# List of top-scoring protein chains for t2k-w0.5 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 1dciA 275 1.39e-01 1dciA c.14.1.3 30918 1kk0A 410 6.14e-01 1kk1A 410 6.80e-01 1mioB 458 6.83e-01 1qguB c.92.2.3 35602 1kk3A 410 7.04e-01 1hzdA 272 9.22e-01 c.14.1.3 65969 1eqjA 511 1.01e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 1ejjA 511 1.01e+00 1ejjA c.105.1.1 59422 c.76.1.3 59423 1ef8A 261 1.48e+00 1ef8A c.14.1.3 30921 1bvuA 418 1.63e+00 1hwyA c.2.1.7 30226 c.58.1.1 33874 1htlA 191 1.96e+00 1lt3A d.166.1.1 42237 1lt3A 240 2.15e+00 1lt3A d.166.1.1 42230 1ltiA 192 2.59e+00 1lt3A d.166.1.1 42233 1ltgA 191 2.60e+00 1lt3A d.166.1.1 42235 1ltsA 185 2.86e+00 1lt3A d.166.1.1 42229 2dubE 261 2.91e+00 1nzyA c.14.1.3 30916 1ltaA 188 2.93e+00 1lt3A d.166.1.1 42232 1ey3A 258 2.94e+00 c.14.1.3 64911 1lt4A 247 3.70e+00 1lt3A d.166.1.1 42231 1etu 394 3.74e+00 1efcA c.37.1.8 64737 1ebdA 455 3.74e+00 1lvl c.3.1.5 30577 c.3.1.5 30578 d.87.1.1 40210 1efm 393 3.78e+00 1efcA c.37.1.8 64732 1smrA 335 4.17e+00 1smrA b.50.1.2 26878 1d8tA 393 4.20e+00 1efcA b.43.3.1 25686 b.44.1.1 25726 c.37.1.8 32119 1dg1G 394 4.21e+00 1efcA b.43.3.1 25684 b.44.1.1 25724 c.37.1.8 32117 1efcA 393 4.22e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1efuA 385 4.22e+00 1efcA b.43.3.1 25682 b.44.1.1 25722 c.37.1.8 32115 1id0A 152 4.66e+00 d.122.1.3 66111 1dosA 358 4.70e+00 1dosA c.1.10.2 29175 1b57A 358 4.82e+00 1dosA c.1.10.2 29177 1cfzA 162 5.98e+00 1cfzA c.56.1.1 33754 1g47A 77 8.54e+00 1g47A g.39.1.3 45147 g.39.1.3 45148 1othA 321 8.60e+00 1othA c.78.1.1 35260 c.78.1.1 35261 1c3wA 222 9.44e+00 1c3wA f.2.1.1 43405 3dbvO 334 9.61e+00 1dssG c.2.1.3 29982 d.81.1.1 39897 1dfx 125 9.85e+00 1dfx b.1.13.1 22367 g.41.5.2 45255 1c8rA 222 1.03e+01 1c3wA f.2.1.1 43407 1hnuA 280 1.23e+01 1hnoA c.14.1.3 61096 1hnoA 280 1.23e+01 1hnoA c.14.1.3 61095 1av4 638 1.37e+01 1a2vA b.30.2.1 24411 d.17.2.1 38049 d.17.2.1 38050 1avk 638 1.39e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1gtmA 419 1.50e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1jx2B 315 1.58e+01 c.37.1.8 67404 1k4iA 233 1.59e+01 1j9yA 385 1.59e+01 1j9yA c.1.8.3 62791 1eft 405 1.72e+01 1efcA b.43.3.1 25688 b.44.1.1 25728 c.37.1.8 32123 1b23P 405 1.73e+01 1efcA b.43.3.1 25689 b.44.1.1 25729 c.37.1.8 32124 1dj3A 442 1.76e+01 1adeA c.37.1.10 32239 1d2eA 397 1.86e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1llc 325 1.94e+01 1hyhA c.2.1.5 30176 d.162.1.1 42143 1xypA 190 1.98e+01 1axkA b.29.1.11 24327 1sbp 310 2.14e+01 1sbp c.94.1.1 35760 1qgc2 218 2.18e+01 1qqp2 1euzE 419 2.20e+01 1k89 c.2.1.7 59521 c.58.1.1 59522 1exmA 405 2.25e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ha3A 405 2.25e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1dmuA 299 2.32e+01 1dmuA c.52.1.4 33294 1d7kA 421 2.32e+01 7odcA b.49.2.1 26486 c.1.6.1 28648 1dtwA 400 2.38e+01 1qs0A c.36.1.3 31827 1aipE 405 2.43e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1jjuB 337 2.53e+01 b.69.2.2 66779 1pft 50 2.58e+01 1pft g.41.3.1 45206 4ecaA 326 2.61e+01 4pgaA c.88.1.1 35550 1cec 343 2.66e+01 1ceo c.1.8.3 28809 1ceo 343 2.66e+01 1ceo c.1.8.3 28808 1qhjA 248 2.68e+01 1c3wA f.2.1.1 43409 1brd 248 2.68e+01 1c3wA f.2.1.1 43404 1yaaA 412 2.72e+01 1ajsA c.67.1.1 34280 1h68A 239 2.74e+01 f.2.1.1 60664 1seiA 130 2.81e+01 1seiA d.140.1.1 41463 1jdbF 382 3.09e+01 c.8.3.1 30757 c.23.16.1 31434 1rpxA 230 3.12e+01 1rpxA c.1.2.2 28536 2at9 247 3.12e+01 1c3wA f.2.1.1 43427 1cwqA 248 3.12e+01 1c3wA f.2.1.1 43412 1ntd 343 3.24e+01 1nif b.6.1.3 23088 b.6.1.3 23089 1ik6A 369 3.29e+01 c.36.1.3 66174 c.48.1.2 66175 1e0pA 228 3.31e+01 1c3wA f.2.1.1 43416 1kgbA 231 3.35e+01 f.2.1.1 68581 1e32A 458 3.46e+01 1e32A b.52.2.3 59183 c.37.1.13 59184 d.31.1.1 59185 1a0dA 440 3.46e+01 1a0cA c.1.15.3 29533 1f50A 227 3.53e+01 1c3wA f.2.1.1 43406 8pchA 220 3.55e+01 1cs8A d.3.1.1 37084 1k3fA 253 3.67e+01 c.56.2.1 68105 1lx7A 253 3.73e+01 1fbkA 248 3.79e+01 1c3wA f.2.1.1 43426 1k3bA 119 3.83e+01 1c3oB 382 3.84e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1h91A 180 3.88e+01 b.60.1.1 60805 1cs0B 382 3.92e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417