# List of top-scoring protein chains for t2k-100-30-str 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 1eylA 186 1.99e+00 1wba b.42.4.1 25593 2tnfA 156 2.16e+00 2tnfA b.22.1.1 23880 1bmv2 374 3.56e+00 1bmv2 1gh6A 114 4.36e+00 a.2.3.1 65191 1avmA 201 5.70e+00 1avmA a.2.11.1 15782 d.44.1.1 38745 2e2c 156 5.84e+00 1u9aA d.20.1.1 38336 1dd9A 338 6.27e+00 1dd9A e.13.1.1 43254 1bsmA 201 6.60e+00 1avmA a.2.11.1 15780 d.44.1.1 38743 1cds 77 7.03e+00 1cds g.7.1.3 44461 1cdq 77 8.67e+00 1cds g.7.1.3 44459 1eqnA 321 9.00e+00 1dd9A e.13.1.1 43256 1kwsA 261 9.13e+00 1ghsA 306 9.49e+00 1aq0A c.1.8.3 28840 1a3z 155 9.50e+00 1rcy b.6.1.1 23019 1gg3A 279 9.57e+00 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1cur 155 9.58e+00 1rcy b.6.1.1 23021 1rcy 151 1.02e+01 1rcy b.6.1.1 23018 1gsmA 210 1.06e+01 b.1.1.4 65535 b.1.1.4 65536 1feuA 206 1.09e+01 1feuA b.53.1.1 59801 4eugA 229 1.10e+01 3eugA c.18.1.1 31019 1ksgB 152 1.10e+01 1bj8 109 1.11e+01 1bquA b.1.2.1 22070 1dapA 320 1.21e+01 1dapA c.2.1.3 30053 d.81.1.3 39968 1f06A 320 1.25e+01 1dapA c.2.1.3 59556 d.81.1.3 59557 3dapA 320 1.28e+01 1dapA c.2.1.3 30051 d.81.1.3 39966 1e30A 155 1.34e+01 1rcy b.6.1.1 23016 1j5eK 129 1.35e+01 1jw3A 140 1.37e+01 d.208.1.1 67373 3eugA 229 1.44e+01 3eugA c.18.1.1 31018 2fcr 173 1.50e+01 1rcf c.23.5.1 31151 1kijA 390 1.57e+01 1kshB 152 1.63e+01 1ddeA 338 1.73e+01 1dd9A e.13.1.1 43255 1e6bA 221 1.75e+01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1fggA 261 1.80e+01 1fggA c.68.1.7 34576 1fjgK 129 1.85e+01 1fjfK c.55.4.1 33733 1gsoA 431 2.03e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1jh6A 189 2.20e+01 d.61.1.1 66707 1dgjA 907 2.21e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1plq 258 2.32e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1fviA 297 2.45e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 2pspA 106 2.59e+01 2pspA g.16.1.1 44730 g.16.1.1 44731 1a76 326 2.61e+01 1a76 a.60.7.1 18091 c.53.1.2 33361 1j9iA 68 2.62e+01 1d7qA 143 2.81e+01 1d7qA b.40.4.5 25331 1fqjC 42 2.83e+01 1fqjC j.51.1.1 46332 1ld8B 437 2.84e+01 1b43A 340 3.14e+01 1a76 a.60.7.1 18092 c.53.1.2 33362 1ukz 203 3.20e+01 1zin c.37.1.1 31840 1bquA 215 3.22e+01 1bquA b.1.2.1 22066 b.1.2.1 22067 1kblA 873 3.22e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1dik 874 3.26e+01 1dik c.1.12.2 29304 c.8.1.1 30702 d.142.1.5 41572 1m5eA 263 3.27e+01 1e0hA 86 3.30e+01 1cei a.28.2.1 16947 1plr 258 3.33e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1m5dA 263 3.37e+01 1f46A 140 3.43e+01 1f46A d.129.4.1 59643 1fsiA 189 3.45e+01 1fsiA d.61.1.1 39536 1pcp 106 3.60e+01 2pspA g.16.1.1 44742 g.16.1.1 44743 1fecA 490 3.64e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1aisA 182 3.69e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1k4iA 233 3.72e+01 1f47B 144 3.72e+01 1f46A d.129.4.1 59645 1j5yA 187 3.79e+01 1qfhA 212 3.93e+01 1qfhA b.1.1.5 21893 b.1.1.5 21894