# List of top-scoring protein chains for t04-100-30-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 1uxxX 133 7.78e-01 b.18.1.10 -3107 1uheA 97 7.91e-01 1gmmA 133 9.59e-01 b.18.1.10 65314 1pz1A 333 1.26e+00 c.1.7.1 -5255 1o5uA 101 1.40e+00 b.82.1.8 -4845 1p9kA 79 1.71e+00 unknown_sccs -10238 1gcqC 70 1.86e+00 1gcpA b.34.2.1 60436 1pmy 123 1.92e+00 1bqk b.6.1.1 22888 1mxiA 160 2.00e+00 c.116.1.1 79646 1unkA 87 3.42e+00 1cei a.28.2.1 16935 1cei 94 3.67e+00 1cei a.28.2.1 16939 1ckaA 57 3.98e+00 1ckaA b.34.2.1 24459 1fjgD 209 4.53e+00 1c05A d.66.1.2 39553 1v8cA 168 4.55e+00 d.15.3.1 -9175 unknown_sccs -11012 1oniA 137 5.01e+00 d.79.1.1 87144 1gh9A 71 5.18e+00 1gh9A g.41.6.1 45266 2rslA 140 6.52e+00 2rslA c.53.1.1 33345 1e0tA 470 6.63e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1qu9A 128 7.55e+00 1qu9A d.79.1.1 39755 1k66A 149 8.43e+00 c.23.1.1 -6406 1plc 99 8.74e+00 1plc b.6.1.1 22846 1f56A 91 9.25e+00 2cbp b.6.1.1 22896 1paz 123 9.85e+00 1bqk b.6.1.1 22878 1r5jA 337 1.01e+01 unknown_sccs -8471 1semA 58 1.05e+01 1ckaA b.34.2.1 24544 1g2bA 62 1.12e+01 1tud b.34.2.1 24488 1omrA 201 1.15e+01 a.39.1.5 -854 1eemA 241 1.28e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1qauA 112 1.29e+01 1qauA b.36.1.1 24779 1uxzA 131 1.36e+01 b.18.1.10 -3110 1bqk 124 1.37e+01 1bqk b.6.1.1 22889 1mg4A 113 1.42e+01 d.15.11.1 84953 1qahA 136 1.43e+01 d.79.1.1 -10377 1uy4A 145 1.47e+01 1k0hA 117 1.49e+01 b.106.1.2 71975 3ullA 132 1.63e+01 3ullA b.40.4.3 25282 4ubpB 126 1.69e+01 1ubpB b.85.3.1 28345 1d1nA 99 1.71e+01 1d1nA b.43.3.1 25718 1n3lA 372 1.76e+01 c.26.1.1 79966 1mjc 69 1.77e+01 1mjc b.40.4.5 25319 2cbp 96 1.84e+01 2cbp b.6.1.1 22895 2plc 274 1.85e+01 2plc c.1.18.2 29614 1uzcA 71 1.85e+01 a.159.2.1 -339 1gveA 327 1.97e+01 c.1.7.1 70597 1geqA 248 2.04e+01 2tysA c.1.2.4 28589 1pht 85 2.13e+01 1ckaA b.34.2.1 24483 1eljA 381 2.14e+01 4mbp c.94.1.1 35791 1i8dA 213 2.19e+01 b.43.4.3 61953 b.43.4.3 61954 1ndh 272 2.26e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1ewkA 490 2.40e+01 1ewkA c.93.1.1 35712 2plt 98 2.42e+01 1plc b.6.1.1 22862 1jd1A 129 2.46e+01 1qu9A d.79.1.1 62890 1aonO 97 2.51e+01 b.35.1.1 24642 1rec 201 2.52e+01 1rec a.39.1.5 17326 1epwA 1290 2.75e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1e79A 510 2.81e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1t46A 313 2.88e+01 3htsB 102 3.10e+01 2hts a.4.5.22 16175 1i7pA 274 3.22e+01 b.43.4.2 66048 c.25.1.1 66049 1j0sA 157 3.23e+01 b.42.1.2 -4016 1k8wA 327 3.27e+01 b.122.1.1 83094 unknown_sccs -10143 1dyr 206 3.28e+01 1aoeA c.71.1.1 34916 4ubpC 570 3.29e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1jnyA 435 3.32e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1hc7A 477 3.42e+01 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1qsgA 265 3.43e+01 1eny c.2.1.2 29935 1gqnA 252 3.66e+01 c.1.10.1 -5494 1vknA 351 3.72e+01 1eiwA 111 3.78e+01 1eiwA c.23.3.1 31130 1bb9 115 3.79e+01 1bb9 b.34.2.1 24554 1qfeA 252 3.95e+01 1qfeA c.1.10.1 29167 1sxm 40 3.95e+01 2pta g.3.7.2 44150 1n00A 321 3.99e+01 a.65.1.1 85241 1bypA 99 4.00e+01 1plc b.6.1.1 22858