# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1.90e-18 g.61.1.1 76721 1tocR 120 1.86e-01 1tocR g.8.1.2 44558 g.8.1.2 44559 1otcB 260 1.96e+00 1otcB b.40.4.3 25310 1m8nA 121 2.39e+00 b.81.2.1 78771 1bmfA 510 2.54e+00 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1jb7B 260 4.32e+00 1otcB b.40.4.3 62839 1g8kB 133 4.44e+00 1g8jB b.33.1.1 24435 1f39A 101 5.03e+00 1umuA b.87.1.1 28386 1g8jB 133 5.60e+00 1g8jB b.33.1.1 24439 1h8eA 510 6.93e+00 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1q16A 1247 7.18e+00 b.52.2.2 -4337 c.81.1.1 -8547 1is1A 185 7.23e+00 d.67.3.1 83704 1bhtA 176 7.41e+00 1bhtA g.10.1.1 44603 g.14.1.1 44663 1uocA 289 7.58e+00 unknown_sccs -7671 1e79A 510 8.40e+00 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1h9oA 112 1.02e+01 1qadA d.93.1.1 60837 1qadA 111 1.05e+01 1qadA d.93.1.1 40498 1mspA 126 1.11e+01 1mspA b.1.11.2 22333 1e30A 155 1.13e+01 1rcy b.6.1.1 23016 1shp 55 1.16e+01 1bpi g.8.1.1 44553 1rcy 151 1.26e+01 1rcy b.6.1.1 23018 1m7xA 617 1.32e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1a3z 155 1.34e+01 1rcy b.6.1.1 23019 1a49A 530 1.37e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1kthA 58 1.44e+01 g.8.1.1 68863 2knt 58 1.44e+01 1bpi g.8.1.1 44537 1knt 58 1.45e+01 1bpi g.8.1.1 44538 3mspA 126 1.59e+01 1mspA b.1.11.2 22343 1l8fA 207 1.66e+01 b.52.1.1 84537 1pkn 530 1.72e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1gmnA 183 1.76e+01 g.10.1.1 65315 g.14.1.1 65316 1wad 112 1.94e+01 3cyr a.138.1.1 19658 1riqA 465 2.28e+01 unknown_sccs -1295 d.104.1.1 -10769 1cur 155 2.41e+01 1rcy b.6.1.1 23021 2fokA 579 2.50e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1hh1A 143 2.63e+01 1gefA c.52.1.18 61036 1fokA 568 2.72e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1a7j 290 2.73e+01 1a7j c.37.1.6 31952 1a6q 382 2.75e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 1jcfA 344 2.99e+01 c.55.1.1 62878 c.55.1.1 62879 1nm8A 616 3.03e+01 c.43.1.3 85872 c.43.1.3 85873 1dceA 567 3.12e+01 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1jceA 344 3.20e+01 c.55.1.1 62876 c.55.1.1 62877 1skyB 502 3.22e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1o5uA 101 3.23e+01 b.82.1.8 -4845 1cx8A 639 3.28e+01 1cx8B a.48.2.1 17782 c.8.4.1 30763 c.56.5.5 33851 1dthA 203 3.33e+01 1atlA d.92.1.9 40324 1lrwA 600 3.35e+01 b.70.1.1 -4629 1n1mA 728 3.38e+01 b.70.3.1 79815 c.69.1.24 79816 3aig 202 3.54e+01 1atlA d.92.1.9 40321 1gsmA 210 3.62e+01 b.1.1.4 65535 b.1.1.4 65536 1orvA 728 3.65e+01 b.70.3.1 87354 c.69.1.24 87355 2rgf 97 3.66e+01 1lfdA d.15.1.5 37627 8ohm 435 3.72e+01 1heiA c.37.1.14 32469 c.37.1.14 32470 1s1dA 331 3.81e+01 unknown_sccs -4566 1un8A 552 3.99e+01 unknown_sccs -1942 c.32.1.2 -6792 d.79.2.2 -10401