# List of top-scoring protein chains for T0335.t04-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 2amyA 246 7.10e-01 1il1A 219 1.98e+00 1igtB b.1.1.1,b.1.1.2 62539,62540 1qokA 282 2.04e+00 1f3rB b.1.1.1,b.1.1.1 20492,20493 1b5sA 242 2.63e+00 1eaf c.43.1.1 32626 1y96B 85 3.12e+00 2fzfA 175 3.90e+00 1r59O 505 4.40e+00 1xupO 487 4.56e+00 1r2uA 89 4.61e+00 a.39.1.5 104783 1pv5A 264 4.85e+00 d.251.1.1 95150 1v9kA 228 5.06e+00 d.265.1.3 108449 1xpiA 231 5.18e+00 1v3hA 495 5.66e+00 c.1.8.1 108303 1q6gA 495 5.77e+00 c.1.8.1 95974 1v3iA 495 5.78e+00 c.1.8.1 108304 1wdqA 495 5.78e+00 1wdsA 495 5.78e+00 1wdrA 495 5.78e+00 1wdpA 495 5.78e+00 1ukpA 495 5.78e+00 c.1.8.1 99505 1ukoA 495 5.81e+00 c.1.8.1 99501 1btc 491 6.17e+00 1byb c.1.8.1 28791 1byb 495 6.20e+00 1byb c.1.8.1 28790 1q6dA 495 6.31e+00 c.1.8.1 95971 2aepH 217 7.96e+00 1wmhA 89 8.03e+00 1q6eA 495 8.39e+00 c.1.8.1 95972 1ap4 89 8.58e+00 1ncx a.39.1.5 17253 1b1yA 500 9.88e+00 1byb c.1.8.1 28796 1pta 327 1.04e+01 1pscA c.1.9.3 29064 1e28A 276 1.04e+01 1agdA b.1.1.2,d.19.1.1 20765,38272 1e27A 276 1.04e+01 1agdA b.1.1.2,d.19.1.1 20763,38271 1dpmA 329 1.05e+01 1pscA c.1.9.3 29062 1eywA 331 1.05e+01 1pscA c.1.9.3 29057 1i0dA 332 1.05e+01 1pscA c.1.9.3 61487 1jgmA 336 1.06e+01 1pscA c.1.9.3 62953 1qw7A 336 1.10e+01 1pscA 365 1.11e+01 1pscA c.1.9.3 29058 1cr9H 217 1.23e+01 8fabA b.1.1.1,b.1.1.2 20431,21401 2d2jA 329 1.43e+01 1fgnH 214 1.52e+01 1igtB b.1.1.1,b.1.1.2 20217,21229 1ad9B 219 1.67e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 1la0A 161 1.86e+01 a.39.1.5 77864 1k6qH 216 2.01e+01 b.1.1.1,b.1.1.2 72092,72093 1cfvH 119 2.05e+01 1igtB b.1.1.1 20161 1qghA 156 2.11e+01 1qghA a.25.1.1 16728 2bk6A 156 2.13e+01 1ic7H 114 2.32e+01 1f3rB b.1.1.1 62258 2bkcA 156 2.34e+01 2bjyA 156 2.37e+01 1ic5H 114 2.37e+01 1f3rB b.1.1.1 62254 1atnD 260 2.38e+01 3dni d.151.1.1 41793 2fueA 262 2.40e+01 1ic4H 114 2.40e+01 1f3rB b.1.1.1 62251 1j1xH 114 2.43e+01 b.1.1.1 77063 1ndgB 210 2.44e+01 b.1.1.1,b.1.1.2 85578,85579 1cpq 129 2.49e+01 1cpq a.24.3.2 16556 1wrkA 88 2.50e+01 1cpr 129 2.50e+01 1cpq a.24.3.2 16559 2ctn 89 2.62e+01 1ncx a.39.1.5 17242 1x48A 88 2.73e+01 1sczA 233 2.79e+01 c.43.1.1 98802 1b0nA 111 2.82e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1fa2A 498 2.83e+01 1byb c.1.8.1 28797 1uacH 114 2.84e+01 b.1.1.1 99132 1xr9A 276 2.84e+01 1gafH 217 2.99e+01 1mfa b.1.1.1,b.1.1.2 20083,21115 12e8H 221 3.00e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 1zhlA 276 3.03e+01 1agdA 276 3.09e+01 1agdA b.1.1.2,d.19.1.1 20741,38260 1zxfA 155 3.10e+01 1m05A 277 3.11e+01 b.1.1.2,d.19.1.1 91156,91157 1pg7H 217 3.28e+01 b.1.1.1,b.1.1.2 94674,94675 1e08D 88 3.36e+01 i.4.1.1 45915 1jptH 225 3.38e+01 b.1.1.1,b.1.1.2 67051,67052 1k5nA 276 3.50e+01 b.1.1.2,d.19.1.1 77266,77267 2a83A 276 3.50e+01 2bssA 276 3.50e+01 2fzlA 219 3.56e+01 1v08A 512 3.65e+01 c.1.8.4 108202 1h49A 512 3.69e+01 c.1.8.4 83477 1a1oA 276 3.72e+01 1agdA b.1.1.2,d.19.1.1 20751,38265 1a1mA 278 3.75e+01 1agdA b.1.1.2,d.19.1.1 20753,38266 1tv5A 443 3.89e+01 1m0sA 219 3.97e+01 c.124.1.4,d.58.40.1 78351,78352 2a6sA 84 4.07e+01 1cg9A 277 4.09e+01 b.1.1.2,d.19.1.1 90419,90420 1a1nA 276 4.14e+01 1agdA b.1.1.2,d.19.1.1 20755,38267 1xh3A 276 4.14e+01 1a9eA 277 4.17e+01 1agdA b.1.1.2,d.19.1.1 20757,38268 1hxjA 507 4.18e+01 c.1.8.4 76729 1e1eA 512 4.20e+01 1e70M c.1.8.4 28944 1j05B 121 4.20e+01 b.1.1.1 90736 2a40B 260 4.36e+01 1r1hA 696 4.40e+01 d.92.1.4 104756 1mvwC 147 4.44e+01 i.15.1.1 79525 2mysC 149 4.48e+01 1wdcC a.39.1.5 17323 2bvpA 276 4.48e+01 2crjA 92 4.52e+01 1ifvA 155 4.75e+01 d.129.3.1 71204 1npqA 90 4.80e+01 a.39.1.5 85983 1smg 90 4.81e+01 1ncx a.39.1.5 17234 3hfmH 215 4.89e+01 1igtB b.1.1.1,b.1.1.2 19977,21033 1ofcX 304 4.90e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1avsA 90 4.97e+01 1cll a.39.1.5 17226 2rcsH 217 5.07e+01 1mfa b.1.1.1,b.1.1.2 20087,21119 2f62A 161 5.17e+01 1ndmB 210 5.26e+01 b.1.1.1,b.1.1.2 85583,85584 2cycA 375 5.37e+01 1ddhA 274 5.43e+01 1agdA b.1.1.2,d.19.1.1 20845,38312 1zd3A 555 5.49e+01 1kzyA 195 5.70e+01 b.2.5.2 73381 1ikfH 228 5.83e+01 1igtB b.1.1.1,b.1.1.2 20033,21087 1gzhC 198 5.85e+01 b.2.5.2 70810 1ycsA 199 5.88e+01 1tupA b.2.5.2 22433 1vb5A 276 5.97e+01 1yn5A 103 6.09e+01 2fejA 204 6.12e+01 2bimA 219 6.17e+01 2biqA 219 6.20e+01 1aj4 161 6.22e+01 1ncx a.39.1.5 17244 2gsiB 221 6.22e+01 1dtlA 161 6.27e+01 1ncx a.39.1.5 17229 2bioA 219 6.31e+01 1uolA 219 6.38e+01 b.2.5.2 99695 1dtp 190 6.44e+01 1ddt d.166.1.1 42248 2bipA 219 6.48e+01 2binA 219 6.54e+01 1p6bA 336 6.56e+01 c.1.9.3 94163 1m5zA 91 6.58e+01 b.36.1.1 78676 1fexA 59 6.62e+01 a.4.1.3 59803 1ae6H 218 6.66e+01 1igtB b.1.1.1,b.1.1.2 20211,21223 1h6zA 913 6.69e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1dvfD 120 6.80e+01 1mfa b.1.1.1 20107 1tupA 219 7.00e+01 1tupA b.2.5.2 22434 35c8H 217 7.05e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1v11A 400 7.10e+01 c.36.1.11 108227 2bfbA 400 7.13e+01 1v1rA 400 7.15e+01 c.36.1.11 108272 2bfdA 400 7.15e+01 2bfeA 400 7.15e+01 1v16A 400 7.15e+01 c.36.1.11 108240 1mvuB 121 7.16e+01 b.1.1.1 91475 1x7wA 400 7.16e+01 1dqqB 210 7.17e+01 1igtB b.1.1.1,b.1.1.2 20421,21391 2bewA 400 7.18e+01 1x7xA 400 7.19e+01 1x7yA 400 7.20e+01 2bffA 400 7.20e+01 2ap2B 122 7.21e+01 1mfa b.1.1.1 20179 1x7zA 400 7.21e+01 2bfcA 400 7.23e+01 1qfuH 223 7.26e+01 1igtB b.1.1.1,b.1.1.2 20293,21285 1djsA 216 7.30e+01 1cvsC b.1.1.4,b.1.1.4 21746,21747 1ap2B 123 7.32e+01 1mfa b.1.1.1 20183 1e0oB 219 7.33e+01 1cvsC b.1.1.4,b.1.1.4 21748,21749 1ev2E 220 7.34e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1ii4E 220 7.35e+01 1cvsC b.1.1.4,b.1.1.4 62404,62405 1cloH 222 7.38e+01 1igtB b.1.1.1,b.1.1.2 20123,21153 1iilE 220 7.49e+01 1cvsC b.1.1.4,b.1.1.4 62437,62438 1p9yA 121 7.51e+01 d.241.2.1 94402 2fdbP 220 7.54e+01 2b5aA 77 7.60e+01 2h1pH 220 7.60e+01 1igtB b.1.1.1,b.1.1.2 20191,21207 1moxA 501 7.63e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 91372,91373,91374,91375 1qo3A 277 7.77e+01 1agdA b.1.1.2,d.19.1.1 20841,38310 1jbaA 204 7.77e+01 1rec a.39.1.5 17330 1ydpA 275 7.80e+01 1nunB 230 7.91e+01 b.1.1.4,b.1.1.4 80735,80736 1ddmA 135 8.04e+01 2nmbA b.55.1.2 26993 1dsfH 119 8.10e+01 1igtB b.1.1.1 20247 1a5fH 217 8.13e+01 1igtB b.1.1.1,b.1.1.2 20303,21295 2d31A 276 8.13e+01 1dk5A 322 8.18e+01 1dk5A a.65.1.1 18192 1uz5A 402 8.26e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1beyH 219 8.38e+01 1igtB b.1.1.1,b.1.1.2 20321,21313 1ce1H 220 8.39e+01 1igtB b.1.1.1,b.1.1.2 20319,21311 1icxA 155 8.42e+01 d.129.3.1 71191 1txvH 219 8.53e+01 1xysA 347 8.62e+01 1e5nA 348 8.69e+01 1taxA c.1.8.3 28904 1rkbA 173 8.79e+01 1dqdH 222 8.91e+01 1igtB b.1.1.1,b.1.1.2 20441,21407 1t04B 219 8.92e+01 1t3fB 220 8.92e+01