu5A 471 1.35e+01 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1w2xA 758 1.37e+01 c.14.1.4,c.14.1.4 109134,109135 1wmhA 89 1.44e+01 1wmbA 260 1.46e+01 1iapA 211 1.48e+01 a.91.1.1 62119 1y0vH 146 1.48e+01 2a3qA 170 1.50e+01 1r85A 379 1.61e+01 c.1.8.3 104839 1z21A 112 1.62e+01 1wr2A 238 1.64e+01 1rec 201 1.64e+01 1rec a.39.1.5 17326 1txjA 171 1.66e+01 b.88.1.2 107424 1ail 73 1.66e+01 1ail a.16.1.1 16381 1xfxO 149 1.70e+01 1w0bA 102 1.71e+01 a.7.11.1 108985 1nrjA 158 1.75e+01 d.110.4.4 86124 1xiuA 230 1.80e+01 1t7sA 137 1.88e+01 a.7.7.1 106636 1bg1A 722 1.89e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17767,22461,40527 1fseA 74 1.91e+01 1fseA a.4.6.2 60000 2fefA 294 1.95e+01 1xbsA 149 1.96e+01 2bw3A 534 2.00e+01 1qghA 156 2.11e+01 1qghA a.25.1.1 16728 1s9pA 227 2.22e+01 a.123.1.1 105384 1qlpA 394 2.22e+01 1ovaA e.1.1.1 42628 1esc 306 2.40e+01 1esc c.23.10.1 31334 1v98A 140 2.52e+01 1w6sB 74 2.54e+01 1ysqA 193 2.54e+01 2lhb 149 2.55e+01 2fal a.1.1.2 15597 1ni5A 433 2.60e+01 c.26.2.5,d.229.1.1 80533,80534 1opjA 293 2.66e+01 d.144.1.7 87230 1omrA 201 2.66e+01 a.39.1.5 93349 1nyhA 166 2.67e+01 h.1.23.1 86403 1zo0A 126 2.76e+01 2cblA 305 2.81e+01 2cblA a.39.1.7,a.48.1.1,d.93.1.1 17380,17774,40528 1pl5A 142 2.84e+01 h.1.23.1 104186 2bycA 137 2.86e+01 1h96A 182 2.89e+01 2fha a.25.1.1 60811 1ni9A 338 2.91e+01 e.7.1.2 85739 1n2aA 201 2.94e+01 a.45.1.1,c.47.1.5 91553,91554 1i76A 163 3.03e+01 1hfc d.92.1.11 61877 1u7kA 131 3.04e+01 1nfvA 179 3.08e+01 a.25.1.1 85642 1fzqA 181 3.09e+01 1hurA c.37.1.8 32060 2fi9A 128 3.11e+01 1x0tA 120 3.13e+01 1q1uA 144 3.18e+01 b.42.1.1 95608 1z8uA 102 3.19e+01 1jatB 138 3.20e+01 1jatB d.20.1.1 62819 1zt3A 80 3.34e+01 1v54E 109 3.35e+01 a.118.11.1 100326 1div 149 3.40e+01 1div d.99.1.1,d.100.1.1 40692,40693 2spcA 107 3.40e+01 2spcA a.7.1.1 16311 1nfp 228 3.44e+01 1nfp c.1.16.2 29555 1wp8A 89 3.48e+01 2occE 109 3.49e+01 2occE a.118.11.1 19224 1a8y 367 3.53e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1tk9A 188 3.55e+01 c.80.1.3 107082 1ywnA 316 3.62e+01 1o5uA 101 3.62e+01 b.82.1.8 92518 1lb3A 182 3.63e+01 a.25.1.1 77873 1k4nA 192 3.67e+01 d.32.1.5 72059 1mhqA 148 3.69e+01 a.118.9.2 84973 1p1cA 199 3.72e+01 c.66.1.16 87669 1ei7A 158 3.75e+01 1rmvA a.24.5.1 16584 1k0eA 453 3.75e+01 d.161.1.1 67938 1m4zA 238 3.88e+01 b.34.12.1 78630 1lre 81 3.97e+01 1lre a.13.1.1 16376 1pea 385 4.00e+01 1pea c.93.1.1 35662 1top 162 4.06e+01 1ncx a.39.1.5 17223 1nvvS 481 4.06e+01 a.117.1.1 86279 1l8dA 112 4.12e+01 h.4.12.1 73687 1ofcX 304 4.14e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1yz1A 174 4.18e+01 1q5zA 177 4.20e+01 a.196.1.1 95954 1z5yE 149 4.25e+01 1no1A 126 4.28e+01 a.179.1.1 85913 1kr4A 125 4.30e+01 d.58.5.2 72889 1ixcA 294 4.41e+01 a.4.5.37,c.94.1.1 83764,83765 1ov2A 99 4.43e+01 a.13.1.1 93580 1cnt1 187 4.45e+01 1cnt3 1wsrA 375 4.46e+01 1innA 166 4.50e+01 1j98A d.185.1.2 62608 1yisA 478 4.54e+01 1zbtA 371 4.57e+01 1l6kA 77 4.58e+01 h.6.1.1 77724 1w9yA 319 4.58e+01 2bnkA 67 4.61e+01 1d7mA 101 4.62e+01 1d7mA h.1.10.1 45628 1a0fA 201 4.66e+01 1a0fA a.45.1.1,c.47.1.5 17737,33031 1zckA 154 4.67e+01 8rucI 123 4.69e+01 1rboC d.73.1.1 39629 1ywsA 82 4.72e+01 2dfkA 402 4.76e+01 1fcyA 236 4.82e+01 2lbd a.123.1.1 19282 1pz1A 333 4.82e+01 c.1.7.1 95390 1o1yA 239 4.84e+01 c.23.16.1 86554 2fj6A 82 4.87e+01 1w99A 558 4.91e+01 1wpaA 114 4.93e+01 1q2hA 69 4.94e+01 a.34.4.1 104498 1u5uA 374 4.99e+01 1y01A 102 5.01e+01 1oh0A 131 5.01e+01 d.17.4.3 87004 1hu4A 288 5.02e+01 1hu4A 1pq4A 291 5.07e+01 c.92.2.2 94995 2fkzA 155 5.08e+01 1wy9A 147 5.16e+01 1xclA 235 5.18e+01 1o5kA 306 5.21e+01 c.1.10.1 92504 1ng6A 148 5.22e+01 a.182.1.1 85670 1lhpA 312 5.27e+01 c.72.1.5 77960 1n5dA 288 5.28e+01 c.2.1.2 80030 1zg2A 107 5.32e+01 1pzlA 237 5.40e+01 a.123.1.1 104393 1aj8A 371 5.50e+01 1aj8A a.103.1.1 18900 1u08A 386 5.66e+01 c.67.1.1 107543 2cu1A 103 5.79e+01 1jigA 146 5.84e+01 a.25.1.1 71685 1vpqA 273 5.87e+01 1lfb 99 5.87e+01 1lfb a.4.1.1 15989 2f6lA 166 5.91e+01 1yxmA 303 5.94e+01 1uujA 88 6.14e+01 a.221.1.1 108046 1mhyG 169 6.15e+01 1mtyG a.23.3.1 16518 1dmmA 131 6.18e+01 1opy d.17.4.3 38114 1unkA 87 6.22e+01 1cei a.28.2.1 16935 1o0yA 260 6.22e+01 c.1.10.1 80756 2fp1A 166 6.23e+01 1n82A 331 6.47e+01 c.1.8.3 91703 1bazA 53 6.56e+01 1bazA a.43.1.1 17421 1jnrB 150 6.61e+01 d.58.1.5 66969 1u69A 163 6.62e+01 d.32.1.7 107699 2b6hA 192 6.77e+01 1rxdA 159 6.79e+01 1w2yA 229 6.80e+01 a.204.1.1 109140 1a92A 50 6.86e+01 1a92A h.4.6.1 45791 2c5rA 67 6.89e+01 2h1nA 567 6.91e+01 1jfmA 174 6.94e+01 d.19.1.1 66640 1d2zA 108 6.95e+01 1d2zA a.77.1.2 18437 1opy 131 7.14e+01 1opy d.17.4.3 38113 1exg 110 7.20e+01 1exg b.2.2.1 22387 1euvB 86 7.31e+01 1a5r d.15.1.1 37598 1fus 106 7.31e+01 9rnt d.1.1.4 36050 2a07F 93 7.39e+01 1bg0 356 7.43e+01 1qh4A a.83.1.1,d.128.1.2 18476,41211 1txkA 498 7.45e+01 b.1.18.2,b.30.5.9 107425,107426 1ji0A 240 7.52e+01 c.37.1.12 71665 1mtyG 162 7.55e+01 1mtyG a.23.3.1 16498 1ohpA 125 7.59e+01 1ocvA 125 7.63e+01 d.17.4.3 86810 1jd1A 129 7.75e+01 1qu9A d.79.1.1 62890 2fuqA 747 7.82e+01 1g03A 134 7.85e+01 1qrjB a.73.1.1 60162 1vjeA 166 7.87e+01 d.185.1.2 100807 1cpcA 162 7.87e+01 1cpcA a.1.1.3 15643 1mknA 59 7.94e+01 1mknA g.5.1.1 44383 1r89A 437 8.08e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1eswA 500 8.11e+01 1cwyA c.1.8.1 59500 1uf5A 303 8.14e+01 d.160.1.2 107808 1w32A 348 8.30e+01 1jchA 551 8.34e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1fb6A 105 8.35e+01 1thx c.47.1.1 32739 1r4gA 53 8.38e+01 a.8.5.1 96996 1bgf 124 8.40e+01 1bgf a.90.1.1 18537 1v73A 342 8.43e+01 1cei 94 8.43e+01 1cei a.28.2.1 16939 2carA 196 8.44e+01 1erzA 303 8.51e+01 1erzA d.160.1.2 59498 1h16A 759 8.55e+01 c.7.1.1 76462 1cr1A 296 8.56e+01 1cr1A c.37.1.11 32286 1qd9A 124 8.57e+01 1qu9A d.79.1.1 39758 1rr7A 129 8.61e+01 a.4.1.14 105075 2alaA 391 8.74e+01 1cm5A 759 8.74e+01 1cm5A c.7.1.1 30671 1mf7A 194 8.80e+01 c.62.1.1 84937 1v95A 130 8.85e+01 c.51.1.1 108435 1o7fA 469 8.85e+01 a.4.5.31,b.82.3.2,b.82.3.2 81131,81132,81133 3rubS 123 8.89e+01 1rboC d.73.1.1 39616 1wdcC 156 8.93e+01 1wdcC a.39.1.5 17317 1v5sA 126 8.96e+01 d.129.6.1 108384 1qnrA 344 8.97e+01 1qnoA c.1.8.3 28834