# List of top-scoring protein chains for t2k-100-30-str2-scores 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 1k8kA 418 5.57e-01 c.55.1.1,c.55.1.1 68305,68306 1gv4A 528 3.82e+00 c.3.1.5,c.3.1.5,d.87.1.1 70589,70590,70591 1m4uA 206 5.05e+00 g.17.1.7 78625 1nwbA 124 6.25e+00 b.124.1.1 86296 1xmkA 79 7.14e+00 1tca 317 7.91e+00 1tca c.69.1.17 34726 1uwsA 489 8.36e+00 c.1.8.4 108073 1u2fA 90 1.16e+01 1u2fA d.58.7.1 39168 1vjyA 303 1.24e+01 d.144.1.7 108633 1kn6A 90 1.27e+01 d.58.3.3 72770 1gowA 489 1.29e+01 1qvbA c.1.8.4 28981 1m1fA 110 1.36e+01 b.34.6.2 78401 1p5hA 428 1.37e+01 c.123.1.1 87802 2aqwA 332 1.41e+01 1bw0A 416 1.44e+01 1bw0A c.67.1.1 34385 1j1xH 114 1.49e+01 b.1.1.1 77063 2bwrA 401 1.58e+01 1uacH 114 1.59e+01 b.1.1.1 99132 2atrA 138 1.62e+01 1clh 166 1.65e+01 2cpl b.62.1.1 27512 1m7gA 211 1.68e+01 c.37.1.4 78724 1h09A 338 1.70e+01 b.109.1.1,c.1.8.8 83420,83421 1j2aA 166 1.72e+01 b.62.1.1 90779 2gk4A 232 1.74e+01 1ic7H 114 1.76e+01 1f3rB b.1.1.1 62258 1py5A 326 1.76e+01 d.144.1.7 104389 1q79A 514 1.85e+01 a.160.1.1,d.218.1.3,d.58.16.1 104548,104549,104550 1nwaA 203 1.86e+01 d.58.28.1 86295 1b9wA 89 1.87e+01 1b9wA g.3.11.4,g.3.11.4 44334,44335 1f5aA 513 1.91e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39337,75835,75836 1ysc 421 1.94e+01 1ivyA c.69.1.5 34652 1ee8A 266 2.00e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1m6iA 493 2.15e+01 c.3.1.5,c.3.1.5,d.87.1.1 74533,74534,74535 1apq 53 2.18e+01 1apq g.3.11.1 44324 1wdkC 390 2.19e+01 c.95.1.1,c.95.1.1 109258,109259 1kugA 203 2.20e+01 d.92.1.9 73008 1v1rA 400 2.28e+01 c.36.1.11 108272 1kgcD 206 2.31e+01 b.1.1.1,b.1.1.2 77384,77385 1v9tA 166 2.36e+01 b.62.1.1 108451 1twyA 290 2.41e+01 1zowA 313 2.42e+01 1mg2B 131 2.44e+01 g.21.1.1 79060 2por 301 2.48e+01 2por f.4.3.1 43759 1dpb 243 2.51e+01 1eaf c.43.1.1 32618 1eaf 243 2.59e+01 1eaf c.43.1.1 32617 1b6cB 342 2.61e+01 1b6cB d.144.1.7 41673 1h10A 125 2.78e+01 b.55.1.1 83446 1unqA 125 2.78e+01 b.55.1.1 107968 1f3rB 257 2.82e+01 1f3rB b.1.1.1,b.1.1.1 20416,20417 1j2mA 99 3.09e+01 a.165.1.1 84018 1sqjA 789 3.19e+01 b.69.13.1,b.69.13.1 105918,105919 1g1cA 99 3.63e+01 b.1.1.4 65078 1rybA 212 3.68e+01 c.56.3.1 98098 2bbkL 125 3.81e+01 2bbkL g.21.1.1 44882 1k4nA 192 4.24e+01 d.32.1.5 72059 1kufA 203 4.27e+01 d.92.1.9 73007 2bfdA 400 4.28e+01 1oiaA 95 4.67e+01 d.58.7.1 87051 2ch4A 320 4.70e+01 1tbrR 103 4.78e+01 1tbrR g.68.1.1,g.68.1.1 44707,44708 1n1fA 159 4.85e+01 a.26.1.3 79803 1fht 116 5.01e+01 1urnA d.58.7.1 39157 1xzzA 246 5.02e+01 2fy6A 143 5.05e+01 1wstA 417 5.09e+01 1k3iA 656 5.17e+01 b.1.18.2,b.18.1.1,b.69.1.1 68113,68114,68115 1jjzA 29 5.19e+01 g.3.3.1 71699 1vhqA 232 5.33e+01 c.23.16.2 100696 1kal 29 5.33e+01 g.3.3.1 44077 2f6hX 419 5.49e+01 1x7yA 400 5.98e+01 1d2rB 326 5.99e+01 1d2rB c.26.1.1 31573 2f4wA 187 6.00e+01 1lc5A 364 6.06e+01 c.67.1.1 73827 1i6lA 328 6.07e+01 c.26.1.1 66041 1lkcA 364 6.08e+01 c.67.1.1 73978 1ve1A 304 6.15e+01 1cxpA 104 6.20e+01 1d2vA a.93.1.2 18695 1d2vA 104 6.20e+01 1d2vA a.93.1.2 18697 1d2rA 326 6.22e+01 1d2rB c.26.1.1 31572 1i6kA 328 6.25e+01 c.26.1.1 66040 1hn3A 40 6.27e+01 j.91.1.1 65892 1bfeA 119 6.48e+01 1pdr b.36.1.1 24775 1twfI 122 6.51e+01 1vqoI 162 6.55e+01 2cqeA 98 6.64e+01 1rxwA 336 6.64e+01 a.60.7.1,c.120.1.2 98059,98060 1deuA 277 6.70e+01 1theB d.3.1.1 37085 1u3nA 162 6.73e+01 1e69B 322 6.73e+01 1e69B c.37.1.12 32377 1s7hA 200 6.80e+01 d.58.48.2 105349 1e5gA 120 6.80e+01 1e5gA g.18.1.1,g.18.1.1 44843,44844 1z5vA 474 6.87e+01 2gnxA 365 7.18e+01 1iml 76 7.27e+01 1iml g.39.1.3,g.39.1.3 45145,45146 2dp5A 332 7.37e+01 1g40A 244 7.41e+01 1e5gA g.18.1.1,g.18.1.1,g.18.1.1,g.18.1.1 44823,44824,44825,44826 1czsA 160 7.45e+01 1cztA b.18.1.2 23714 1cztA 160 7.45e+01 1cztA b.18.1.2 23715 1lj8A 493 7.53e+01 a.100.1.9,c.2.1.6 90392,90393 1audA 101 7.57e+01 1urnA d.58.7.1 39156 1iohA 21 7.62e+01 1u7pA 164 7.63e+01 1wgkA 114 7.65e+01 1ldfA 281 7.82e+01 f.19.1.1 73845 1fx8A 281 7.91e+01 f.19.1.1 43651 1gx5A 536 7.98e+01 e.8.1.4 70682 1jy5A 212 8.02e+01 d.124.1.1 71940 1ezvC 385 8.11e+01 1be3C f.32.1.1,f.21.1.2 75833,75834 1kb9C 385 8.13e+01 f.32.1.1,f.21.1.2 77315,77316 2fkkA 206 8.16e+01 1imoA 88 8.43e+01 1imoA c.15.1.2 62590 2ezvA 269 8.48e+01 2bg5A 324 8.49e+01 1l1jA 239 8.54e+01 b.47.1.1 84516 1wcdJ 441 8.61e+01 1mkmA 249 8.67e+01 a.4.5.33,d.110.2.2 79242,79243 1f02T 66 8.70e+01 1f02T j.67.1.1 46360 1kyoC 385 8.81e+01 f.32.1.1,f.21.1.2 75904,75905 1axtH 218 8.88e+01 1igtB b.1.1.1,b.1.1.2 20305,21297 2f2bA 246 8.96e+01