# 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 1gr3A 160 5.14e-17 b.22.1.1 65476 1c3hA 137 5.63e-17 1c28A 135 1.20e-16 1c28A b.22.1.1 23857 1o91A 178 7.61e-16 1pk6C 129 1.79e-13 1pk6A 133 1.17e-12 1pk6B 132 1.50e-12 1iqaA 160 1.08e-02 b.22.1.1 71274 1rj8A 164 1.19e-02 1d2qA 173 2.02e-02 1d4vB b.22.1.1 23894 1kxgA 152 2.47e-02 b.22.1.1 73145 1dg6A 191 3.01e-02 1d4vB b.22.1.1 23883 1d4vB 163 4.08e-02 1d4vB b.22.1.1 23884 1jh5A 144 6.48e-02 b.22.1.1 66697 1uxzA 131 1.92e-01 1tnrA 144 3.94e-01 2tnfA b.22.1.1 23867 1smlA 269 8.84e-01 1smlA d.157.1.1 42053 1aly 146 9.09e-01 1aly b.22.1.1 23856 2tnfA 156 1.13e+00 2tnfA b.22.1.1 23880 1ktbA 405 1.26e+00 b.71.1.1 72960 c.1.8.1 72961 1avk 638 1.75e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1cid 177 1.78e+00 1cid b.1.1.1 19740 b.1.1.3 21679 1tnfA 158 1.79e+00 2tnfA b.22.1.1 23871 1ivwA 638 1.83e+00 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 1iqyA 638 1.91e+00 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1ui8A 638 2.02e+00 4tsvA 150 2.03e+00 2tnfA b.22.1.1 23860 1vkdA 338 2.78e+00 3seb 238 3.75e+00 3seb b.40.2.2 25184 d.15.6.1 37773 1kopA 223 4.01e+00 2cba b.74.1.1 27966 1ux6A 350 5.29e+00 1j83A 180 5.66e+00 b.18.1.12 66430 1dymA 402 6.31e+00 1celA b.29.1.10 24304 1qy1A 174 6.82e+00 1l7lA 121 6.88e+00 b.18.1.16 77790 1i05A 180 6.96e+00 1mup b.60.1.1 27130 1hcz 252 6.98e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1i06A 180 6.98e+00 1mup b.60.1.1 27131 1pfo 500 7.04e+00 1pfo f.9.1.1 43826 1bxsA 501 7.13e+00 1bpwA c.82.1.1 35357 1ojjA 402 7.19e+00 2rmcA 182 7.37e+00 2cpl b.62.1.1 27491 1epwA 1290 7.71e+00 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1k9tA 540 7.79e+00 b.1.18.2 77298 c.1.8.5 77299 d.26.3.1 77300 1mup 166 7.80e+00 1mup b.60.1.1 27133 1jv4A 162 7.94e+00 b.60.1.1 67343 1o04A 500 8.80e+00 c.82.1.1 86508 1edqA 540 8.81e+00 1ctn b.1.18.2 21873 c.1.8.5 29002 d.26.3.1 38436 1oniA 137 8.92e+00 d.79.1.1 87144 1xgsA 295 9.30e+00 1bn5 a.4.5.25 16216 d.127.1.1 41153 2pcfB 250 9.32e+00 1hcz i.4.1.1 45911 1rmg 422 1.02e+01 1rmg b.80.1.3 28029 1fftB 315 1.05e+01 1cyx b.6.1.2 23025 f.17.2.1 43628 1hn2A 159 1.06e+01 b.60.1.1 65890 1gt1A 159 1.06e+01 1obpA 159 1.13e+01 1obpA b.60.1.1 27092 4ubpB 126 1.18e+01 1ubpB b.85.3.1 28345 1mv3A 213 1.19e+01 1ubpB 122 1.35e+01 1ubpB b.85.3.1 28346 1d7qA 143 1.35e+01 1d7qA b.40.4.5 25331 1iw2A 182 1.37e+01 b.60.1.1 71468 1rdzA 337 1.38e+01 1frpA e.7.1.1 42882 1ctn 540 1.40e+01 1ctn b.1.18.2 21876 c.1.8.5 29005 d.26.3.1 38439 1aop 497 1.40e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1ewiA 114 1.40e+01 1ewiA b.40.4.3 25302 1sdwA 314 1.41e+01 2aop 497 1.43e+01 2aop d.58.36.1 39503 d.58.36.1 39504 d.134.1.1 41427 d.134.1.1 41428 1m3iA 471 1.46e+01 1phm 310 1.47e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1lf7A 182 1.49e+01 b.60.1.1 73878 1eut 605 1.56e+01 1eut b.1.18.2 21891 b.18.1.1 23712 b.68.1.1 27609 1rewA 114 1.57e+01 1jv1A 505 1.64e+01 c.68.1.5 71892 1m3jA 471 1.66e+01 1m2xA 223 1.72e+01 d.157.1.1 84764 1omwA 689 1.75e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1dlc 584 1.76e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 1nwwA 149 1.87e+01 d.17.4.8 86306 1eerB 227 2.03e+01 1eerB b.1.2.1 22011 b.1.2.1 22012 1r9gA 216 2.05e+01 1df3A 162 2.08e+01 1mup b.60.1.1 27134 1g4uS 383 2.09e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 1h54A 754 2.11e+01 a.102.1.4 60634 b.30.5.3 60635 1g4wR 383 2.13e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1ytbA 180 2.14e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1hs6A 611 2.14e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1i1qA 520 2.16e+01 1qdlA d.161.1.1 61543 1pieA 419 2.24e+01 1i4fB 100 2.24e+01 1agdB b.1.1.2 61689 1duzB 100 2.25e+01 1agdB b.1.1.2 20671 1k5nB 100 2.30e+01 b.1.1.2 77268 1eylA 186 2.33e+01 1wba b.42.4.1 25593 1il8A 72 2.38e+01 1tvxA d.9.1.1 37365 1agdB 99 2.38e+01 1agdB b.1.1.2 20742 1hsbB 99 2.38e+01 1agdB b.1.1.2 20737 1ihmA 530 2.41e+01 1ihmA b.121.4.3 62385 1ewkA 490 2.44e+01 1ewkA c.93.1.1 35712 1hdmB 193 2.49e+01 1hdmB b.1.1.2 21584 d.19.1.1 38158 1pea 385 2.50e+01 1pea c.93.1.1 35662 2vsgA 358 2.52e+01 2vsgA h.4.1.1 45780 1m2vB 926 2.54e+01 a.71.2.1 78497 b.2.8.1 78498 c.62.1.2 78499 d.109.2.1 78500 g.41.10.1 78501 1qmeA 702 2.56e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1bak 119 2.62e+01 1bak b.55.1.1 26973 3il8 72 2.62e+01 1tvxA d.9.1.1 37356 1cx1A 153 2.65e+01 1ulo b.18.1.14 23770 1pguA 615 2.67e+01 b.69.4.1 88069 b.69.4.1 88070 1oq1A 223 2.71e+01 1o6uA 403 2.75e+01 1jtdB 273 2.76e+01 b.69.5.2 67265 1pft 50 2.81e+01 1pft g.41.3.1 45206 1lm6A 215 2.82e+01 d.167.1.1 84628 1plfA 72 3.10e+01 1tvxA d.9.1.1 37373 1ew3A 159 3.12e+01 1mup b.60.1.1 27114 1elt 236 3.14e+01 5ptp b.47.1.2 26281 1yer 228 3.15e+01 1yer d.122.1.1 41101 1lslA 113 3.16e+01 g.60.1.1 78178 g.60.1.1 78179 1p2zA 968 3.16e+01 1ytbB 180 3.17e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1h54B 754 3.25e+01 a.102.1.4 60636 b.30.5.3 60637 1c9oA 66 3.30e+01 1mjc b.40.4.5 25325 1cdwA 179 3.32e+01 1ytbA d.129.1.1 41212 d.129.1.1 41213 1ju3A 583 3.39e+01 b.18.1.13 67300 c.69.1.21 67301 1ab9C 97 3.46e+01 5ptp 1k8tA 510 3.58e+01 e.41.1.1 68316 1kdkA 177 3.60e+01 b.29.1.4 72351 1f3lA 321 3.60e+01 1g6q2 c.66.1.6 59630 1tdtA 259 3.61e+01 3tdt b.81.1.2 28055 1gg6C 97 3.65e+01 5ptp 1lmhA 184 3.66e+01 d.167.1.1 74036 1spuB 727 3.68e+01 1oacA b.30.2.1 24399 d.17.2.1 38025 d.17.2.1 38026 d.82.1.1 40012 1im3D 95 3.70e+01 1im3D b.1.18.5 62568 2tdt 274 3.72e+01 3tdt b.81.1.2 28054 1taq 832 3.79e+01 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1koqA 253 3.80e+01 2cba b.74.1.1 27964 1bmfA 510 3.80e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1jroB 777 3.82e+01 d.41.1.1 67141 d.133.1.1 67142 1a78A 134 3.83e+01 1c1lA b.29.1.3 24212 1op4A 159 3.83e+01 1ycsB 239 3.86e+01 1ycsB b.34.2.1 24553 d.211.1.1 19155 1jjoC 261 3.86e+01 1inp 400 3.87e+01 1inp e.7.1.1 42972 1q5xA 161 3.88e+01 1jpyB 137 3.90e+01 g.17.1.6 67066 1fmtB 314 3.96e+01 1fmtA b.46.1.1 25759 c.65.1.1 34175 1kafA 108 3.97e+01 d.199.1.1 68372 1i50C 318 3.98e+01 d.74.3.1 61756 d.181.1.1 61757