# List of top-scoring protein chains for 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 2bnh 457 2.05e-25 1a4yA c.10.1.1 30850 1a4yA 460 4.40e-25 1a4yA c.10.1.1 30852 1yrgA 385 9.79e-16 1yrgA c.10.1.2 30854 1yrgB 385 9.79e-16 1yrgA c.10.1.2 30855 1k5dC 386 9.83e-16 c.10.1.2 68170 1fqvA 336 5.38e-12 1fqvA a.122.1.1 19254 c.10.1.3 30856 1fs2A 272 3.47e-11 1fs1A a.122.1.1 19270 c.10.1.3 30864 1d0bA 213 9.90e-08 1d0bA c.10.2.1 30866 1h6tA 291 1.81e-07 b.1.1.6 65686 c.10.2.1 65687 1dceA 567 5.53e-07 1dceA a.118.6.1 19191 b.7.4.1 23218 c.10.2.2 30867 1kohC 277 2.77e-05 c.10.2.3 68722 d.58.7.2 68723 1fo1A 271 5.51e-05 1fo1A c.10.2.3 30869 d.58.7.2 39213 1ft8E 271 5.52e-05 1ft8E d.58.7.2 39216 1kooC 277 6.14e-05 c.10.2.3 68729 d.58.7.2 68730 1jl5A 454 6.83e-05 c.10.2.6 66830 1g9uA 454 6.83e-05 c.10.2.6 65172 1h6uA 308 2.78e-04 b.1.1.6 65688 c.10.2.1 65689 1ds9A 198 2.97e-04 1ds9A c.11.1.1 30879 1a9nA 176 4.75e-03 1a9nA c.10.2.4 30875 2pth 193 2.22e-02 2pth c.56.3.1 33793 1ijqA 316 1.67e-01 1ijqA b.68.5.1 62506 g.3.11.1 62507 1fj1B 213 2.21e+00 1igtB b.1.1.1 20119 b.1.1.2 21149 2pgd 482 2.90e+00 2pgd a.100.1.1 18778 c.2.1.6 30190 1ga8A 311 5.34e+00 1ga8A c.68.1.4 34516 1iinA 292 6.36e+00 1g0rA c.68.1.6 62447 1f28A 297 6.50e+00 1bkpA d.117.1.1 59608 1jkkA 277 7.02e+00 1jksA 294 7.11e+00 1mgtA 174 7.26e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1i39A 225 7.62e+00 1ekeA c.55.3.1 61585 1cqwA 295 7.80e+00 1b6g c.69.1.8 34679 1ky9B 448 7.83e+00 1e8uA 454 8.71e+00 1e8tA b.68.1.1 59389 1e8tA 454 8.71e+00 1e8tA b.68.1.1 59387 2ay8A 394 8.75e+00 1ajsA c.67.1.1 34359 1emuA 132 1.02e+01 1agrE a.91.1.1 18549 1dk8A 147 1.07e+01 1agrE a.91.1.1 18548 1dvkA 173 1.07e+01 1dvkA a.72.1.1 18319 1uok 558 1.07e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1h2rL 534 1.15e+01 1h2rL e.18.1.1 43298 1bn7A 294 1.25e+01 1bn6A c.69.1.8 34677 1bn6A 294 1.25e+01 1bn6A c.69.1.8 34678 2bvwA 362 1.28e+01 1bvwA c.6.1.1 30666 2at2A 300 1.30e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1ff9A 450 1.31e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 1bvwA 360 1.36e+01 1bvwA c.6.1.1 30668 1slm 255 1.38e+01 1hfc a.20.1.2 59042 d.92.1.11 59043 1gnhA 206 1.60e+01 1sacA b.29.1.5 24252 1jnk 422 1.60e+01 1hcl d.144.1.1 41659 1f8vA 355 1.73e+01 2bbvA b.10.1.3 23329 2u2fA 85 1.75e+01 2u2fA d.58.7.1 39167 1cxvA 164 1.81e+01 1ck7A d.92.1.11 40404 1ruxA 951 1.92e+01 1dhx b.13.2.2 59040 b.13.2.2 59041 1dhx 967 2.00e+01 1dhx b.13.2.2 58971 b.13.2.2 58972 1a6dA 545 2.00e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1qnf 484 2.02e+01 1qnf a.99.1.1 18777 c.28.1.1 31632 1eubA 171 2.08e+01 1hfc d.92.1.11 59503 4tmkA 213 2.09e+01 5tmpA c.37.1.1 31930 5tmpA 213 2.09e+01 5tmpA c.37.1.1 31931 1fgs 428 2.18e+01 1fgs c.59.1.2 33959 c.72.2.2 34962 830cA 168 2.20e+01 1ck7A d.92.1.11 40400 1jbwA 428 2.21e+01 c.59.1.2 62860 c.72.2.2 62861 1dqaA 467 2.48e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1dqaC 467 2.48e+01 1dqaA d.58.20.1 39366 d.179.1.1 42587 1hw8A 467 2.48e+01 1dqaA d.58.20.1 61298 d.179.1.1 61299 1i1gA 141 2.48e+01 a.4.5.32 65982 d.58.37.1 65983 1flsA 165 2.51e+01 1hfc d.92.1.11 59875 1fgrA 839 2.59e+01 1yge a.119.1.1 59828 b.12.1.1 59829 1fgqA 839 2.69e+01 1yge a.119.1.1 59826 b.12.1.1 59827 1yge 839 2.69e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1fgoA 839 2.70e+01 1yge a.119.1.1 59824 b.12.1.1 59825 1lkxA 697 2.73e+01 1ho1A 242 2.80e+01 1ho1A c.1.24.1 61097 1fgtA 839 2.82e+01 1yge a.119.1.1 59830 b.12.1.1 59831 1io2A 213 2.86e+01 1ekeA c.55.3.1 62612 1kzhA 555 2.91e+01 1c8bA 371 2.92e+01 1c8bA c.56.1.2 59082 1fgmA 839 3.03e+01 a.119.1.1 65009 b.12.1.1 65010 1vpsB 289 3.10e+01 1vpsA b.10.1.4 23337 1vpsA 289 3.10e+01 1vpsA b.10.1.4 23336 1hcd 118 3.15e+01 1hce b.42.5.2 25624 1hce 118 3.15e+01 1hce b.42.5.2 25625 1ueaA 173 3.18e+01 1hfc d.92.1.11 40365 1a1w 91 3.29e+01 1a1z a.77.1.1 18425 1g5aA 628 3.40e+01 b.71.1.1 65152 c.1.8.1 65153 1jn6A 210 3.44e+01 b.1.1.1 66923 b.1.1.2 66924 1eswA 500 3.45e+01 1cwyA c.1.8.1 59500 1cwyA 500 3.45e+01 1cwyA c.1.8.1 28789 1k9oI 378 3.45e+01 e.1.1.1 68356 1jnhA 212 3.47e+01 b.1.1.1 66939 b.1.1.2 66940 1ll0A 339 3.52e+01 1jgiA 628 3.53e+01 b.71.1.1 66676 c.1.8.1 66677 1guyC 309 3.54e+01 c.2.1.5 65584 d.162.1.1 65585 1gpeA 587 3.55e+01 1gpeA c.3.1.2 30387 d.16.1.4 37951 1fqvD 149 3.62e+01 1fqvD a.122.1.1 19263 d.42.1.2 38667 1fqvJ 149 3.62e+01 1fqvD a.122.1.1 19266 d.42.1.2 38670 1i19A 561 3.67e+01 1i19A d.58.32.3 61522 d.145.1.1 61523 4enl 436 3.68e+01 4enl c.1.11.1 29202 d.54.1.1 38846 1dmtA 696 3.70e+01 1dmtA d.92.1.4 40296 1wdnA 226 3.71e+01 1lst c.94.1.1 35816 1gggB 226 3.71e+01 1lst c.94.1.1 35818 1jk9B 249 3.74e+01 b.1.8.1 63150 d.58.17.1 63151 2minB 522 3.76e+01 1qguB c.92.2.3 35610 3minB 522 3.76e+01 1qguB c.92.2.3 35606 1jj7A 260 3.81e+01 c.37.1.12 63114 1jj2G 348 3.83e+01 j.84.1.1 63092 1g20B 523 3.84e+01 1qguB c.92.2.3 35614 1bk5A 422 3.87e+01 1bk5A a.118.1.1 19130 1mhyD 521 3.88e+01 1mhyD a.25.1.2 16780 1a1z 91 3.89e+01 1a1z a.77.1.1 18427 1l8pA 436 3.92e+01 1dqrA 557 3.93e+01 1dqrA c.80.1.2 35305 1g98A 558 3.93e+01 c.80.1.2 60396 1umsA 174 3.95e+01 1hfc d.92.1.11 40368 1by8A 314 3.95e+01 1cs8A d.3.1.1 37083 1tia 279 3.97e+01 3tgl c.69.1.17 34737 1gebA 415 3.99e+01 1phd a.104.1.1 18932