# 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 2bcoA 350 2.17e-20 1yw4A 341 3.09e-19 1h8lA 380 1.30e-04 b.3.2.1,c.56.5.1 65737,65738 1qmuA 380 1.72e-04 1qmuA b.3.2.1,c.56.5.1 22534,33827 2bo9A 308 2.04e-03 1jqgA 433 1.42e-02 c.56.5.1,d.58.3.1 71791,71792 2c1cA 312 1.54e-02 1aye 401 4.09e-02 1aye c.56.5.1,d.58.3.1 33824,39065 1dtdA 303 4.78e-02 1aye c.56.5.1 33823 2ctb 307 1.95e-01 1aye c.56.5.1 33803 1m4lA 307 2.03e-01 c.56.5.1 78604 2ctc 307 2.05e-01 1aye c.56.5.1 33802 1yme 309 2.42e-01 1aye c.56.5.1 33804 6cpa 307 3.82e-01 1aye c.56.5.1 33816 1bavA 309 3.97e-01 1aye c.56.5.1 33806 1kwmA 402 4.45e-01 c.56.5.1,d.58.3.1 73079,73080 1z5rA 306 8.03e-01 1jvbA 347 1.59e+00 b.35.1.2,c.2.1.1 77181,77182 1bl3A 160 2.74e+00 1b9dA c.55.3.2 33655 1qatB 622 3.78e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17355,23172,29600 1lpuA 332 3.94e+00 d.144.1.7 74177 2aqjA 538 3.97e+00 2axpA 173 4.45e+00 1cy9A 264 4.48e+00 1ecl e.10.1.1 43236 1om1A 332 4.87e+00 d.144.1.7 93347 1f47B 144 5.20e+00 1f46A d.129.4.1 59645 1obr 326 5.34e+00 1aye c.56.5.2 33828 1hyvA 166 5.42e+00 1b9dA c.55.3.2 61424 1a6o 332 5.78e+00 1a6o 1m2rA 327 6.62e+00 d.144.1.7 84760 1djxB 624 6.78e+00 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 1lp4A 332 7.10e+00 d.144.1.7 74170 1b9dA 163 7.40e+00 1b9dA c.55.3.2 33649 1oe0A 230 7.53e+00 c.37.1.1 92788 1zm7A 230 8.25e+00 1f7wA 144 8.76e+00 1f46A d.129.4.1 59679 1d6mA 653 9.07e+00 1d6mA e.10.1.1 43248 2vil 126 9.85e+00 2vil d.109.1.1 40830 1qasA 622 1.03e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1vp4A 425 1.07e+01 1g01A 364 1.08e+01 7a3hA c.1.8.3 60161 1d8yA 605 1.23e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1j90A 230 1.28e+01 c.37.1.1 66448 1p2fA 220 1.30e+01 a.4.6.1,c.23.1.1 87720,87721 1xx1A 285 1.32e+01 1qd1A 325 1.34e+01 1qd1A d.58.34.1,d.58.34.1 39493,39494 2gl5A 410 1.44e+01 1g0cA 364 1.45e+01 7a3hA c.1.8.3 60165 2kfnA 605 1.45e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1hdcA 253 1.53e+01 1e6wA c.2.1.2 29862 2itg 163 1.66e+01 1b9dA c.55.3.2 33669 1klnA 605 1.68e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1mk4A 157 1.75e+01 d.108.1.1 84979 1f46A 140 1.77e+01 1f46A d.129.4.1 59643 1h6kZ 98 1.77e+01 d.58.7.1 60686 1yj7A 171 1.85e+01 1f1sA 814 1.86e+01 a.102.3.2,b.1.18.2,b.24.1.1,b.30.5.2 64928,64929,64930,64931 1ne2A 200 1.88e+01 c.66.1.32 85586 1cz1A 394 1.89e+01 1cz1A c.1.8.3 28839 1o0wA 252 1.92e+01 a.149.1.1,d.50.1.1 80751,80752 1jwqA 179 1.93e+01 c.56.5.6 90921 1djxA 624 1.99e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17342,23159,29587 1oo0B 110 2.03e+01 d.58.7.1 87183 1xovA 326 2.04e+01 1usgA 346 2.05e+01 c.93.1.1 99864 1ecl 597 2.05e+01 1ecl e.10.1.1 43238 1kfd 605 2.14e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 1eqcA 394 2.19e+01 1cz1A c.1.8.3 28811 1yaxA 153 2.22e+01 2hsdA 253 2.34e+01 1e6wA c.2.1.2 29866 1xfjA 261 2.38e+01 d.194.1.2 109585 1bjt 793 2.38e+01 1bjt e.11.1.1 43249 1d4xG 126 2.47e+01 1d0nA d.109.1.1 59109 2bklA 695 2.60e+01 1z15A 344 2.67e+01 1i7dA 659 2.78e+01 1d6mA e.10.1.1 61886 1a8y 367 2.80e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1yagG 125 2.86e+01 1d0nA d.109.1.1 40846 1h1nA 305 2.88e+01 c.1.8.3 70855 1jbeA 128 2.88e+01 3chy c.23.1.1 62845 1nm1G 125 2.93e+01 d.109.1.1 80653 1ki9A 192 3.11e+01 c.37.1.1 84404 2b81A 323 3.41e+01 1j8yF 297 3.42e+01 1ng1 a.24.13.1,c.37.1.10 62747,62748 1o26A 232 3.42e+01 d.207.1.1 86566 1gdeA 389 3.44e+01 c.67.1.1 60456 1rk8A 165 3.52e+01 d.58.7.1 97603 1dusA 194 3.56e+01 1dusA c.66.1.4 34182 2lbp 346 3.59e+01 2liv c.93.1.1 35709 1mjc 69 3.61e+01 1mjc b.40.4.5 25319 1gd9A 389 3.62e+01 c.67.1.1 60454 1p27B 106 4.00e+01 d.58.7.1 93908 1vhoA 346 4.29e+01 b.49.3.1,c.56.5.4 100694,100695 1wzcA 249 4.32e+01 2conA 79 4.32e+01 1e6mA 128 4.34e+01 3chy c.23.1.1 31039 1xwiA 322 4.41e+01 1ii2A 524 4.41e+01 c.91.1.1,c.109.1.1 66146,66147 1h2vZ 156 4.43e+01 d.58.7.1 76595 1y8qB 640 4.50e+01 2liv 344 4.54e+01 2liv c.93.1.1 35708 2cq2A 114 4.54e+01 1f6yA 262 4.59e+01 1f6yA c.1.21.2 29673 1i24A 404 4.62e+01 c.2.1.2 83663 1d0nA 729 4.72e+01 1d0nA d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1,d.109.1.1 40834,40835,40836,40837,40838,40839 1a80 277 4.83e+01 1frb c.1.7.1 28700 1oo2A 119 4.84e+01 b.3.4.1 93372 1j8mF 297 4.93e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1ab5A 125 4.97e+01 3chy c.23.1.1 31056 1f8yA 157 4.97e+01 1f8xA c.23.14.1 31395 1a4yB 123 4.99e+01 7rsa d.5.1.1 37296 1jhnA 424 5.04e+01 b.104.1.1,b.29.1.12 66722,70060 1gehA 444 5.15e+01 c.1.14.1,d.58.9.1 65181,65182 1rliA 184 5.17e+01 c.23.5.6 97647 1itg 166 5.17e+01 1b9dA c.55.3.2 33661 1yhtA 367 5.18e+01 1cye 129 5.29e+01 3chy c.23.1.1 31077 1nmoA 247 5.32e+01 c.135.1.1 91980 1hw6A 278 5.38e+01 1frb c.1.7.1 61296 1eceA 358 5.47e+01 1eceA c.1.8.3 28813 1ab6A 125 5.59e+01 3chy c.23.1.1 31054 1kyqA 274 5.60e+01 c.2.1.11,e.37.1.1 73281,73282 2bfdA 400 5.69e+01 1h4uA 265 5.90e+01 1h4uA d.22.1.2,g.3.11.5 60622,60623 1xwyA 264 5.93e+01 1nonA 179 5.95e+01 c.61.1.1 103868 1pf5A 131 6.03e+01 d.79.1.1 94604 1keeG 1073 6.04e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68516,68517,68518,68519,68520,68521 1c3oG 1073 6.10e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18565,31494,31687,31688,41532,41533 1gsoA 431 6.18e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1c3oA 1073 6.27e+01 1c3oA a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18562,31491,31681,31682,41526,41527 1pa2A 306 6.30e+01 1bgp a.93.1.1 18693 1vig 71 6.31e+01 1vih d.51.1.1 38806 1hl6A 165 6.32e+01 d.58.7.1 83609 1ypfA 336 6.33e+01 1jztA 246 6.39e+01 c.104.1.1 63319 1rkiA 102 6.44e+01 1v7cA 351 6.47e+01 c.79.1.1 100446 1ghsA 306 6.50e+01 1aq0A c.1.8.3 28840 1xiyA 182 6.54e+01 1f8xA 157 6.55e+01 1f8xA c.23.14.1 31397 1ltqA 301 6.59e+01 c.108.1.9,c.37.1.1 78208,78209 1ifa 158 6.70e+01 1ifa a.26.1.3 16892 1keeE 1073 6.72e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68508,68509,68510,68511,68512,68513 1pv1A 299 6.85e+01 1hs6A 611 6.86e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1xznA 179 6.87e+01 1k0dA 260 6.95e+01 a.45.1.1,c.47.1.5 67930,67931 1keeC 1073 7.01e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 68500,68501,68502,68503,68504,68505 1nrzA 164 7.07e+01 c.38.1.1 86131 1hbyA 123 7.15e+01 7rsa d.5.1.1 60936 1gu7A 364 7.19e+01 b.35.1.2,c.2.1.1 83321,83322 1w61A 414 7.19e+01 1pgvA 197 7.24e+01 c.10.1.1 88073 1jj7A 260 7.27e+01 c.37.1.12 63114 1x7yA 400 7.34e+01 1vih 71 7.37e+01 1vih d.51.1.1 38807 1fxqA 267 7.38e+01 1d9eA c.1.10.4 60108 1v1rA 400 7.44e+01 c.36.1.11 108272 1c0dA 358 7.51e+01 1eceA c.1.8.3 28815 1ifqA 138 7.56e+01 1ifqA d.110.4.1 62350 1wdvA 152 7.58e+01 1s1pA 331 7.63e+01 c.1.7.1 98350 2cq8A 110 7.64e+01 1ihnA 113 7.66e+01 1ihnA c.103.1.1 62388 1pe1A 267 7.66e+01 c.1.10.4 94591 1d3yA 301 7.76e+01 1d3yA e.12.1.1 43252 1t8xA 267 7.83e+01 1k3sA 113 7.90e+01 d.198.1.1 68120 1wd5A 208 7.97e+01 3chy 128 8.04e+01 3chy c.23.1.1 31038 1fxpA 267 8.15e+01 1d9eA c.1.10.4 60106 1jcxA 267 8.23e+01 c.1.10.4 66510 1fgkA 310 8.24e+01 1fgkA d.144.1.7 41693 1eu3A 210 8.27e+01 1an8 b.40.2.2,d.15.6.1 25206,37795 1lroA 267 8.33e+01 c.1.10.4 78161 1cs0C 1073 8.35e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18559,31488,31675,31676,41520,41521 1udsA 255 8.36e+01 d.14.1.4,d.101.1.1 99219,99220 1w30A 201 8.49e+01 1iugA 352 8.49e+01 c.67.1.3 90699 1ye8A 178 8.49e+01 1ymiA 334 8.59e+01 1olsA 400 8.71e+01 c.36.1.11 93331 1xfsA 178 8.80e+01 d.129.3.5 109589 1hjsA 332 8.84e+01 c.1.8.3 83492 1sfjA 238 8.95e+01 1vcoA 550 8.98e+01 c.23.16.1,c.37.1.10 108508,108509