# 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 1i21A 159 1.56e-04 1i21A d.108.1.1 61549 1i12A 160 1.64e-04 1i21A d.108.1.1 61515 1i1dA 161 1.91e-04 1i21A d.108.1.1 61526 1cjwA 166 2.93e-04 1cjwA d.108.1.1 40818 1qsmA 152 1.56e-03 1qsmA d.108.1.1 40808 1bob 320 1.42e-01 1bob d.108.1.1 40816 1qstA 160 1.98e-01 1yghA d.108.1.1 40804 1yghA 164 2.75e-01 1yghA d.108.1.1 40802 1nmtA 392 5.88e-01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1pmaP 211 2.38e+00 1pmaP d.153.1.4 41863 1ddzA 496 2.70e+00 1ddzA c.53.2.1 33372 c.53.2.1 33373 1iicA 422 2.75e+00 1nmtA d.108.1.2 62422 d.108.1.2 62423 1drqA 131 3.61e+00 1drmA d.110.3.2 40910 2pldA 105 3.81e+00 1qadA d.93.1.1 40521 1i6pA 220 4.85e+00 1ddzA c.53.2.1 61848 1atg 231 5.17e+00 1atg c.94.1.1 35834 1drmA 131 5.39e+00 1drmA d.110.3.2 40908 1nar 290 6.39e+00 1nar c.1.8.5 28988 1ibrB 462 7.02e+00 1qgrA a.118.1.1 19120 1dxeA 256 7.22e+00 1dxeA c.1.12.5 29310 1fjgK 129 8.40e+00 1fjfK c.55.4.1 33733 1dn1A 594 9.81e+00 1dn1A e.25.1.1 43357 1seiA 130 1.22e+01 1seiA d.140.1.1 41463 2napA 723 1.26e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1ew3A 159 1.33e+01 1mup b.60.1.1 27114 1lit 144 1.35e+01 1qddA d.169.1.1 42325 1c7qA 445 1.37e+01 2pgi c.80.1.2 35307 1g2qA 187 1.48e+01 c.61.1.1 65117 1qqqA 264 1.51e+01 1bkpA d.117.1.1 40931 2tscA 264 1.55e+01 1bkpA d.117.1.1 40952 1qg3A 195 1.58e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 2pleA 105 1.63e+01 1qadA d.93.1.1 40522 1qddA 144 1.65e+01 1qddA d.169.1.1 42324 1bvzA 585 1.69e+01 1bvzA b.1.1.5 21856 b.71.1.1 27783 c.1.8.1 28770 1bx2B 191 1.81e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1tys 265 1.83e+01 1bkpA d.117.1.1 40937 1be1 137 1.98e+01 1be1 c.23.6.1 31237 1b87A 181 2.04e+01 1b87A d.108.1.1 40797 2dubE 261 2.09e+01 1nzyA c.14.1.3 30916 1an7A 136 2.10e+01 1seiA d.140.1.1 41465 1opc 110 2.11e+01 1opc a.4.6.1 16231 1fvuA 133 2.12e+01 1ixxB d.169.1.1 42345 1rkd 309 2.15e+01 1rkd c.72.1.1 34928 1cvrA 435 2.23e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1lap 488 2.42e+01 1lam c.50.1.1 33171 c.56.5.3 33834 1evfA 264 2.42e+01 1bkpA d.117.1.1 40932 1bv4A 118 2.44e+01 1rtm1 d.169.1.1 42380 2admA 421 2.45e+01 2admA c.66.1.10 34238 1lgyA 269 2.59e+01 3tgl c.69.1.17 34758 1li5A 461 2.77e+01 1bo4A 168 2.79e+01 1bo4A d.108.1.1 40798 1f2tA 149 2.81e+01 1f2tA c.37.1.12 32373 2acr 315 2.87e+01 1frb c.1.7.1 28674 1j7lA 264 2.91e+01 d.144.1.6 62697 1i52A 236 2.93e+01 1i52A c.68.1.13 61767 1esmA 316 2.94e+01 1esmA c.37.1.6 31953 1ckmA 330 2.95e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1bo4B 168 2.96e+01 1bo4A d.108.1.1 40799 1ew2A 513 3.01e+01 1b8jA c.76.1.1 59525 1g38A 393 3.06e+01 2admA c.66.1.10 60235 1aj6 219 3.07e+01 1aj6 d.122.1.2 41106 1pba 81 3.15e+01 1pytA d.58.3.1 39067 1be3D 241 3.17e+01 1be3D a.3.1.3 15955 f.2.1.8 43666 1cknA 330 3.18e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1ads 315 3.19e+01 1frb c.1.7.1 28671 1jbgA 109 3.32e+01 a.6.1.3 66480 1g1sA 162 3.33e+01 d.169.1.1 65100 g.3.11.1 65101 1a1s 314 3.34e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1gm6A 175 3.38e+01 1gsa 316 3.39e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 1dpe 507 3.40e+01 1dpe c.94.1.1 35799 1c24A 263 3.43e+01 1c24A d.127.1.1 41148 1jv4A 162 3.60e+01 b.60.1.1 67343 1i06A 180 3.60e+01 1mup b.60.1.1 27131 1lam 484 3.61e+01 1lam c.50.1.1 33166 c.56.5.3 33829 1i05A 180 3.63e+01 1mup b.60.1.1 27130 1dkgD 383 3.64e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1thx 115 3.64e+01 1thx c.47.1.1 32732 2matA 264 3.70e+01 1c24A d.127.1.1 41146 1bqsA 209 3.70e+01 1bqsA b.1.1.4 21704 b.1.1.4 21705 1bhgA 613 3.73e+01 1bhgA b.1.4.1 22161 b.18.1.5 23766 c.1.8.3 28889 1dppA 507 3.91e+01 1dpe c.94.1.1 35800 1do0A 442 3.99e+01 1do0A c.37.1.13 32432