# List of top-scoring protein chains for t2k-100-30-dssp_ehl2 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 1qvcA 145 4.46e-22 3ullA b.40.4.3 25284 1kawA 135 7.27e-19 3ullA b.40.4.3 25288 3ullA 132 1.36e-16 3ullA b.40.4.3 25282 1bfeA 119 1.21e-02 1pdr b.36.1.1 24775 1pdr 99 1.50e-02 1pdr b.36.1.1 24771 1jb7A 495 2.63e-02 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1be9A 119 3.23e-02 1pdr b.36.1.1 24774 1otcA 495 5.07e-02 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1a8p 258 2.19e-01 1fdr b.43.4.2 25654 c.25.1.1 31544 1ndoB 194 2.28e-01 1ndoB d.17.4.4 38121 1je5A 206 2.46e-01 1je5A b.40.4.7 62909 1eg9B 194 5.56e-01 1ndoB d.17.4.4 38120 1d1nA 99 5.90e-01 1d1nA b.43.3.1 25718 1ewjA 126 7.17e-01 1ecsA d.32.1.2 59526 1gm5A 780 1.05e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1qg0A 308 1.31e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1d5yA 292 1.63e+00 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1ecsA 126 1.84e+00 1ecsA d.32.1.2 59407 1j8mF 297 1.96e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1be1 137 3.11e+00 1be1 c.23.6.1 31237 1a78A 134 4.38e+00 1c1lA b.29.1.3 24212 1huuA 90 4.49e+00 1huuA a.55.1.1 17897 1que 303 4.73e+00 1fnc b.43.4.2 25647 c.25.1.1 31537 1fdr 248 5.69e+00 1fdr b.43.4.2 25653 c.25.1.1 31543 1ep3B 262 6.07e+00 1ep2B b.43.4.2 25664 c.25.1.3 31554 1b8zA 90 6.15e+00 1huuA a.55.1.1 17902 1qouA 181 6.68e+00 1qouA b.17.1.1 23707 1cne 270 6.98e+00 1ndh b.43.4.2 25661 c.25.1.1 31551 1fnd 314 8.64e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1fnc 314 8.65e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1at0 145 8.71e+00 1at0 b.86.1.1 28374 1ihjA 98 9.35e+00 1pdr b.36.1.1 62382 1jmcA 246 9.83e+00 1jmcA b.40.4.3 25300 b.40.4.3 25301 1i36A 264 1.02e+01 1sltA 134 1.08e+01 1c1lA b.29.1.3 24186 1dwkA 156 1.13e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 1dw9A 156 1.13e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1j7xA 302 1.22e+01 c.14.1.2 66425 1caj 260 1.22e+01 2cba b.74.1.1 27841 1ktjA 129 1.30e+01 1jb3A 131 1.31e+01 1jc7A b.40.3.2 62833 1i7pA 274 1.31e+01 b.43.4.2 66048 c.25.1.1 66049 1hcb 260 1.32e+01 2cba b.74.1.1 27814 1deoA 233 1.35e+01 1deoA c.23.10.4 31345 2cba 260 1.38e+01 2cba b.74.1.1 27821 1pfo 500 1.39e+01 1pfo f.9.1.1 43826 1jc7A 131 1.39e+01 1jc7A b.40.3.2 62873 1sltB 134 1.41e+01 1c1lA b.29.1.3 24187 1eu3A 210 1.41e+01 1an8 b.40.2.2 25206 d.15.6.1 37795 1k7cA 233 1.45e+01 c.23.10.4 68267 1slaA 134 1.46e+01 1c1lA b.29.1.3 24196 1ndh 272 1.49e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 2tnfA 156 1.52e+01 2tnfA b.22.1.1 23880 1bmlC 362 1.53e+01 1bmlC d.15.5.1 37729 d.15.5.1 37730 d.15.5.1 37731 1ep2B 261 1.56e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1b8aA 438 1.57e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1e79A 510 1.61e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1b33N 67 1.73e+01 1b33N d.30.1.1 38459 1wit 93 1.82e+01 1wit b.1.1.4 21714 1fr7A 260 1.84e+01 2cba b.74.1.1 27828 1lj5A 379 1.89e+01 1bmfA 510 1.95e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 2cab 261 2.00e+01 2cba b.74.1.1 27906 2hvm 273 2.01e+01 1cnv c.1.8.5 28985 1cjwA 166 2.01e+01 1cjwA d.108.1.1 40818 1jh2A 99 2.02e+01 b.35.1.1 63038 1f28A 297 2.03e+01 1bkpA d.117.1.1 59608 1ir6A 424 2.05e+01 1f46A 140 2.07e+01 1f46A d.129.4.1 59643 3mdeA 385 2.19e+01 3mdeA a.29.3.1 16594 e.6.1.1 42855 1h8eA 510 2.22e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1fljA 260 2.28e+01 2cba b.74.1.1 27954 1jd0A 263 2.29e+01 2cba b.74.1.1 62888 1jatB 138 2.31e+01 1jatB d.20.1.1 62819 1jnyA 435 2.38e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ft9A 222 2.42e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1aw5 326 2.44e+01 1b4kA c.1.10.3 29181 1fc6A 388 2.48e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1uxy 340 2.50e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1l9mA 692 2.52e+01 1wpoA 256 2.52e+01 1lay b.57.1.1 27012 1mjhA 162 2.54e+01 1mjhA c.29.1.2 31639 2ebn 289 2.64e+01 2ebn c.1.8.5 28990 2mbr 340 2.66e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1c0nA 406 2.82e+01 1c0nA c.67.1.3 34433 1qczA 169 2.88e+01 1qczA c.23.8.1 31276 1mjhB 162 2.89e+01 1mjhA c.29.1.2 31640 1cqqA 180 2.97e+01 1cqqA b.47.1.4 26422 1bg6 359 2.98e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1a7s 221 2.98e+01 1a7s b.47.1.2 26284 1lay 256 3.04e+01 1lay b.57.1.1 27014 1gaxA 862 3.08e+01 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1tdtA 259 3.11e+01 3tdt b.81.1.2 28055 1lylA 504 3.11e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1jf9A 408 3.13e+01 1c0nA c.67.1.3 62931 1toaA 313 3.25e+01 1toaA c.92.2.2 35598 2fx2 147 3.36e+01 1rcf c.23.5.1 31158 1a7cA 379 3.47e+01 1sek e.1.1.1 42660 1h8dH 260 3.49e+01 5ptp 2tdt 274 3.58e+01 3tdt b.81.1.2 28054 3tdt 274 3.61e+01 3tdt b.81.1.2 28053 1gmuA 143 3.68e+01 b.107.1.1 65335 d.58.38.1 65336 1nbcA 155 3.71e+01 1nbcA b.2.2.2 22390 1j8rA 196 3.75e+01 1j8rA b.2.3.3 62745 1akr 147 3.76e+01 1rcf c.23.5.1 31152 1php 394 3.76e+01 16pk c.86.1.1 35452 1ds6B 180 3.82e+01 1rhoA b.1.1.5 21898 1h75A 81 3.83e+01 1h75A c.47.1.1 60716 1jj2I 145 3.84e+01 1ffkG c.21.1.1 63094