# 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 1uheA 97 7.44e-01 1o5uA 101 1.16e+00 b.82.1.8 -4845 1p9kA 79 1.28e+00 unknown_sccs -10238 1oniA 137 1.32e+00 d.79.1.1 87144 1pz1A 333 1.66e+00 c.1.7.1 -5255 1qu9C 128 1.69e+00 1qu9A d.79.1.1 39757 1qu9A 128 1.69e+00 1qu9A d.79.1.1 39755 1mxiA 160 1.98e+00 c.116.1.1 79646 1pmy 123 2.31e+00 1bqk b.6.1.1 22888 1tud 62 2.60e+00 1tud b.34.2.1 24489 1pwt 61 2.75e+00 1tud b.34.2.1 24490 1mg4A 113 2.83e+00 d.15.11.1 84953 1shg 62 3.92e+00 1ckaA b.34.2.1 24493 1qahA 136 4.00e+00 d.79.1.1 -10377 1gveA 327 4.10e+00 c.1.7.1 70597 1uxxX 133 4.10e+00 b.18.1.10 -3107 1fa4A 105 4.28e+00 1plc b.6.1.1 22867 1cei 94 4.83e+00 1cei a.28.2.1 16939 1unkA 87 4.93e+00 1cei a.28.2.1 16935 1fjgD 209 5.20e+00 1c05A d.66.1.2 39553 1gmmA 133 5.34e+00 b.18.1.10 65314 1g2bA 62 6.32e+00 1tud b.34.2.1 24488 1ckaA 57 7.54e+00 1ckaA b.34.2.1 24459 1k66A 149 7.61e+00 c.23.1.1 -6406 1v8cA 168 7.80e+00 d.15.3.1 -9175 unknown_sccs -11012 1k0hA 117 8.29e+00 b.106.1.2 71975 1e0tA 470 8.50e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1pht 85 8.65e+00 1ckaA b.34.2.1 24483 1i18A 97 8.89e+00 b.43.4.3 61520 1qauA 112 9.02e+00 1qauA b.36.1.1 24779 1qavB 115 9.30e+00 1qauA b.36.1.1 24780 1p9bA 442 9.39e+00 c.37.1.10 -7115 1semA 58 9.87e+00 1ckaA b.34.2.1 24544 2cbp 96 1.19e+01 2cbp b.6.1.1 22895 1uzcA 71 1.20e+01 a.159.2.1 -339 1bqk 124 1.22e+01 1bqk b.6.1.1 22889 1mjc 69 1.26e+01 1mjc b.40.4.5 25319 2dpmA 284 1.27e+01 2dpmA c.66.1.28 34246 1h40A 71 1.31e+01 1ndh 272 1.51e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1qhhC 115 1.66e+01 1pjr 1kexA 155 1.70e+01 b.18.1.2 77350 1epwA 1290 1.72e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1pnj 86 1.74e+01 1ckaA b.34.2.1 24487 1paz 123 1.82e+01 1bqk b.6.1.1 22878 1fp4A 492 1.97e+01 c.92.2.3 76187 1aonO 97 1.98e+01 b.35.1.1 24642 2plt 98 2.02e+01 1plc b.6.1.1 22862 1jd1A 129 2.03e+01 1qu9A d.79.1.1 62890 1i24A 404 2.03e+01 c.2.1.2 83663 3mefA 69 2.07e+01 1mjc b.40.4.5 25320 1gcqC 70 2.13e+01 1gcpA b.34.2.1 60436 1qrrA 394 2.19e+01 1qrrA c.2.1.2 29824 1iz6A 138 2.26e+01 b.34.5.2 76976 b.40.4.5 76977 1eljA 381 2.27e+01 4mbp c.94.1.1 35791 1r5jA 337 2.32e+01 unknown_sccs -8471 1vioA 243 2.34e+01 unknown_sccs -10154 d.66.1.5 -10240 1o13A 136 2.44e+01 c.55.5.1 80762 1azeA 56 2.45e+01 b.34.2.1 24536 1ie7C 570 2.48e+01 1ubpC b.92.1.1 62315 c.1.9.2 62316 2ay1A 394 2.66e+01 1ajsA c.67.1.1 34357 1omrA 201 2.67e+01 a.39.1.5 -854 1gfc 59 2.68e+01 1griA b.34.2.1 24537 1ubpC 570 2.76e+01 1ubpC b.92.1.1 28432 c.1.9.2 29054 1lkoA 191 2.76e+01 a.25.1.1 78063 g.41.5.1 78064 1e79A 510 2.78e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1gl4B 98 2.82e+01 b.1.1.4 65288 4ubpC 570 2.95e+01 1ubpC b.92.1.1 28431 c.1.9.2 29053 1m1nA 491 3.00e+01 c.92.2.3 78417 1gcqA 61 3.01e+01 1ckaA b.34.2.1 60434 1jnyA 435 3.01e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1cof 143 3.02e+01 1cof d.109.1.2 40860 1qlaA 656 3.07e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1ryt 190 3.09e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 1iuqA 367 3.11e+01 c.112.1.1 -8440 1cfyA 143 3.18e+01 1cof d.109.1.2 40858 1skyB 502 3.20e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1bxvA 91 3.20e+01 1aac b.6.1.1 22875 1khhA 198 3.22e+01 c.66.1.16 68615 1ireB 228 3.23e+01 b.34.4.4 76770 1liuA 528 3.29e+01 b.58.1.1 77970 c.1.12.1 77971 c.49.1.1 77972 1i7pA 274 3.35e+01 b.43.4.2 66048 c.25.1.1 66049 1gh9A 71 3.35e+01 1gh9A g.41.6.1 45266 1i8dA 213 3.39e+01 b.43.4.3 61953 b.43.4.3 61954 1fcdA 401 3.47e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1b71A 191 3.53e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1qf9A 194 3.56e+01 1zin c.37.1.1 31848 1bb9 115 3.60e+01 1bb9 b.34.2.1 24554 1tuc 63 3.62e+01 1tuc b.34.2.1 24492 3ullA 132 3.66e+01 3ullA b.40.4.3 25282 5ukdA 194 3.71e+01 1zin c.37.1.1 31851 1jt8A 102 3.75e+01 b.40.4.5 63279 1oohA 126 3.81e+01 a.39.2.1 -884 1gp7A 151 3.84e+01 a.133.1.2 76251 1jh2A 99 3.87e+01 1j0sA 157 3.88e+01 b.42.1.2 -4016 1f56A 91 3.88e+01 2cbp b.6.1.1 22896 1uxzA 131 3.93e+01 b.18.1.10 -3110