# List of top-scoring protein chains for T0262.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 4tnc 162 1.13e-01 1ncx a.39.1.5 17228 1top 162 1.13e-01 1ncx a.39.1.5 17223 5tnc 162 1.37e-01 1ncx a.39.1.5 17246 1tcf 159 2.62e-01 1ncx a.39.1.5 17250 1la0A 161 2.73e-01 a.39.1.5 77864 1a2xA 159 3.73e-01 1ncx a.39.1.5 17251 1tnw 162 5.17e-01 1ncx a.39.1.5 17235 1fi5A 81 5.19e-01 1ncx a.39.1.5 17252 1aj4 161 5.48e-01 1ncx a.39.1.5 17244 1dtlA 161 6.37e-01 1ncx a.39.1.5 17229 3ctn 76 6.61e-01 1ncx a.39.1.5 17241 1ozsA 73 6.79e-01 a.39.1.5 -828 1ih0A 71 6.88e-01 a.39.1.5 66140 1jc2A 76 8.92e-01 a.39.1.5 62862 1f6yA 262 1.06e+00 1f6yA c.1.21.2 29673 1gs0A 351 1.53e+00 a.41.1.1 76323 d.166.1.2 76324 1s7aA 103 2.06e+00 unknown_sccs -313 1j1dC 133 2.31e+00 h.1.25.2 83965 1s29A 92 2.45e+00 unknown_sccs -315 1snzA 344 2.51e+00 b.30.5.4 -3496 1j1eC 180 2.88e+00 h.1.25.2 83971 1ki0A 253 3.15e+00 g.14.1.1 72493 g.14.1.1 72494 g.14.1.1 72495 1efyA 350 3.22e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1a26 361 3.25e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1kl9A 182 3.40e+00 b.40.4.5 72681 1on1A 142 3.45e+00 a.4.5.24 87099 a.76.1.1 87100 1on2A 142 3.51e+00 a.4.5.24 87103 a.76.1.1 87104 1s6iA 188 3.79e+00 1viaA 175 3.89e+00 c.37.1.2 -7021 1s1iF 162 4.34e+00 1qzfA 521 5.30e+00 c.71.1.1 -8373 d.117.1.1 -10945 1k9uA 78 5.37e+00 a.39.1.10 84348 1nuuA 252 5.95e+00 c.26.1.3 86209 1ctaA 36 6.01e+00 1ctdA a.39.1.5 17232 1uk0A 350 6.10e+00 a.41.1.1 -902 d.166.1.2 -11584 1nmeA 146 6.64e+00 c.17.1.1 85874 1rhjA 147 6.65e+00 c.17.1.1 -7916 1nhkL 144 7.08e+00 1npk d.58.6.1 39142 1aerB 201 7.50e+00 1aerA d.166.1.1 42250 1i3oA 175 7.59e+00 1pauA c.17.1.1 61603 1ee0A 402 7.63e+00 1bi5A c.95.1.2 36007 c.95.1.2 36008 1aerA 211 7.88e+00 1aerA d.166.1.1 42249 1dmaA 214 8.13e+00 1aerA d.166.1.1 42251 1a4iA 301 8.62e+00 1a4iA c.2.1.7 30278 c.58.1.2 33926 1digA 306 8.70e+00 1a4iA c.2.1.7 30282 c.58.1.2 33930 1nmsA 249 8.80e+00 c.17.1.1 85879 1qx3A 257 8.83e+00 c.17.1.1 -7914 1qexA 288 9.22e+00 1qexA b.32.1.1 24425 1cp3A 277 9.36e+00 1pauA c.17.1.1 30992 2sas 185 1.03e+01 2sas a.39.1.5 17258 1qo7A 394 1.04e+01 1qo7A c.69.1.11 34697 1ggzA 148 1.04e+01 a.39.1.5 70176 1n25A 368 1.15e+01 c.37.1.20 85264 1kgdA 180 1.15e+01 c.37.1.1 68582 1uhvA 500 1.16e+01 b.71.1.2 -4683 c.1.8.3 -5354 1a99A 344 1.18e+01 1pot c.94.1.1 35812 2ay1A 394 1.24e+01 1ajsA c.67.1.1 34357 1djqA 729 1.24e+01 2tmdA c.1.4.1 28614 c.3.1.1 30315 c.4.1.1 30600 1o94A 729 1.25e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 2a8vA 118 1.36e+01 1a62 a.140.3.1 64752 b.40.4.5 64753 1a8vA 121 1.36e+01 1a62 a.140.3.1 64712 b.40.4.5 64713 1v2nT 223 1.37e+01 1v2lT 223 1.40e+01 1pmzA 86 1.46e+01 1a8uA 277 1.47e+01 1brt c.69.1.12 34703 1ewrA 649 1.48e+01 1ewqA a.113.1.1 19073 c.37.1.12 32387 c.55.6.1 33744 1fsz 372 1.48e+01 1fsz c.32.1.1 31750 d.79.2.1 39802 1a62 130 1.49e+01 1a62 a.140.3.1 64708 b.40.4.5 64709 1ewqA 765 1.54e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1fw6A 768 1.54e+01 1ewqA a.113.1.1 19071 c.37.1.12 32385 c.55.6.1 33742 d.75.2.1 39745 1o3uA 135 1.59e+01 a.24.16.3 86615 1tawA 223 1.60e+01 5ptp b.47.1.2 25860 1q46A 175 1.60e+01 b.40.4.5 -3935 1v2wT 223 1.63e+01 1hj9A 226 1.63e+01 b.47.1.2 65845 2taaA 478 1.64e+01 7taa b.71.1.1 27780 c.1.8.1 28767 1j8aA 223 1.64e+01 b.47.1.2 62737 1v2rT 223 1.65e+01 1brt 277 1.65e+01 1brt c.69.1.12 34699 1broA 277 1.65e+01 1brt c.69.1.12 34700 1v2qT 223 1.66e+01 1v2oT 223 1.68e+01 1g3dA 228 1.68e+01 5ptp b.47.1.2 25920 7taa 478 1.70e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1v2sT 223 1.71e+01 1bty 229 1.71e+01 5ptp b.47.1.2 25833 2tldE 220 1.75e+01 5ptp b.47.1.2 25881 1ntp 223 1.76e+01 5ptp b.47.1.2 25858 1ehwA 162 1.78e+01 1npk d.58.6.1 39088 1iqpA 327 1.81e+01 a.80.1.1 62649 c.37.1.20 62650 1nf2A 268 1.83e+01 c.108.1.10 -6842 1sdmA 369 1.86e+01 1k4iA 233 1.90e+01 d.115.1.2 72056 2fcr 173 1.97e+01 1rcf c.23.5.1 31151 1f1cA 129 2.00e+01 1e29A a.3.1.1 59569 1tplA 456 2.01e+01 1ax4A c.67.1.2 34387 1lam 484 2.02e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1bfoB 216 2.02e+01 1igtB b.1.1.1 20311 b.1.1.2 21303 1bllE 488 2.03e+01 1lam c.56.5.3 33833 c.50.1.1 33170 1fbtA 190 2.07e+01 1bif c.60.1.4 34004 1c80A 191 2.10e+01 c.60.1.4 83162 1euvA 221 2.10e+01 1euvA d.3.1.7 37133 1apyB 141 2.11e+01 1apyB 1op9A 121 2.12e+01 b.1.1.1 -2315 1iw7D 1524 2.12e+01 e.29.1.2 71475 1i8xA 30 2.12e+01 g.3.16.1 71132 1eybA 471 2.16e+01 1ey2A b.82.1.4 28115 1akjD 120 2.23e+01 1cd8 b.1.1.1 19712 1jh3A 107 2.32e+01 d.66.1.4 71661 1cd8 114 2.35e+01 1cd8 b.1.1.1 19714 1zzzA 237 2.39e+01 5ptp b.47.1.2 25892 1b2wH 220 2.47e+01 1igtB b.1.1.1 20307 b.1.1.2 21299 1flhA 326 2.47e+01 b.50.1.2 65031 1rro 108 2.48e+01 1a75A a.39.1.4 17195 1qrpE 326 2.61e+01 1smrA b.50.1.2 26850 3ladA 476 2.68e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1rfjA 149 2.72e+01 1kxqE 120 2.77e+01 b.1.1.1 73171 1czaN 917 2.79e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 1dgkN 917 2.79e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1qhaA 917 2.82e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1knqA 175 2.82e+01 c.37.1.17 72786 1hkbA 917 2.85e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1eq9A 222 2.87e+01 5ptp b.47.1.2 26068 1f71A 67 2.93e+01 1wdcC a.39.1.5 17289 1e1gA 104 2.94e+01 1b10A d.6.1.1 37310 1ni4B 341 2.95e+01 c.36.1.7 85729 c.48.1.2 85730 1rjqA 496 2.98e+01 b.92.1.6 -5081 b.92.1.6 -5082 c.1.9.11 -5432 2shpA 525 3.01e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1ophB 243 3.03e+01 b.47.1.2 -4131 1yub 245 3.05e+01 2ercA c.66.1.24 34219 1fw4A 71 3.05e+01 1cll a.39.1.5 60056 1utnA 243 3.05e+01 b.47.1.2 -4169 1dwyA 112 3.06e+01 1b10A d.6.1.1 37321 1ahr 146 3.10e+01 1cll a.39.1.5 17287 1cmf 73 3.11e+01 1cll a.39.1.5 17283 1g8iA 190 3.12e+01 1rec a.39.1.5 60363 1mq8A 291 3.15e+01 b.1.1.3 79405 b.1.1.4 79406 1m7jA 484 3.20e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1v4yA 496 3.21e+01 b.92.1.6 -5089 b.92.1.6 -5090 c.1.9.11 -5436 1ogdA 131 3.22e+01 unknown_sccs -8007 1rk6A 496 3.22e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1sedA 117 3.23e+01 1ibcB 88 3.28e+01 1pauB 1j58A 385 3.29e+01 b.82.1.2 71531 1m7xA 617 3.31e+01 b.1.18.2 78749 b.71.1.1 78750 c.1.8.1 78751 1i4mA 108 3.33e+01 d.6.1.1 66025 1e1pA 104 3.33e+01 1b10A d.6.1.1 37307 1hjmA 104 3.33e+01 d.6.1.1 83489 1h0lA 112 3.33e+01 d.6.1.1 76441 1e1uA 104 3.34e+01 1b10A d.6.1.1 37308 1pixA 587 3.36e+01 c.14.1.4 -6282 1qm2A 112 3.41e+01 1b10A d.6.1.1 37315 1vjlA 164 3.44e+01 unknown_sccs -11117 1v7mH 217 3.45e+01 b.1.1.1 -2227 b.1.1.2 -2530 1o6aA 96 3.50e+01 unknown_sccs -4101 1bg3A 918 3.56e+01 1qhaA c.55.1.3 33491 c.55.1.3 33492 c.55.1.3 33493 c.55.1.3 33494 1lf9B 674 3.66e+01 a.102.1.5 77924 b.30.5.5 77925 1lf6A 684 3.66e+01 a.102.1.5 77918 b.30.5.5 77919 1bmqB 88 3.68e+01 1pauB 1f28A 297 3.75e+01 1bkpA d.117.1.1 59608 1uanA 227 3.77e+01 unknown_sccs -8129 1fkcA 142 3.82e+01 1b10A d.6.1.1 37319 1tqcA 102 3.82e+01 1deg 142 3.88e+01 1cll a.39.1.5 17280 1uw3A 106 3.89e+01 d.6.1.1 -8936 1i51A 148 3.90e+01 c.17.1.1 66029 1fpwA 190 3.90e+01 1rec a.39.1.5 17329 1lpfA 477 3.92e+01 1lvl c.3.1.5 30569 c.3.1.5 30570 d.87.1.1 40206 1n8iA 741 3.93e+01 c.1.13.1 80297 1oqpA 77 3.93e+01 a.39.1.5 87319 1qm0A 143 3.94e+01 1b10A d.6.1.1 37317 1pv4A 419 3.97e+01 a.140.3.1 88295 b.40.4.5 88296 c.37.1.11 88297