# List of top-scoring protein chains for T0239.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 1rmrA 64 4.69e-01 1awcA 110 5.46e-01 1awcA a.4.5.21 16167 1c2aA 120 1.06e+00 1c2aA g.3.13.1 44349 g.3.13.1 44350 1dun 134 1.71e+00 1dun b.85.4.1 28371 1s7oA 113 2.16e+00 1dj7A 117 2.29e+00 1dj7A g.36.1.1 44997 1mlwA 301 2.98e+00 d.178.1.1 79289 3cms 323 3.15e+00 1smrA b.50.1.2 26865 4cms 323 3.15e+00 1smrA b.50.1.2 26866 1k78B 110 3.48e+00 a.4.5.21 68257 1duxC 94 3.87e+00 1awcA a.4.5.21 16170 1gvjA 146 4.58e+00 a.4.5.21 -293 1md0A 141 4.72e+00 a.4.5.21 79000 2sttA 96 4.94e+00 1awcA a.4.5.21 16163 1mdmB 161 5.29e+00 a.4.5.21 79012 1d4dA 572 6.79e+00 1qjdA a.138.1.3 19702 c.3.1.4 30439 d.168.1.1 42322 1d4cA 572 6.83e+00 1qjdA a.138.1.3 19698 c.3.1.4 30435 d.168.1.1 42318 1p6fA 242 7.56e+00 b.1.1.4 -2692 b.1.1.4 -2693 1fjhA 257 8.43e+00 1fjhB c.2.1.2 29870 1jbgA 109 1.02e+01 a.6.1.3 66480 1tejB 64 1.04e+01 1h2tC 723 1.13e+01 unknown_sccs 76580 unknown_sccs 76581 unknown_sccs 76582 1h2vC 771 1.17e+01 unknown_sccs 76592 unknown_sccs 76593 unknown_sccs 76594 1h6kA 757 1.18e+01 unknown_sccs 60675 unknown_sccs 60676 unknown_sccs 60677 1o86A 589 1.19e+01 d.92.1.5 81177 1booA 323 1.36e+01 1booA c.66.1.11 34248 1mh2A 119 1.48e+01 a.133.1.2 84960 1i60A 278 1.53e+01 c.1.15.4 71118 1s6bA 119 1.59e+01 a.133.1.2 -1953 1b33N 67 1.65e+01 1b33N d.30.1.1 38459 1mb8A 243 1.67e+01 a.40.1.1 84925 a.40.1.1 84926 1sh5A 245 1.75e+01 1j71A 334 1.82e+01 1eagA b.50.1.2 62669 1qdlA 422 1.84e+01 1qdlA d.161.1.1 42088 1jp4A 308 1.84e+01 1jp4A e.7.1.1 63223 1exjA 278 2.10e+01 1bowA a.6.1.3 16309 d.60.1.1 39530 1fs0G 230 2.20e+01 1fs0G c.49.2.1 59999 1sz8A 119 2.31e+01 a.133.1.2 -1952 1kqhA 38 2.39e+01 g.3.6.2 68810 1aw6 43 2.47e+01 1d66A g.38.1.1 45078 1e5uI 187 2.52e+01 1f00I b.1.14.1 22372 d.169.1.3 42441 1i3zA 103 2.53e+01 d.93.1.1 83667 1p57B 255 2.73e+01 b.47.1.2 -4248 1n52A 790 2.77e+01 unknown_sccs 79999 unknown_sccs 80000 unknown_sccs 80001 1tejA 64 2.85e+01 1bhnA 152 2.93e+01 1npk d.58.6.1 39093 1nylA 539 2.99e+01 b.53.1.2 80741 c.26.1.1 80742 1qruA 553 3.04e+01 1gtrA b.53.1.2 26946 c.26.1.1 31585 1qrtA 553 3.04e+01 1gtrA b.53.1.2 26943 c.26.1.1 31582 1qrsA 553 3.04e+01 1gtrA b.53.1.2 26941 c.26.1.1 31580 1euyA 548 3.04e+01 1gtrA b.53.1.2 26945 c.26.1.1 31584 1qtqA 553 3.05e+01 1gtrA b.53.1.2 26940 c.26.1.1 31579 1o0cA 554 3.06e+01 b.53.1.2 86529 c.26.1.1 86530 1fgyA 127 3.09e+01 1faoA b.55.1.1 26976 1l6sA 323 3.24e+01 c.1.10.3 73627 1f00I 282 3.56e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1dfeA 37 3.57e+01 1dfeA g.42.1.1 45318 1r4yA 136 3.58e+01 d.1.1.3 -8813 1hcgB 51 3.61e+01 1hcgB g.3.11.1 44231 1b4eA 323 3.62e+01 1b4kA c.1.10.3 29186 1fj7A 101 3.77e+01 1fj7A d.58.7.1 39209 1kyeB 51 3.82e+01 g.3.11.1 77630 1n9zA 192 3.90e+01 c.62.1.1 85478 1fjsL 52 3.98e+01 1hcgB g.3.11.1 44226 1sqgA 429 3.99e+01