# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 1dywA 173 7.68e-37 2cpl b.62.1.1 27505 2bitX 165 1.28e-36 1cwoA 165 1.98e-36 2cpl b.62.1.1 27445 2cpl 165 1.98e-36 2cpl b.62.1.1 27420 1ihgA 370 2.58e-36 2cpl a.118.8.1,b.62.1.1 62380,62381 1awqA 164 2.68e-36 2cpl b.62.1.1 27461 2rmcA 182 3.01e-36 2cpl b.62.1.1 27491 1awsA 164 3.12e-36 2cpl b.62.1.1 27431 1a58 177 3.46e-36 2cpl b.62.1.1 27495 1yndA 165 3.84e-36 1qoiA 177 4.54e-36 2cpl b.62.1.1 27490 1zcxA 178 1.06e-35 1xo7A 166 2.18e-35 2cfeA 162 3.11e-35 1vdnA 162 3.74e-35 1h0pA 182 9.71e-35 b.62.1.1 76450 2a2nA 176 5.12e-33 1zkcA 197 5.73e-33 1xwnA 174 4.85e-32 2fu0A 160 5.90e-32 2b71A 196 1.97e-31 1j2aA 166 5.76e-28 b.62.1.1 90779 1v9tA 166 3.87e-27 b.62.1.1 108451 1lopA 164 4.55e-27 2cpl b.62.1.1 27510 1clh 166 1.07e-26 2cpl b.62.1.1 27512 1mxiA 160 4.65e-02 c.116.1.1 79646 1zx8A 136 7.52e-01 1ezwA 349 2.59e+00 1ezwA c.1.16.3 29558 1vr0A 247 3.63e+00 1c0eA 157 4.16e+00 1dg9A c.44.1.1 32638 1oa4A 222 4.86e+00 b.29.1.11 86731 1qmpA 130 6.74e+00 1dz3A c.23.1.1 31106 1ciy 590 7.09e+00 1ciy b.18.1.3,b.77.2.1,f.1.3.1 23720,27977,43392 1wloA 136 7.21e+00 1b77A 228 7.53e+00 1b77A d.131.1.2,d.131.1.2 41362,41363 1wriA 93 7.75e+00 1wggA 96 7.97e+00 1rx0A 393 8.10e+00 a.29.3.1,e.6.1.1 98007,98008 1phr 157 8.92e+00 1dg9A c.44.1.1 32635 1ffk1 177 9.19e+00 1ffk1 1kv9A 668 9.60e+00 a.3.1.6,b.70.1.1 73056,73057 1lq9A 112 9.71e+00 d.58.4.3 78129 1gc1H 229 1.06e+01 1gc1H b.1.1.1,b.1.1.2 20265,21265 1dz3A 130 1.08e+01 1dz3A c.23.1.1 31105 1dg9A 157 1.10e+01 1dg9A c.44.1.1 32637 1bvh 157 1.11e+01 1dg9A c.44.1.1 32640 1bqcA 302 1.12e+01 1bqcA c.1.8.3 28831 1barA 140 1.21e+01 1bfg b.42.1.1 25504 1vqvA 306 1.22e+01 1oaoC 729 1.27e+01 e.26.1.3 86746 1w2xA 758 1.32e+01 c.14.1.4,c.14.1.4 109134,109135 1m8uA 173 1.42e+01 b.11.1.1,b.11.1.1 91233,91234 1befA 181 1.49e+01 1befA b.47.1.3 26419 1o91A 178 1.59e+01 b.22.1.1 92656 1b2iA 83 1.71e+01 5hpgA g.14.1.1 44640 1a45 173 1.73e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1xwwA 157 1.74e+01 1fnhA 271 1.81e+01 1fnhA b.1.2.1,b.1.2.1,b.1.2.1 21976,21977,21978 1mjgM 729 1.82e+01 e.26.1.3 79204 1fjgE 162 1.85e+01 1pkp d.14.1.1,d.50.1.2 37553,38789 2ex4A 241 1.87e+01 1agx 331 1.88e+01 4pgaA c.88.1.1 35564 1ewnA 219 1.91e+01 1bnkA b.46.1.2 25762 1j5eE 161 1.92e+01 d.14.1.1,d.50.1.2 71547,71548 1vfjA 116 1.96e+01 1s8nA 205 1.97e+01 c.23.1.1 105374 1afcA 140 2.03e+01 1bfg b.42.1.1 25506 1gm6A 175 2.05e+01 b.60.1.1 70272 1a70 97 2.10e+01 1awd d.15.4.1 37678 1z7mA 344 2.12e+01 1y21A 282 2.32e+01 1ul7A 102 2.35e+01 d.129.6.1 99540 1r4wA 226 2.38e+01 c.47.1.13 97050 1iw2A 182 2.46e+01 b.60.1.1 71468 1gggA 226 2.48e+01 1lst c.94.1.1 35817 1lf7A 182 2.50e+01 b.60.1.1 73878 1a8s 273 2.60e+01 1brt c.69.1.12 34710 1jj2E 177 2.61e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1x9uA 116 2.71e+01 2pii 112 2.74e+01 2pii d.58.5.1 39071 1jzuA 157 2.76e+01 b.60.1.1 84271 1si6X 282 2.79e+01 2bdvA 231 2.83e+01 1gggB 226 2.85e+01 1lst c.94.1.1 35818 2gk3A 256 2.93e+01 1eqjA 511 2.95e+01 1ejjA c.105.1.1,c.76.1.3 59495,59496 2b8mA 117 2.98e+01 2atpB 115 3.01e+01 3sil 379 3.02e+01 3sil b.68.1.1 27542 1fa0B 537 3.07e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39336,75839,75840 1wdnA 226 3.14e+01 1lst c.94.1.1 35816 2gaxA 135 3.15e+01 1o7iA 119 3.34e+01 b.40.4.3 86642 1f6oA 219 3.46e+01 1bnkA b.46.1.2 25763 1yzxA 226 3.50e+01 1ntfA 282 3.50e+01 d.151.1.2 92104 1mdbA 539 3.52e+01 e.23.1.1 79008 2sil 381 3.53e+01 3sil b.68.1.1 27543 1eysH 259 3.58e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1ejjA 511 3.60e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 2bm3A 166 3.62e+01 1prq 125 3.68e+01 3nul d.110.1.1 40883 1jj2D 176 3.89e+01 1ffkD d.77.1.1 63088 2kfnA 605 3.90e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1ystH 260 3.92e+01 6prcH b.41.1.1,f.23.10.1 25482,43511 1vqoE 178 3.96e+01 1qwgA 251 3.97e+01 c.1.27.1 96473 1kfd 605 4.03e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1fxiA 96 4.06e+01 1awd d.15.4.1 37664 1o04A 500 4.12e+01 c.82.1.1 86508 1uumA 372 4.12e+01 c.1.4.1 100010 1uroA 367 4.16e+01 1uroA c.1.22.1 29675 1a04A 215 4.17e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1rom 403 4.18e+01 1rom a.104.1.1 18963 2b4wA 315 4.35e+01 1iatA 557 4.54e+01 1dqrA c.80.1.2 62123 1d8yA 605 4.60e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1df9A 191 4.68e+01 1befA b.47.1.3 26420 2fimA 276 4.71e+01 1r3sA 367 4.80e+01 c.1.22.1 96963 1acf 125 4.80e+01 3nul d.110.1.1 40882 1pn0A 665 4.81e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1rypK 198 4.91e+01 d.153.1.4 41879 1s72E 178 4.94e+01 d.141.1.1,d.141.1.1 105323,105324 1f0iA 504 4.95e+01 1f0iA d.136.1.2,d.136.1.2 59566,59567 1i69A 219 4.98e+01 c.94.1.1 61825 1ve4A 206 4.98e+01 1b1cA 181 5.07e+01 1amoA c.23.5.2 31212 1oalA 151 5.11e+01 b.1.8.1 86739 1bf8 205 5.16e+01 1qpxA b.1.11.1,b.7.2.1 22332,23214 1oktA 211 5.20e+01 a.45.1.1,c.47.1.5 93272,93273 1klnA 605 5.22e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1gthD 1025 5.35e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70498,70499,70500,70501,70502 1zoxA 113 5.35e+01 1u0sY 118 5.38e+01 c.23.1.1 107566 1v0wA 506 5.41e+01 d.136.1.2,d.136.1.2 108220,108221 1xiwA 105 5.45e+01 1sq2N 113 5.49e+01 b.1.1.1 105881 1k87A 669 5.55e+01 a.176.1.1,c.1.23.2 77286,77287 1pa2A 306 5.60e+01 1bgp a.93.1.1 18693 1sqkB 25 5.60e+01 j.86.1.1 105924 1gt8A 1025 5.69e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1gthB 1025 5.71e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1tmy 120 5.72e+01 1dbwA c.23.1.1 31083 1sffA 426 5.76e+01 c.67.1.4 105482 1dim 381 5.87e+01 3sil b.68.1.1 27544 1q5fA 156 5.93e+01 d.24.1.1 104536 1eesA 178 5.93e+01 1eesA c.37.1.8 32073 1amoA 615 5.94e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 25669,31210,31557 1vj0A 380 6.05e+01 b.35.1.2,c.2.1.1 100786,100787 1g9mC 185 6.12e+01 1cdy b.1.1.1,b.1.1.3 19721,21660 1pbyA 489 6.13e+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 1p63A 144 6.18e+01 b.42.1.1 94153 1cjbA 231 6.27e+01 1qk3A c.61.1.1 34079 1zq9A 285 6.30e+01 2ar9A 278 6.32e+01 1gt8D 1025 6.36e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 1k1xA 659 6.61e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1a5dA 173 6.66e+01 1amm b.11.1.1,b.11.1.1 23614,23615 1w44A 331 6.67e+01 1a7fB 29 6.67e+01 g.1.1.1 43943 1elpA 173 6.69e+01 1amm b.11.1.1,b.11.1.1 23596,23597 1jqzA 146 6.81e+01 b.42.1.1 67109 1hm5A 558 6.84e+01 c.80.1.2 76717 3cd4 182 6.84e+01 1cdy b.1.1.1,b.1.1.3 19720,21659 1sglA 209 6.86e+01 d.124.1.1 105536 1s2oA 244 6.87e+01 1bed 181 7.02e+01 1fvkA c.47.1.13 90330 1jer 138 7.22e+01 2cbp b.6.1.1 23022 2napA 723 7.22e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1gthC 1025 7.28e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1f24A 402 7.31e+01 1rom a.104.1.1 18953 2b59A 187 7.31e+01 1gt8B 1025 7.34e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 3monB 50 7.36e+01 1molA d.17.1.1 37992 2cy7A 396 7.46e+01 1jfbA 404 7.47e+01 a.104.1.1 66624 1xvxA 312 7.53e+01 1dqrA 557 7.66e+01 1dqrA c.80.1.2 35305 1w96A 554 7.68e+01 1v9sA 208 7.68e+01 1tbgE 68 7.69e+01 1tbgE a.137.3.1 19630 1wraA 308 7.70e+01 1gt8C 1025 7.72e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1gthA 1025 7.75e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 2coeA 120 7.76e+01 1n0uA 842 7.77e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1uyrA 737 7.82e+01 c.14.1.4,c.14.1.4 100188,100189 2fomB 185 7.82e+01 1wn0A 145 8.11e+01 1jjuA 489 8.15e+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 1mooA 260 8.20e+01 b.74.1.1 79359 2bh9A 489 8.27e+01 1gteA 1025 8.35e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1h7wA 1025 8.63e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 4gcr 174 8.66e+01 1amm b.11.1.1,b.11.1.1 23589,23590 1h7wD 1025 8.68e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1qvbA 481 8.68e+01 1qvbA c.1.8.4 28983 1fh0A 221 8.75e+01 1cs8A d.3.1.1 59832 1uunA 184 8.79e+01 f.6.1.2 100012 1v5sA 126 8.82e+01 d.129.6.1 108384 1qubA 319 8.91e+01 1qubA g.18.1.1,g.18.1.1,g.18.1.1,g.18.1.1,g.18.1.1 44863,44864,44865,44866,44867 1rg8A 146 8.93e+01 1o98A 511 8.94e+01 c.105.1.1,c.76.1.3 86684,86685 8kme2 259 8.99e+01 1ucyE