# List of top-scoring protein chains for T0399.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.soe.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 1s0wC 165 1.63e-04 d.98.1.1 98311 1xxmC 165 1.67e-04 2g2uB 165 1.83e-04 d.98.1.1 134541 2pxgA 118 4.51e-03 2h36X 112 6.37e-01 2iorA 235 1.85e+00 2f22A 144 2.27e+00 a.213.1.2 132795 1ssmA 242 2.96e+00 b.81.1.6 105987 1sstA 267 3.18e+00 b.81.1.6 105995 1ssqA 267 3.19e+00 b.81.1.6 105993 1s80A 278 3.30e+00 b.81.1.6 105358 1y4uA 559 4.27e+00 2ioqA 624 4.55e+00 1b74A 254 6.37e+00 1b74A c.78.2.1,c.78.2.1 35264,35265 1jofA 365 7.86e+00 b.69.10.1 71775 1hdmB 193 8.11e+00 1hdmB b.1.1.2,d.19.1.1 21584,38158 1a6dA 545 8.86e+00 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1pknA 530 1.00e+01 b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1h70A 255 1.04e+01 1h70A d.126.1.3 60711 1xkoA 159 1.18e+01 d.252.1.1 115415 1b72B 87 1.30e+01 1akhA a.4.1.1 16001 1vmdA 178 1.37e+01 c.24.1.2 108891 2nqhA 285 1.38e+01 1pufB 73 1.43e+01 a.4.1.1 95132 1squA 155 1.44e+01 d.252.1.1 98971 2bc4B 211 1.44e+01 1uohA 226 1.45e+01 d.211.1.1 99690 1qymA 227 1.48e+01 d.211.1.1 96596 2e3uA 219 1.71e+01 1f3xA 530 1.81e+01 b.58.1.1,c.1.12.1,c.49.1.1 64958,64959,64960 2g50A 530 1.82e+01 b.58.1.1,c.1.12.1,c.49.1.1 134618,134619,134620 1f3wA 530 1.82e+01 b.58.1.1,c.1.12.1,c.49.1.1 64934,64935,64936 1a49A 530 1.82e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 2pk8A 103 1.85e+01 d.274.1.1 139707 1mqbA 333 1.86e+01 d.144.1.7 91392 2qooA 373 1.87e+01 2qocA 344 1.93e+01 2joyA 96 1.93e+01 1gq6A 313 1.98e+01 c.42.1.1 70341 2qofA 373 2.00e+01 2qo9A 373 2.00e+01 2qodA 373 2.01e+01 1gkgA 136 2.01e+01 g.18.1.1,g.18.1.1 70219,70220 2qoiA 373 2.01e+01 2qokA 373 2.10e+01 2fz0A 149 2.33e+01 1lfuP 82 2.39e+01 a.4.1.1 77939 2qolA 373 2.42e+01 2nq9A 285 2.45e+01 1qtwA 285 2.51e+01 1qumA c.1.15.1 29392 1rfeA 162 2.57e+01 b.45.1.1 111796 2r2pA 295 2.68e+01 1zrtD 258 2.69e+01 2qonA 373 2.72e+01 1g8aA 227 2.75e+01 c.66.1.3 90506 2cp6A 172 2.76e+01 b.34.10.1 130693 1gc8A 345 2.76e+01 1cnzA c.77.1.1 35042 1j7jA 178 2.78e+01 c.61.1.1 84131 1ga8A 311 2.80e+01 1ga8A c.68.1.4 34516 2qobA 344 2.82e+01 1x2lA 101 2.83e+01 a.35.1.7 121644 2qo7A 373 2.92e+01 1b1gA 75 3.08e+01 1psrA a.39.1.1 17151 1cdnA 76 3.14e+01 a.39.1.1 17148 1i7nA 309 3.16e+01 c.30.1.5,d.142.1.3 83681,83682 2bk8A 97 3.31e+01 3bjfA 518 3.35e+01 3bjtA 530 3.39e+01 1qa1A 554 3.39e+01 1tyv b.80.1.6 28047 2reiA 318 3.41e+01 1zjhA 548 3.43e+01 1pkmA 530 3.45e+01 b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1b8iB 63 3.51e+01 1akhA a.4.1.1 16011 1t5aA 567 3.55e+01 1y89A 238 3.59e+01 1osjA 345 3.74e+01 1cnzA c.77.1.1 35039 1dr0A 346 3.74e+01 1cnzA c.77.1.1 35045 1dr8A 344 3.75e+01 1cnzA c.77.1.1 35051 1dpzA 349 3.79e+01 1cnzA c.77.1.1 35053 2q7nA 488 3.89e+01 6pazA 123 3.93e+01 b.6.1.1 22886 1k8qA 377 4.15e+01 c.69.1.6 72177 4pazA 123 4.19e+01 b.6.1.1 22881 1gc9A 345 4.29e+01 1cnzA c.77.1.1 35037 1pazA 123 4.40e+01 b.6.1.1 22878 1bvuA 418 4.68e+01 1hwyA c.2.1.7,c.58.1.1 30226,33874 2bjfA 329 4.80e+01 1xfdA 723 4.87e+01 b.70.3.1,c.69.1.24 115251,115252 1ucrA 78 5.03e+01 a.4.5.45 99188 1jkeA 145 5.05e+01 c.110.1.1 66791 1w7fA 307 5.33e+01 2hh3A 106 5.37e+01 1du6A 64 5.77e+01 1akhA a.4.1.1 16002 1ss9A 311 5.82e+01 c.68.1.4 105978 1wosA 364 5.94e+01 b.44.2.1,d.250.1.1 109468,109469 2g5xA 234 6.04e+01 1g2uA 345 6.08e+01 1cnzA c.77.1.1 35036 1witA 93 6.29e+01 b.1.1.4 21714 1e3pA 757 6.35e+01 1e3hA a.4.9.1,b.40.4.5,d.14.1.4,d.14.1.4,d.52.3.1,d.101.1.1,d.101.1.1 16258,25328,37574,37575,38811,40697,40698 1t3gA 159 6.43e+01 3c5oA 157 6.57e+01 1sv6A 269 7.04e+01 d.177.1.1 106043 2ppwA 216 7.17e+01 2hgmA 126 7.18e+01 2dsgA 265 7.19e+01 1osfA 215 7.25e+01 d.122.1.1 87380 1xm2A 173 7.33e+01 1ifcA 132 7.46e+01 b.60.1.2 27173 2pmzC 392 7.47e+01 1b85A 351 7.50e+01 1arv a.93.1.1 18581 1b80A 351 7.50e+01 1arv a.93.1.1 18579 1icmA 131 7.59e+01 b.60.1.2 27174 2nwtA 69 7.60e+01 1h6vA 499 7.75e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 60693,60694,60695 2p3eA 420 7.80e+01 1icnA 131 7.88e+01 b.60.1.2 27175 1ipdA 345 7.89e+01 c.77.1.1 35038 1ya9A 181 7.90e+01 1uyiA 236 7.90e+01 d.122.1.1 108142 1xaaA 345 7.92e+01 c.77.1.1 35033 2byiA 235 7.95e+01 d.122.1.1 129482 1uylA 236 7.96e+01 d.122.1.1 108147 2dv7A 265 7.98e+01