# List of top-scoring protein chains for T0335.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 1r2uA 89 2.31e-01 a.39.1.5 104783 2amyA 246 6.70e-01 1ap4 89 7.49e-01 1ncx a.39.1.5 17253 2fzfA 175 1.10e+00 1la0A 161 1.59e+00 a.39.1.5 77864 1wrkA 88 2.01e+00 2ctn 89 2.08e+00 1ncx a.39.1.5 17242 1xupO 487 2.79e+00 1r59O 505 2.82e+00 1y96B 85 2.86e+00 1q6gA 495 3.84e+00 c.1.8.1 95974 1btc 491 3.85e+00 1byb c.1.8.1 28791 1wdqA 495 3.86e+00 1wdsA 495 3.86e+00 1v3iA 495 3.86e+00 c.1.8.1 108304 1wdpA 495 3.86e+00 2d2jA 329 3.86e+00 1byb 495 3.87e+00 1byb c.1.8.1 28790 1wdrA 495 3.87e+00 1v3hA 495 3.91e+00 c.1.8.1 108303 1ukpA 495 3.91e+00 c.1.8.1 99505 1q6dA 495 3.96e+00 c.1.8.1 95971 1ukoA 495 4.01e+00 c.1.8.1 99501 1pta 327 4.05e+00 1pscA c.1.9.3 29064 1dpmA 329 4.07e+00 1pscA c.1.9.3 29062 1eywA 331 4.09e+00 1pscA c.1.9.3 29057 1i0dA 332 4.10e+00 1pscA c.1.9.3 61487 1jgmA 336 4.24e+00 1pscA c.1.9.3 62953 1pscA 365 4.39e+00 1pscA c.1.9.3 29058 1qokA 282 4.56e+00 1f3rB b.1.1.1,b.1.1.1 20492,20493 1cfvH 119 4.58e+00 1igtB b.1.1.1 20161 1v9kA 228 4.75e+00 d.265.1.3 108449 1aj4 161 4.75e+00 1ncx a.39.1.5 17244 1dtlA 161 4.78e+00 1ncx a.39.1.5 17229 1qw7A 336 4.80e+00 1b5sA 242 4.81e+00 1eaf c.43.1.1 32626 1xpiA 231 4.87e+00 1q6eA 495 4.98e+00 c.1.8.1 95972 1il1A 219 5.45e+00 1igtB b.1.1.1,b.1.1.2 62539,62540 2bk6A 156 6.32e+00 1qghA 156 6.40e+00 1qghA a.25.1.1 16728 2aepH 217 6.99e+00 2bjyA 156 7.10e+00 2bkcA 156 7.11e+00 1b1yA 500 7.88e+00 1byb c.1.8.1 28796 1qvbA 481 9.13e+00 1qvbA c.1.8.4 28983 1atnD 260 1.01e+01 3dni d.151.1.1 41793 1mvwC 147 1.01e+01 i.15.1.1 79525 2mysC 149 1.02e+01 1wdcC a.39.1.5 17323 1oe4A 247 1.03e+01 c.18.1.3 86895 1fgnH 214 1.04e+01 1igtB b.1.1.1,b.1.1.2 20217,21229 1pv5A 264 1.10e+01 d.251.1.1 95150 1behA 187 1.19e+01 1a44 b.17.1.1 23700 1ifvA 155 1.24e+01 d.129.3.1 71204 1pg7H 217 1.24e+01 b.1.1.1,b.1.1.2 94674,94675 1jptH 225 1.27e+01 b.1.1.1,b.1.1.2 67051,67052 1v11A 400 1.28e+01 c.36.1.11 108227 2bfeA 400 1.28e+01 1x7wA 400 1.28e+01 2bffA 400 1.28e+01 1v1rA 400 1.28e+01 c.36.1.11 108272 1x7yA 400 1.28e+01 2bewA 400 1.28e+01 1v16A 400 1.29e+01 c.36.1.11 108240 2bfbA 400 1.29e+01 2bfdA 400 1.29e+01 1x7zA 400 1.29e+01 1x7xA 400 1.29e+01 1zxfA 155 1.29e+01 2bfcA 400 1.30e+01 1h6zA 913 1.48e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1x48A 88 1.55e+01 1m0sA 219 1.77e+01 c.124.1.4,d.58.40.1 78351,78352 2chgA 226 1.83e+01 1cpr 129 1.83e+01 1cpq a.24.3.2 16559 1cpq 129 1.83e+01 1cpq a.24.3.2 16556 1ad9B 219 1.98e+01 1gc1H b.1.1.1,b.1.1.2 20215,21227 1b0nA 111 2.11e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1zboA 210 2.25e+01 1fa2A 498 2.41e+01 1byb c.1.8.1 28797 1zd3A 555 2.46e+01 1wmhA 89 2.49e+01 1br1B 150 2.51e+01 1wdcC a.39.1.5 17309 2chqA 319 2.55e+01 1p6bA 336 2.63e+01 c.1.9.3 94163 1ri8A 134 2.67e+01 1npqA 90 2.88e+01 a.39.1.5 85983 1cr9H 217 2.96e+01 8fabA b.1.1.1,b.1.1.2 20431,21401 1jsxA 207 2.99e+01 c.66.1.20 71846 2fzlA 219 3.02e+01 1icxA 155 3.05e+01 d.129.3.1 71191 1uacH 114 3.14e+01 b.1.1.1 99132 1avsA 90 3.22e+01 1cll a.39.1.5 17226 1xhkA 187 3.28e+01 2b5xA 148 3.29e+01 2gu2A 312 3.41e+01 1ikfH 228 3.46e+01 1igtB b.1.1.1,b.1.1.2 20033,21087 1ic5H 114 3.61e+01 1f3rB b.1.1.1 62254 1smg 90 3.61e+01 1ncx a.39.1.5 17234 1j1xH 114 3.63e+01 b.1.1.1 77063 1kn3A 183 3.73e+01 b.17.1.1 72764 1ic7H 114 3.80e+01 1f3rB b.1.1.1 62258 2crjA 92 3.82e+01 1ic4H 114 3.83e+01 1f3rB b.1.1.1 62251 1dtp 190 3.89e+01 1ddt d.166.1.1 42248 1ndgB 210 3.94e+01 b.1.1.1,b.1.1.2 85578,85579 2c5kT 95 3.95e+01 1v59A 478 3.96e+01 1yn5A 103 4.01e+01 1o6dA 163 4.11e+01 c.116.1.3 92567 1uedA 406 4.14e+01 a.104.1.1 99256 2b5aA 77 4.18e+01 1ofcX 304 4.25e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2gm3A 175 4.32e+01 1vh5A 148 4.33e+01 d.38.1.5 100642 1k6qH 216 4.41e+01 b.1.1.1,b.1.1.2 72092,72093 1sczA 233 4.46e+01 c.43.1.1 98802 2c5iT 101 4.51e+01 1umwA 237 4.56e+01 d.223.1.2,d.223.1.2 99631,99632 1ddmA 135 4.64e+01 2nmbA b.55.1.2 26993 1dsfH 119 4.81e+01 1igtB b.1.1.1 20247 2nmbA 160 4.99e+01 2nmbA b.55.1.2 26994 2h1pH 220 5.14e+01 1igtB b.1.1.1,b.1.1.2 20191,21207 3rabA 169 5.18e+01 1ctqA c.37.1.8 32018 1zvhA 134 5.33e+01 1q4kA 259 5.50e+01 d.223.1.2,d.223.1.2 95797,95798 1oy1A 228 5.54e+01 c.23.16.2 87548 1iqpA 327 5.56e+01 a.80.1.1,c.37.1.20 62649,62650 1vhqA 232 5.56e+01 c.23.16.2 100696 2fh5B 214 5.62e+01 1k03A 399 5.79e+01 c.1.4.1 63322 1nwy4 37 5.82e+01 1cvsC 225 5.84e+01 1cvsC b.1.1.4,b.1.1.4 21726,21727 1a7w 69 5.87e+01 1a7w a.22.1.2 16477 1evtC 225 5.89e+01 1cvsC b.1.1.4,b.1.1.4 21730,21731 1djsA 216 5.92e+01 1cvsC b.1.1.4,b.1.1.4 21746,21747 1ii4E 220 5.94e+01 1cvsC b.1.1.4,b.1.1.4 62404,62405 1e0oB 219 5.96e+01 1cvsC b.1.1.4,b.1.1.4 21748,21749 2a40B 260 5.96e+01 1yl39 36 5.98e+01 1ev2E 220 5.98e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1oyc 400 5.98e+01 1oyc c.1.4.1 28603 1iilE 220 6.04e+01 1cvsC b.1.1.4,b.1.1.4 62437,62438 2fdbP 220 6.11e+01 1u5uA 374 6.14e+01 1xeuA 263 6.32e+01 1vor6 35 6.44e+01 1fjgK 129 6.52e+01 1fjfK c.55.4.1 33733 12e8H 221 6.55e+01 1igtB b.1.1.1,b.1.1.2 20269,21269 1ql3A 99 6.57e+01 1ycc a.3.1.1 15822 1vluA 468 6.60e+01 c.82.1.1 108864 1pvmA 184 6.61e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1fexA 59 6.65e+01 a.4.1.3 59803 1c7mA 100 6.65e+01 1ycc a.3.1.1 15830 1i94K 128 6.65e+01 1fjfK c.55.4.1 62002 2cycA 375 6.79e+01 1v58A 241 6.91e+01 c.47.1.9,d.17.3.1 108371,108372 1yc61 154 6.92e+01 1omrA 201 7.00e+01 a.39.1.5 93349 1e6yA 569 7.01e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 2iuoA 156 7.02e+01 1iku 202 7.02e+01 1rec a.39.1.5 17327 1omvA 201 7.02e+01 a.39.1.5 93353 1rz7H 219 7.03e+01 b.1.1.1,b.1.1.2 98133,98134 1la3A 202 7.05e+01 a.39.1.5 73781 1yxmA 303 7.16e+01 1nunB 230 7.17e+01 b.1.1.4,b.1.1.4 80735,80736 1ae6H 218 7.20e+01 1igtB b.1.1.1,b.1.1.2 20211,21223 3hfmH 215 7.22e+01 1igtB b.1.1.1,b.1.1.2 19977,21033 1e08D 88 7.23e+01 i.4.1.1 45915 1pnsK 119 7.34e+01 i.1.1.1 88178 1v1dA 31 7.40e+01 1sbkA 144 7.47e+01 d.38.1.5 98791 1a44 185 7.47e+01 1a44 b.17.1.1 23704 1b7aA 186 7.61e+01 1a44 b.17.1.1 23705 1js9A 189 7.74e+01 b.121.4.5 71840 1nnwA 252 7.76e+01 d.159.1.5 80674 2aukA 190 7.85e+01 1khdA 345 7.99e+01 a.46.2.1,c.27.1.1 77400,77401 1qsmA 152 8.03e+01 1qsmA d.108.1.1 40808 2fueA 262 8.13e+01 1ioaA 240 8.16e+01 1led b.29.1.1 24168 1ek9A 428 8.21e+01 1ek9A f.5.1.1 43809 1e4aP 214 8.35e+01 2fua c.74.1.1 34980 1n67A 359 8.43e+01 b.2.3.4,b.2.3.4 85354,85355 1jbaA 204 8.49e+01 1rec a.39.1.5 17330 1tqqA 471 8.51e+01 f.5.1.1 107242 1qsoA 149 8.51e+01 1qsmA d.108.1.1 40812 1zx3A 122 8.54e+01 2a6sA 84 8.81e+01 1kv0A 66 8.84e+01 g.3.7.1 91040