# List of top-scoring protein chains for t2k-100-30-alpha 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 1try 224 8.13e-01 5ptp b.47.1.2 26017 1pmlA 86 1.19e+00 5hpgA g.14.1.1 44632 1fn8A 224 1.56e+00 5ptp b.47.1.2 26012 2nacA 393 1.71e+00 2nadA c.2.1.4 30088 c.23.12.1 31348 2nadA 393 1.81e+00 2nadA c.2.1.4 30090 c.23.12.1 31350 1hcz 252 1.99e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1egdA 396 2.71e+00 3mdeA a.29.3.1 16596 e.6.1.1 42857 1kxrA 339 2.77e+00 2sns 149 6.43e+00 1snc b.40.1.1 24860 1bftA 101 6.56e+00 1a3qA b.1.1.5 21934 1qbhA 101 6.97e+00 1g3fA g.52.1.1 45374 3mdeA 385 8.47e+00 3mdeA a.29.3.1 16594 e.6.1.1 42855 1ds6B 180 8.97e+00 1rhoA b.1.1.5 21898 1iknA 286 9.04e+00 1a3qA b.1.1.5 21936 b.2.5.1 22449 3mddA 385 1.03e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 1rypD 241 1.18e+01 1rypD d.153.1.4 41935 1avpA 204 1.19e+01 1avpA d.3.1.7 37132 1eduA 149 1.28e+01 1eduA a.118.9.1 19215 1mknA 59 1.33e+01 1mknA g.5.1.1 44383 1eyhA 144 1.36e+01 1eduA a.118.9.1 19214 1cl7I 82 1.49e+01 1igtB 1tum 129 1.50e+01 1tum d.113.1.1 40922 1gk9B 557 1.52e+01 1gm7B 557 1.56e+01 1bv4A 118 1.88e+01 1rtm1 d.169.1.1 42380 1nfiA 301 1.92e+01 1a3qA b.1.1.5 21942 b.2.5.1 22455 1mut 129 1.93e+01 1tum d.113.1.1 40921 1k3iA 656 2.04e+01 b.1.1.5 68113 b.18.1.1 68114 b.69.1.1 68115 1qltA 560 2.05e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1bylA 125 2.06e+01 1bylA d.32.1.2 38495 1g73C 121 2.17e+01 1g3fA g.52.1.1 45375 1ihgA 370 2.21e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1h9oA 112 2.26e+01 1qadA d.93.1.1 60837 1cur 155 2.42e+01 1rcy b.6.1.1 23021 1rcy 151 2.54e+01 1rcy b.6.1.1 23018 1rdr 461 2.59e+01 1rdr e.8.1.4 43116 1vkxA 273 2.71e+01 1a3qA b.1.1.5 21941 b.2.5.1 22454 1ajqB 557 2.75e+01 1ajqB 1e3aB 560 2.76e+01 1ajqB 1aojA 60 2.84e+01 1aojA b.34.2.1 24555 1axiB 236 2.95e+01 1axiB b.1.2.1 21997 b.1.2.1 21998 1e30A 155 3.04e+01 1rcy b.6.1.1 23016 1cb0A 283 3.06e+01 1cb0A c.56.2.1 33790 1gof 639 3.13e+01 1gof b.1.1.5 21807 b.18.1.1 23709 b.69.1.1 27631 1a3z 155 3.25e+01 1rcy b.6.1.1 23019 1a92A 50 3.25e+01 1a92A h.4.6.1 45791 1qk3A 233 3.38e+01 1qk3A c.61.1.1 34031 2cae 484 3.41e+01 1cf9A e.5.1.1 42810 1qf9A 194 3.63e+01 1zin c.37.1.1 31848 1nbaA 264 3.73e+01 1nbaA c.33.1.1 31753 1nulA 152 3.73e+01 1nulA c.61.1.1 34011 1ebpA 211 3.86e+01 1eerB b.1.2.1 22023 b.1.2.1 22024