# 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 1hfc 169 8.36e-01 1hfc d.92.1.11 40335 1ap8 213 9.06e-01 1ap8 d.86.1.1 40151 1ftrA 296 1.32e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1vixA 420 1.47e+00 c.56.5.4 -7866 d.58.19.1 -10090 1q8bA 105 1.77e+00 unknown_sccs -9958 1d2eA 397 3.22e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1m5sA 297 3.45e+00 d.58.33.1 74511 d.58.33.1 74512 1sk4A 163 3.59e+00 1vaoA 560 3.81e+00 1qltA d.58.32.1 39461 d.145.1.1 41724 1uuqA 440 4.08e+00 c.1.8.3 -5321 1w1kA 560 4.72e+00 1o12A 376 4.74e+00 b.92.1.5 80758 c.1.9.10 80759 1e8gA 560 5.31e+00 1qltA d.58.32.1 39455 d.145.1.1 41718 1fnoA 417 5.43e+00 c.56.5.4 75841 d.58.19.1 70145 1pauA 147 5.57e+00 1pauA c.17.1.1 30994 1f2tB 148 6.41e+00 1f2tB 1cp3A 277 8.20e+00 1pauA c.17.1.1 30992 1ii7A 333 1.31e+01 1ii7A d.159.1.4 62415 1lf6A 684 1.34e+01 a.102.1.5 77918 b.30.5.5 77919 1jx2B 315 1.46e+01 c.37.1.8 67404 1cqmA 101 1.48e+01 1ris d.58.14.1 39321 1msk 331 1.53e+01 1msk d.173.1.1 42495 1ris 101 1.59e+01 1ris d.58.14.1 39314 1qs2A 401 1.72e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1e1dA 553 1.72e+01 1e1dA e.26.1.1 43363 1f2hA 169 1.73e+01 1f3vA d.58.22.1 59612 1fuiA 591 1.77e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1nc5A 373 1.77e+01 a.102.1.6 85548 1qs1A 462 1.78e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1ry9A 145 1.80e+01 d.198.1.1 -9020 1souA 194 1.91e+01 1k7yA 577 1.94e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1m6dA 214 2.09e+01 d.3.1.1 84849 1lfaA 187 2.09e+01 1ido c.62.1.1 34122 1jk3A 158 2.11e+01 d.92.1.11 66790 1oc2A 348 2.12e+01 c.2.1.2 -5753 1dljA 402 2.13e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1qrkA 731 2.13e+01 1f13A b.1.18.9 21889 b.1.5.1 22187 b.1.5.1 22188 d.3.1.4 37119 1nfp 228 2.13e+01 1nfp c.1.16.2 29555 1iqrA 420 2.18e+01 a.99.1.1 66275 c.28.1.1 66276 1nmeA 146 2.24e+01 c.17.1.1 85874 1ffkS 70 2.25e+01 1ffkS a.2.2.1 15692 1qltA 560 2.34e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1pyoA 167 2.38e+01 c.17.1.1 -7932 1b4eA 323 2.43e+01 1b4kA c.1.10.3 29186 1o5oA 221 2.44e+01 c.61.1.1 -7954 1kepA 348 2.45e+01 c.2.1.2 68536 1kao 167 2.47e+01 1ctqA c.37.1.8 32014 1dliA 402 2.48e+01 1dliA a.100.1.4 18809 c.2.1.6 30213 c.26.3.1 31622 1s72V 71 2.48e+01 1tk9A 188 2.55e+01 1dgqA 188 2.56e+01 1ido c.62.1.1 34131 1mjnA 179 2.57e+01 c.62.1.1 79210 1r89A 437 2.64e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1jj2U 70 2.66e+01 1ffkS a.2.2.1 63106 1pqsA 77 2.73e+01 d.15.2.2 88277 1hufA 140 2.83e+01 1hufA d.195.1.1 61272 1dd3A 128 2.87e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1j5pA 253 2.90e+01 c.2.1.3 83092 d.81.1.3 71577 1f75A 249 2.91e+01 1f75A c.101.1.1 59662 1louA 101 2.94e+01 1ris d.58.14.1 39323 1j0lA 98 2.96e+01 unknown_sccs -9789 1j6wA 175 3.02e+01 1j98A d.185.1.2 62663 1ex0A 731 3.05e+01 b.1.18.9 -2754 b.1.5.1 -2778 b.1.5.1 -2779 d.3.1.4 -8889 1evuA 731 3.08e+01 1f13A b.1.18.9 21883 b.1.5.1 22175 b.1.5.1 22176 d.3.1.4 37113 1f13A 731 3.09e+01 1f13A b.1.18.9 21877 b.1.5.1 22163 b.1.5.1 22164 d.3.1.4 37107 1r8sA 164 3.20e+01 c.37.1.8 -7082 1kvdB 77 3.20e+01 1kveB 1kveB 77 3.20e+01 1kveB 1jwyB 315 3.24e+01 c.37.1.8 67401 1kutA 230 3.39e+01 d.143.1.1 73017 1hi9A 274 3.39e+01 1hi9A c.99.1.1 61063 1hrhA 136 3.55e+01 1rthA c.55.3.1 33577 1es5A 262 3.56e+01 1skf e.3.1.1 42679 1iicA 422 3.56e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1oj4A 283 3.59e+01 d.14.1.5 -9088 d.58.26.5 -10133 1skf 262 3.62e+01 1skf e.3.1.1 42684 1ac5 483 3.66e+01 1ac5 c.69.1.5 34653 1afi 72 3.70e+01 1aw0 d.58.17.1 39339 1es2A 262 3.76e+01 1skf e.3.1.1 42680 1gw5S 142 3.77e+01 d.110.4.2 70633 1v8dA 235 3.86e+01 1qcrC 378 3.87e+01 1be3C f.32.1.1 75931 f.21.1.2 75932