# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1hn6A 110 2.73e-19 g.61.1.1 76721 1dyr 206 1.51e+00 1aoeA c.71.1.1 34916 1iso 416 1.58e+00 1iso c.77.1.1 35065 1tocR 120 2.01e+00 1tocR g.8.1.2 44558 g.8.1.2 44559 1j5yA 187 4.01e+00 a.4.5.1 71592 d.94.2.1 71593 1ecfB 504 4.22e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1e4uA 78 4.52e+00 1e4uA g.44.1.1 59231 1ecfA 504 4.52e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1i50B 1224 5.14e+00 e.29.1.1 61755 1m6bA 621 5.20e+00 c.10.2.5 74521 c.10.2.5 74522 g.3.9.1 74523 g.3.9.1 74524 1lvk 762 5.24e+00 1lvk b.34.3.1 24576 c.37.1.9 32173 1onwA 390 6.42e+00 b.92.1.7 87172 c.1.9.13 87173 1uocA 289 8.01e+00 unknown_sccs -7671 1o0iA 138 8.42e+00 d.38.1.5 86532 1kaeA 434 8.86e+00 c.82.1.2 72247 1i50A 1733 8.87e+00 e.29.1.2 61754 1k75A 434 8.94e+00 c.82.1.2 68253 1qlaA 656 9.47e+00 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1n8yC 608 9.53e+00 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1onxA 390 1.07e+01 b.92.1.7 87176 c.1.9.13 87177 1kgsA 225 1.10e+01 a.4.6.1 68596 c.23.1.1 68597 1gmnA 183 1.11e+01 g.10.1.1 65315 g.14.1.1 65316 1ggzA 148 1.15e+01 a.39.1.5 70176 1bhtA 176 1.16e+01 1bhtA g.10.1.1 44603 g.14.1.1 44663 1j7nA 776 1.26e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1d0yA 761 1.33e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1enwA 114 1.41e+01 1enwA a.5.4.1 16291 1h9oA 112 1.61e+01 1qadA d.93.1.1 60837 2reb 352 1.64e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1ofhA 310 1.65e+01 c.37.1.20 86948 1l8rA 101 1.67e+01 a.6.1.4 73700 1fkd 107 1.67e+01 1fkj d.26.1.1 38383 1gpt 47 1.71e+01 1gpt g.3.7.5 44175 1fkj 107 1.79e+01 1fkj d.26.1.1 38384 1bkf 107 1.79e+01 1fkj d.26.1.1 38382 2pspA 106 1.86e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1dekA 241 1.97e+01 1dekA c.37.1.1 31842 1fkf 107 2.07e+01 1fkj d.26.1.1 38386 1shwA 138 2.10e+01 1uf2A 1019 2.12e+01 unknown_sccs -12036 1iqqA 200 2.13e+01 d.124.1.1 66274 7icd 416 2.23e+01 1iso c.77.1.1 35072 1gntA 553 2.24e+01 e.26.1.1 70290 1wad 112 2.32e+01 3cyr a.138.1.1 19658 1e1dA 553 2.33e+01 1e1dA e.26.1.1 43363 1i4nA 251 2.34e+01 c.1.2.4 71114 1qmpA 130 2.40e+01 1dz3A c.23.1.1 31106 1brwA 433 2.49e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1h5zA 455 2.59e+01 a.104.1.1 -1456 1oghA 204 2.72e+01 b.85.4.1 86994 1pb1A 416 2.73e+01 c.77.1.1 88014 1e2uA 553 2.76e+01 1e1dA e.26.1.1 43362 1irk 306 2.89e+01 1fmk d.144.1.7 41703 1pcp 106 2.90e+01 2pspA g.16.1.1 44742 g.16.1.1 44743 1ixlA 131 2.95e+01 d.38.1.5 -9705 1bfi 112 3.11e+01 1qadA d.93.1.1 40499 1ee9A 320 3.15e+01 1ee9A c.2.1.7 30288 c.58.1.2 33936 1e32A 458 3.21e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1g25A 65 3.24e+01 1g25A g.44.1.1 45325 1oz7A 131 3.25e+01 d.169.1.1 -11622 1ul7A 102 3.25e+01 unknown_sccs -11020 1meyC 87 3.31e+01 2gliA k.12.1.1 46430 1jj2Y 73 3.45e+01 1ffkW g.41.8.1 63110 1kt6A 183 3.51e+01 b.60.1.1 84466 2hgf 97 3.56e+01 1bhtA g.10.1.1 44607 1hucA 47 3.58e+01 1hucA d.3.1.1 37049 1jhdA 396 3.61e+01 b.122.1.3 66712 c.26.1.5 66713 1kgqA 274 3.64e+01 b.81.1.2 72447 1ixxA 129 3.77e+01 1ixxB d.169.1.1 42335 2tdt 274 3.85e+01 3tdt b.81.1.2 28054 1ap6A 198 3.91e+01 1avmA a.2.11.1 15746 d.44.1.1 38705