# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1.48e-22 3ullA b.40.4.3 25284 1kawA 135 2.21e-18 3ullA b.40.4.3 25288 3ullA 132 7.24e-15 3ullA b.40.4.3 25282 1je5A 206 5.07e-02 1je5A b.40.4.7 62909 1a8p 258 2.28e-01 1fdr b.43.4.2 25654 c.25.1.1 31544 1j8mF 297 6.24e-01 1ng1 a.24.13.1 62742 c.37.1.10 62743 1ndoB 194 8.11e-01 1ndoB d.17.4.4 38121 1pdr 99 9.81e-01 1pdr b.36.1.1 24771 1bfeA 119 1.01e+00 1pdr b.36.1.1 24775 1be1 137 1.56e+00 1be1 c.23.6.1 31237 1be9A 119 1.66e+00 1pdr b.36.1.1 24774 1qg0A 308 1.87e+00 1fnc b.43.4.2 25639 c.25.1.1 31529 1eg9B 194 2.41e+00 1ndoB d.17.4.4 38120 1d1nA 99 2.54e+00 1d1nA b.43.3.1 25718 1l9mA 692 3.42e+00 2dynA 122 5.18e+00 1dynA b.55.1.1 26957 1al3 324 5.66e+00 1al3 c.94.1.1 35835 1otcA 495 6.04e+00 1otcA b.40.4.3 25307 b.40.4.3 25308 b.40.4.3 25309 1jb7A 495 6.39e+00 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1fnc 314 7.19e+00 1fnc b.43.4.2 25627 c.25.1.1 31517 1b8zA 90 7.44e+00 1huuA a.55.1.1 17902 1btkB 169 7.94e+00 1btkA b.55.1.1 26960 1fnd 314 8.05e+00 1fnc b.43.4.2 25626 c.25.1.1 31516 1b33N 67 8.15e+00 1b33N d.30.1.1 38459 1btkA 169 8.47e+00 1btkA b.55.1.1 26959 1ecsA 126 8.76e+00 1ecsA d.32.1.2 59407 1ir6A 424 8.90e+00 1pfo 500 9.55e+00 1pfo f.9.1.1 43826 2tdt 274 9.64e+00 3tdt b.81.1.2 28054 1e3mA 800 1.00e+01 1ewqA a.113.1.1 19075 c.37.1.12 32389 c.55.6.1 33746 d.75.2.1 39747 3tdt 274 1.02e+01 3tdt b.81.1.2 28053 1d5yA 292 1.03e+01 1d5yA a.4.1.8 16055 a.4.1.8 16056 d.60.1.2 39532 1cjwA 166 1.03e+01 1cjwA d.108.1.1 40818 1hx0A 496 1.11e+01 b.71.1.1 61346 c.1.8.1 61347 1b8aA 438 1.14e+01 1b8aA b.40.4.1 25244 d.104.1.1 40765 1ytfD 121 1.22e+01 1ytfD a.32.1.1 16998 b.56.1.1 27011 1ewjA 126 1.29e+01 1ecsA d.32.1.2 59526 1dynA 125 1.29e+01 1dynA b.55.1.1 26955 2fcbA 173 1.31e+01 2fcbA b.1.1.4 21781 b.1.1.4 21782 1a7cA 379 1.34e+01 1sek e.1.1.1 42660 1jb3A 131 1.38e+01 1jc7A b.40.3.2 62833 1lj5A 379 1.41e+01 1ds6B 180 1.41e+01 1rhoA b.1.1.5 21898 1qhxA 178 1.41e+01 1qhsA c.37.1.3 31936 1qhsA 178 1.43e+01 1qhsA c.37.1.3 31938 1gm5A 780 1.43e+01 a.29.4.1 65298 b.40.4.9 65299 c.37.1.13 65300 c.37.1.13 65301 1jc7A 131 1.44e+01 1jc7A b.40.3.2 62873 1a49A 530 1.45e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1dwkA 156 1.49e+01 1dw9A a.35.1.4 17075 d.72.1.1 39606 3rp2A 224 1.51e+01 1a7s b.47.1.2 26298 1dw9A 156 1.51e+01 1dw9A a.35.1.4 17065 d.72.1.1 39596 1tdtA 259 1.58e+01 3tdt b.81.1.2 28055 1dy9A 187 1.59e+01 1jxpA b.47.1.3 26400 1iioA 84 1.61e+01 a.39.4.1 66150 1que 303 1.64e+01 1fnc b.43.4.2 25647 c.25.1.1 31537 1noyA 388 1.72e+01 1clqA c.55.3.5 33713 1cqqA 180 1.73e+01 1cqqA b.47.1.4 26422 1f46A 140 1.77e+01 1f46A d.129.4.1 59643 1jf9A 408 1.79e+01 1c0nA c.67.1.3 62931 1avaA 403 1.85e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1fc6A 388 1.85e+01 1fc6A b.36.1.3 64738 c.14.1.2 64739 1b1a 137 1.85e+01 1be1 c.23.6.1 31242 1a8vA 121 1.87e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1c0nA 406 1.93e+01 1c0nA c.67.1.3 34433 1i36A 264 1.97e+01 1at0 145 2.03e+01 1at0 b.86.1.1 28374 1g2iA 166 2.08e+01 1g2iA c.23.16.2 31438 2hvm 273 2.09e+01 1cnv c.1.8.5 28985 1f9zA 135 2.11e+01 1qipA d.32.1.1 38484 3cox 507 2.12e+01 1b8sA c.3.1.2 30332 d.16.1.1 37863 1huuA 90 2.22e+01 1huuA a.55.1.1 17897 1fdr 248 2.23e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1h8eG 272 2.23e+01 1e79G c.49.2.1 60756 1amuA 563 2.30e+01 1amuA e.23.1.1 43351 1lylA 504 2.34e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1nozA 388 2.36e+01 1clqA c.55.3.5 33715 1pkn 530 2.38e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1bx4A 345 2.40e+01 1bx4A c.72.1.1 34935 1e1oA 504 2.42e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1e19A 314 2.47e+01 1b7bA c.73.1.1 34967 2sodB 152 2.50e+01 1mfmA b.1.8.1 22242 1qbiA 454 2.52e+01 1c9uA b.68.2.1 27619 1behA 187 2.58e+01 1a44 b.17.1.1 23700 1iazA 179 2.61e+01 1iazA b.97.1.1 62131 1i18A 97 2.63e+01 b.43.4.3 61520 1ep3B 262 2.66e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1qfhA 212 2.66e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894 1j7xA 302 2.72e+01 c.14.1.2 66425 1qczA 169 2.73e+01 1qczA c.23.8.1 31276 1f06A 320 2.75e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 1ccwA 137 2.81e+01 1be1 c.23.6.1 31238 1dtoA 221 2.82e+01 1dtoA b.91.1.1 28405 1g57A 217 2.89e+01 1g57A d.115.1.2 60253 1im5A 180 2.91e+01 c.33.1.2 66211 1i82A 189 2.93e+01 1i82A b.1.9.2 61937 1dapA 320 2.94e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1k7cA 233 2.98e+01 c.23.10.4 68267 5cpp 414 2.99e+01 1phd a.104.1.1 18935 1ft9A 222 3.01e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1ggxA 223 3.09e+01 1ggxA d.22.1.1 38367 1qdbA 473 3.13e+01 1qdbA a.138.1.3 19688 1ep2B 261 3.16e+01 1ep2B b.43.4.2 25666 c.25.1.3 31556 1bovA 69 3.16e+01 2bosA b.40.2.1 25070 1hf2A 210 3.19e+01 1hf2A b.80.3.1 60992 c.102.1.1 60993 1mjhB 162 3.24e+01 1mjhA c.29.1.2 31640 1mjhA 162 3.25e+01 1mjhA c.29.1.2 31639 1shdA 107 3.27e+01 1fmk d.93.1.1 40440 1nnt 328 3.28e+01 1nnt c.94.1.2 35884 1phd 414 3.30e+01 1phd a.104.1.1 18913 1tupA 219 3.30e+01 1tupA b.2.5.1 22434 1phg 414 3.31e+01 1phd a.104.1.1 18910 1bg6 359 3.32e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1fs7A 485 3.33e+01 1qdbA a.138.1.3 19691 1c9uA 454 3.39e+01 1c9uA b.68.2.1 27623 1shbA 104 3.41e+01 1fmk d.93.1.1 40425 1shaA 104 3.45e+01 1fmk d.93.1.1 40424 1kxrA 339 3.52e+01 1a62 130 3.57e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1jh2A 99 3.57e+01 b.35.1.1 63038 1ge8A 249 3.69e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1e79A 510 3.73e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1iejA 332 3.73e+01 1nnt c.94.1.2 62328 1c4qA 69 3.80e+01 2bosA b.40.2.1 25010 1ff9A 450 3.80e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1f89A 291 3.81e+01 d.160.1.1 64988 1deoA 233 3.83e+01 1deoA c.23.10.4 31345 1ddzA 496 3.86e+01 1ddzA c.53.2.1 33372 c.53.2.1 33373 1gaxA 862 3.90e+01 1gaxA a.27.1.1 16928 b.51.1.1 26893 c.26.1.1 31595 1j8rA 196 3.99e+01 1j8rA b.2.3.3 62745