# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1yndA 165 4.92e-33 2cpl 165 6.02e-33 2cpl b.62.1.1 27420 1dywA 173 8.54e-33 2cpl b.62.1.1 27505 2bitX 165 9.54e-33 1cwoA 165 9.60e-33 2cpl b.62.1.1 27445 1awqA 164 1.11e-32 2cpl b.62.1.1 27461 1awsA 164 1.24e-32 2cpl b.62.1.1 27431 1a58 177 2.09e-32 2cpl b.62.1.1 27495 2rmcA 182 6.39e-32 2cpl b.62.1.1 27491 1zcxA 178 8.54e-32 1ihgA 370 9.85e-32 2cpl a.118.8.1,b.62.1.1 62380,62381 2cfeA 162 1.23e-31 1qoiA 177 1.73e-31 2cpl b.62.1.1 27490 1xo7A 166 3.56e-31 1vdnA 162 3.58e-31 1h0pA 182 7.77e-31 b.62.1.1 76450 2a2nA 176 2.90e-29 1zkcA 197 6.87e-29 1xwnA 174 1.11e-28 2fu0A 160 2.05e-28 2b71A 196 1.64e-27 1v9tA 166 9.93e-24 b.62.1.1 108451 1lopA 164 1.55e-23 2cpl b.62.1.1 27510 1clh 166 9.43e-23 2cpl b.62.1.1 27512 1j2aA 166 2.28e-21 b.62.1.1 90779 1mxiA 160 3.73e-01 c.116.1.1 79646 2gk3A 256 3.62e+00 1nb8A 353 7.00e+00 d.3.1.9 80385 1qupA 222 7.82e+00 1qupA b.1.8.1,d.58.17.1 22301,39352 1wggA 96 9.02e+00 1b77A 228 1.01e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1vr0A 247 1.04e+01 1bf8 205 1.09e+01 1qpxA b.1.11.1,b.7.2.1 22332,23214 1oaoC 729 1.09e+01 e.26.1.3 86746 1lq9A 112 1.17e+01 d.58.4.3 78129 1wloA 136 1.31e+01 1vj0A 380 1.35e+01 b.35.1.2,c.2.1.1 100786,100787 1nbfA 353 1.35e+01 d.3.1.9 80387 1rx0A 393 1.47e+01 a.29.3.1,e.6.1.1 98007,98008 1mjgM 729 1.61e+01 e.26.1.3 79204 1bvh 157 1.71e+01 1dg9A c.44.1.1 32640 1q0eA 152 1.76e+01 b.1.8.1 95504 1ewnA 219 1.80e+01 1bnkA b.46.1.2 25762 1fnhA 271 1.90e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1jt7A 146 1.90e+01 b.42.1.1 67255 1e9pA 151 2.01e+01 1mfmA b.1.8.1 22215 1zoxA 113 2.04e+01 1wdnA 226 2.05e+01 1lst c.94.1.1 35816 1oa4A 222 2.05e+01 b.29.1.11 86731 1pil 112 2.27e+01 2pii d.58.5.1 39072 1a49A 530 2.58e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 7fd1A 106 2.60e+01 1a6l d.58.1.2 38953 1qmpA 130 2.64e+01 1dz3A c.23.1.1 31106 2b8mA 117 2.68e+01 2bm3A 166 2.87e+01 1zx8A 136 2.89e+01 1kit 757 2.99e+01 1kit b.29.1.8,b.29.1.8,b.68.1.1 24272,24273,27616 2pii 112 3.08e+01 2pii d.58.5.1 39071 1v3rA 116 3.09e+01 1cbjA 151 3.09e+01 1mfmA b.1.8.1 22213 1fdd 106 3.14e+01 1a6l d.58.1.2 38960 1ezwA 349 3.26e+01 1ezwA c.1.16.3 29558 1mdbA 539 3.31e+01 e.23.1.1 79008 1r4wA 226 3.33e+01 c.47.1.13 97050 1barA 140 3.34e+01 1bfg b.42.1.1 25504 1h6uA 308 3.35e+01 b.1.18.15,c.10.2.1 65688,65689 1ffk1 177 3.45e+01 1ffk1 1gggA 226 3.48e+01 1lst c.94.1.1 35817 1a4rA 191 3.53e+01 1ctqA c.37.1.8 32063 1k1xA 659 3.56e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1gggB 226 3.57e+01 1lst c.94.1.1 35818 1lf7A 182 3.80e+01 b.60.1.1 73878 1iw2A 182 3.82e+01 b.60.1.1 71468 1z02A 446 3.84e+01 1q5fA 156 3.97e+01 d.24.1.1 104536 2b59A 187 3.98e+01 1xipA 388 4.00e+01 1afcA 140 4.02e+01 1bfg b.42.1.1 25506 1vfjA 116 4.05e+01 1std 172 4.17e+01 3stdA d.17.4.1 38089 1prn 289 4.28e+01 3prn f.4.3.1 43762 1wriA 93 4.29e+01 1c0eA 157 4.34e+01 1dg9A c.44.1.1 32638 1p63A 144 4.47e+01 b.42.1.1 94153 1pbyA 489 4.49e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1vqvA 306 4.54e+01 1f6oA 219 4.56e+01 1bnkA b.46.1.2 25763 1sglA 209 4.58e+01 d.124.1.1 105536 2std 172 4.60e+01 3stdA d.17.4.1 38085 3prn 289 4.66e+01 3prn f.4.3.1 43761 3stdA 165 4.68e+01 3stdA d.17.4.1 38073 2kaiA 80 4.76e+01 2pkaA b.47.1.2 26306 1ciy 590 4.82e+01 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 2b06A 155 4.86e+01 1w0pA 781 4.87e+01 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1zvkA 358 4.89e+01 1dz3A 130 4.92e+01 1dz3A c.23.1.1 31105 1idpA 172 4.92e+01 d.17.4.1 83685 2c5uA 375 4.99e+01 1vpjA 192 5.03e+01 1jqzA 146 5.05e+01 b.42.1.1 67109 1tg7A 971 5.10e+01 1sq2N 113 5.23e+01 b.1.1.1 105881 1oqyA 368 5.33e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 1k2fA 190 5.39e+01 b.8.1.2 68054 1zk5A 176 5.44e+01 1jjuA 489 5.45e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 66774,66775,66776,66777,66778 2aexA 346 5.70e+01 2cwsA 237 5.71e+01 1rg8A 146 5.71e+01 1yzxA 226 5.71e+01 1bftA 101 5.79e+01 1a3qA b.1.18.1 21934 1rzhH 260 5.83e+01 b.41.1.1,f.23.10.1 98162,98163 1aje 194 5.90e+01 1ctqA c.37.1.8 32071 1ntyA 311 6.05e+01 a.87.1.1,b.55.1.1 103873,103874 2afgA 140 6.17e+01 1bfg b.42.1.1 25514 1fvuB 125 6.18e+01 1ixxB d.169.1.1 42346 1qwgA 251 6.20e+01 c.1.27.1 96473 1si6X 282 6.23e+01 1o7iA 119 6.27e+01 b.40.4.3 86642 1s2oA 244 6.35e+01 2pkaA 80 6.36e+01 2pkaA b.47.1.2 26302 1bh3 289 6.51e+01 3prn f.4.3.1 43766 1bcpB 199 6.65e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1m16A 146 6.70e+01 b.42.1.1 91164 2jdxA 385 6.82e+01 1jdw d.126.1.2 41139 1y21A 282 7.11e+01 1b0vA 106 7.20e+01 1a6l d.58.1.2 38982 1qlpA 394 7.33e+01 1ovaA e.1.1.1 42628 1wgkA 114 7.42e+01 1jmmA 377 7.48e+01 b.30.6.1 71749 1to4A 156 7.51e+01 b.1.8.1 107162 1a70 97 7.52e+01 1awd d.15.4.1 37678 1ve4A 206 7.55e+01 1xk7A 408 7.58e+01 1rlhA 173 7.58e+01 d.256.1.1 97646 1fxiA 96 7.60e+01 1awd d.15.4.1 37664 8prn 289 7.66e+01 3prn f.4.3.1 43767 1bu6O 501 7.77e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1t1gA 364 7.86e+01 c.41.1.2 106246 1gt91 357 7.88e+01 1btkA 169 7.94e+01 1btkA b.55.1.1 26959 1xm0A 147 8.08e+01 1xa3A 437 8.21e+01 1an8 208 8.25e+01 1an8 b.40.2.2,d.15.6.1 25202,37791 1m1hA 248 8.26e+01 b.114.1.1,d.58.42.1 78415,78416 1x9uA 116 8.29e+01 1a5kC 566 8.30e+01 1ubpC b.92.1.1,c.1.9.2 28425,29047 1w2xA 758 8.33e+01 c.14.1.4,c.14.1.4 109134,109135 2sodB 152 8.35e+01 1mfmA b.1.8.1 22242 2g6yA 217 8.45e+01 1tjxA 159 8.50e+01 1ntfA 282 8.66e+01 d.151.1.2 92104 2cy5A 140 8.66e+01 1yo1A 260 8.69e+01 1jdw 423 8.74e+01 1jdw d.126.1.2 41129 1a5dA 173 8.74e+01 1amm b.11.1.1,b.11.1.1 23614,23615 2azpA 318 8.76e+01 1hzgA 295 8.92e+01 1hzgA d.194.1.1 61436