# List of top-scoring protein chains for T0347.t2k-w0.5 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 1vk1A 242 4.76e-01 d.268.1.2 108634 1vlqA 337 7.80e+00 c.69.1.25 108848 1vloA 381 9.91e+00 b.44.2.1,d.250.1.1 108838,108839 1xhnA 184 1.31e+01 1nnhA 294 1.47e+01 d.104.1.1 92005 1ir1S 123 1.51e+01 d.73.1.1 71290 1u46A 291 1.70e+01 d.144.1.7 107656 1u54A 291 1.95e+01 d.144.1.7 107675 1ne7A 289 2.25e+01 c.124.1.1 91833 1o6dA 163 2.57e+01 c.116.1.3 92567 1fiqC 763 2.99e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1ye9A 226 3.31e+01 2cuaA 135 3.45e+01 2cuaA b.6.1.2 23039 2fwlB 136 3.47e+01 1s2oA 244 3.51e+01 1xmeB 168 3.84e+01 1xb4A 202 3.99e+01 1i10A 331 4.08e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 1xkqA 280 4.13e+01 2h16A 183 4.15e+01 1qezA 173 4.37e+01 2prd b.40.5.1 25410 1pd21 199 4.38e+01 1pd21 8rucI 123 4.41e+01 1rboC d.73.1.1 39629 1yj5A 383 4.73e+01 1sogA 294 4.94e+01 a.93.1.1 105844 1f1bA 310 5.00e+01 3csuA c.78.1.1,c.78.1.1 35104,35105 1d09A 310 5.02e+01 3csuA c.78.1.1,c.78.1.1 35100,35101 1gawA 314 5.12e+01 1fnc b.43.4.2,c.25.1.1 25643,31533 2ffjA 300 5.15e+01 1skuA 310 5.17e+01 c.78.1.1,c.78.1.1 98902,98903 1tugA 310 5.22e+01 c.78.1.1 107339 2a0fA 310 5.27e+01 1gq3A 310 5.27e+01 c.78.1.1,c.78.1.1 76268,76269 3csuA 310 5.29e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1ekxA 311 5.29e+01 3csuA c.78.1.1,c.78.1.1 35088,35089 1nk2P 77 5.48e+01 1akhB a.4.1.1 16015 1jfgA 374 5.70e+01 a.128.1.5 66636 2avyB 240 5.73e+01 1rqgA 722 5.76e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1kiyA 374 5.82e+01 a.128.1.5 72555 9atcA 310 5.84e+01 3csuA c.78.1.1,c.78.1.1 35188,35189 2fxqA 264 5.89e+01 1jciA 294 5.91e+01 a.93.1.1 71632 1x33A 268 5.94e+01 2aelA 374 5.95e+01 1stqA 294 6.00e+01 a.93.1.1 106008 1yyqA 374 6.01e+01 1jb0B 740 6.05e+01 1jb0A f.29.1.1 62821 2c12A 439 6.20e+01 1x35A 268 6.22e+01 1kebA 108 6.36e+01 c.47.1.1 77341 1jdrA 294 6.42e+01 1ryc a.93.1.1 62908 1qryA 80 6.54e+01 2hddA a.4.1.1 16016 8atcA 310 6.89e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1acmA 310 6.90e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 2ffhA 425 6.92e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 2atcA 305 6.98e+01 3csuA c.78.1.1,c.78.1.1 35194,35195 1su1A 208 7.23e+01 d.159.1.7 106016 1spxA 278 7.28e+01 c.2.1.2 98958 1dkgD 383 7.35e+01 1ba1 c.55.1.1,c.55.1.1 33427,33428 1xefA 241 7.69e+01 1yy7A 213 7.70e+01 1o5wA 534 8.26e+01 c.3.1.2,d.16.1.5 92520,92521 1wf3A 301 8.35e+01 1x36A 237 8.36e+01 1f6dA 376 8.36e+01 1f6dA c.87.1.3 35467 2g0wA 296 8.52e+01 1l5aA 436 8.71e+01 c.43.1.2,c.43.1.2 75923,75924 2c7lB 172 8.74e+01 1vgvA 384 8.75e+01 c.87.1.3 100608 1b78A 193 8.78e+01 1b78A c.51.4.1 33221