# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1mai 131 3.34e-01 1mai b.55.1.1 26951 1a8q 274 1.17e+00 1brt c.69.1.12 34702 1a7cA 379 1.25e+00 1sek e.1.1.1 42660 1lj5A 379 1.34e+00 e.1.1.1 73928 1mml 265 1.84e+00 1mml e.8.1.2 43015 1fm2B 520 1.92e+00 1fm2B 1elkA 157 2.32e+00 1dvpA a.118.9.2 19217 1s98A 107 3.07e+00 1o6vA 466 3.17e+00 b.1.18.15 81099 c.10.2.1 81100 1or0B 528 3.69e+00 1ub1A 133 5.48e+00 d.10.1.3 -8969 1jsdA 319 6.49e+00 b.19.1.2 63258 1ei7A 158 6.77e+00 1rmvA a.24.5.1 16584 1o5uA 101 6.83e+00 b.82.1.8 -4845 1cxpA 104 6.94e+00 1d2vA a.93.1.2 18695 1d2vA 104 6.94e+00 1d2vA a.93.1.2 18697 1ucsA 64 6.97e+00 b.85.1.1 88466 1ugpB 226 7.30e+00 1nbcA 155 7.51e+00 1nbcA b.2.2.2 22390 1mpp 361 7.55e+00 2rmpA b.50.1.2 26856 1gklA 297 8.11e+00 c.69.1.2 65250 1a7j 290 8.36e+00 1a7j c.37.1.6 31952 1kliL 69 8.52e+00 g.3.11.1 77436 1ireB 228 9.12e+00 b.34.4.4 76770 1hg7A 66 9.17e+00 1msi b.85.1.1 28280 1o69A 394 9.72e+00 c.67.1.4 -8209 1fjsL 52 1.01e+01 1hcgB g.3.11.1 44226 1isiA 265 1.19e+01 e.4.1.1 71394 1s72Q 96 1.22e+01 1jtaA 361 1.25e+01 b.80.1.1 71859 1f3mC 297 1.27e+01 1hcl d.144.1.7 41677 1vjeA 166 1.34e+01 d.185.1.2 -10261 1lqsR 214 1.46e+01 b.1.2.1 74194 b.1.2.1 74195 1c3gA 170 1.47e+01 1c3gA b.4.1.1 22831 b.4.1.1 22832 1usuA 260 1.47e+01 unknown_sccs -9045 1adn 92 1.48e+01 1adn g.48.1.1 45348 1jj2P 95 1.51e+01 1ffkN b.34.5.1 63101 1n9lA 109 1.55e+01 d.110.3.6 85468 1innA 166 1.57e+01 1j98A d.185.1.2 62608 1o22A 170 1.67e+01 d.238.1.1 86557 1a88A 275 1.69e+01 1brt c.69.1.12 34707 1mtpA 323 1.73e+01 e.1.1.1 85107 1b78A 193 1.81e+01 1b78A c.51.4.1 33221 1hoe 74 1.97e+01 1hoe b.5.1.1 22833 1fjjA 159 2.07e+01 1fjjA b.17.1.2 59852 1g6gA 127 2.07e+01 1g6gA b.26.1.2 23916 1ok0A 74 2.10e+01 b.5.1.1 -2935 3il8 72 2.11e+01 1tvxA d.9.1.1 37356 1jhfA 202 2.14e+01 a.4.5.2 63057 b.87.1.1 63058 1k3bB 164 2.18e+01 d.3.1.1 72015 1pz1A 333 2.23e+01 c.1.7.1 -5255 1vig 71 2.23e+01 1vih d.51.1.1 38806 1t64A 377 2.24e+01 1avk 638 2.25e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1gnyA 153 2.30e+01 b.18.1.11 65404 1d8hA 311 2.33e+01 1d8iA d.63.1.1 39544 1diiC 80 2.33e+01 1diiC a.3.1.1 15925 1broA 277 2.41e+01 1brt c.69.1.12 34700 1smlA 269 2.53e+01 1smlA d.157.1.1 42053 1brwA 433 2.64e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1hkhA 279 2.66e+01 c.69.1.12 -8342 1ppjC 379 2.68e+01 1p5sA 203 2.77e+01 a.40.1.1 -900 1tqyA 424 2.77e+01 1brt 277 2.87e+01 1brt c.69.1.12 34699 1v9fA 325 2.87e+01 1rrpB 134 2.94e+01 1rrpB b.55.1.3 26995 1r94A 118 2.98e+01 b.124.1.1 -4402 1trb 320 3.16e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1ui8A 638 3.21e+01 b.30.2.1 -3525 d.17.2.1 -9272 d.17.2.1 -9273 1jbiA 100 3.34e+01 d.209.1.1 66481 1tbaA 67 3.35e+01 1tbaA a.15.1.1 16380 1oxjA 173 3.41e+01 a.60.1.2 87517 a.118.1.13 87518 1whsB 153 3.43e+01 1whtB 1s4qA 228 3.51e+01 c.37.1.1 -6975 1whtB 153 3.60e+01 1whtB 2mspA 126 3.65e+01 1mspA b.1.11.2 22335 1onc 104 3.69e+01 1onc d.5.1.1 37278 1vj2A 126 3.73e+01 unknown_sccs -4850 1fs5A 266 3.74e+01 unknown_sccs 65044 1oapA 109 3.81e+01 unknown_sccs -10428 1uouA 474 3.87e+01 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 1quqB 121 3.89e+01 1quqB b.40.4.3 25305 1pne 140 3.93e+01 1pne d.110.1.1 40866 1ahl 49 3.96e+01 1ahl g.9.1.1 44601 1iw7E 99 3.97e+01 a.143.1.1 71476