# List of top-scoring protein chains for t04-100-30-bys-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.soe.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 1e54A 332 2.26e-29 1e54A f.4.3.1 59258 2fgqX 332 1.02e-28 f.4.3.1 133439 1hxxA 340 3.53e-28 2omf f.4.3.1 61385 2omf 340 4.26e-28 2omf 2j1nA 346 7.89e-28 2por 301 7.15e-09 2por 2porA 301 7.15e-09 f.4.3.1 43759 3prn 289 1.80e-06 3prn 3prnA 289 1.80e-06 f.4.3.1 43761 2o4vA 411 6.49e-06 1prn 289 7.34e-06 3prn 1p4tA 155 2.80e-04 f.4.1.1 87779 1qd6C 240 1.08e-02 1qd5A 1qd5A 275 1.21e-02 1qd5A f.4.2.1 43748 2iwvA 281 1.35e-02 1i78A 297 1.84e-02 f.4.4.1 66046 1po0A 751 1.85e-02 f.4.3.3 94960 1a0tP 413 2.21e-02 1a0tP f.4.3.2 43794 1kmoA 774 5.33e-02 f.4.3.3 72753 2f1cX 286 5.83e-02 2odjA 428 8.30e-02 2gufA 594 1.51e-01 f.4.3.3 135736 1qfgA 725 2.53e-01 1by5A f.4.3.3 43803 2jqyA 280 2.74e-01 3bo5A 290 3.31e-01 2f1vA 197 3.44e-01 2icrA 237 3.49e-01 1qjpA 171 3.52e-01 1bxwA f.4.1.1 43742 1txkA 498 3.93e-01 b.1.18.2,b.30.5.9 107425,107426 2il5A 171 4.66e-01 2mprA 421 4.69e-01 2mprA f.4.3.2 43788 2hdiA 639 6.16e-01 2qv3A 457 6.93e-01 2re9A 181 8.40e-01 1cb8A 678 1.02e+00 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1txnA 328 1.56e+00 d.248.1.1 112779 2eh6A 375 1.67e+00 1t16A 427 1.85e+00 f.4.3.4 106242 1nqeA 594 1.91e+00 f.4.3.3 86027 1hnf 182 2.21e+00 1qa9A 1hnfA 182 2.21e+00 b.1.1.1,b.1.1.3 19741,21680 1qj8A 148 2.24e+00 1qj8A f.4.1.1 43744 1f0cA 305 2.88e+00 1c8oA e.1.1.1 42676 1mu5A 471 3.54e+00 a.156.1.3,d.14.1.3,d.122.1.2 79472,79473,79474 1h5rA 293 4.25e+00 c.68.1.6 65623 1mp4A 292 4.54e+00 c.68.1.6 79376 2i0oA 304 4.65e+00 1tk1A 260 5.25e+00 d.248.1.1 107066 2fbeA 201 5.72e+00 b.29.1.22 133241 1vefA 395 5.78e+00 c.67.1.4 120018 1tv8A 340 6.17e+00 c.1.28.3 107352 2qntA 141 6.38e+00 2ehzA 302 6.74e+00 1yzsA 121 6.97e+00 1lmiA 131 8.13e+00 b.1.19.1 78098 1bbpA 173 8.32e+00 1bbpA b.60.1.1 27147 1mx0A 472 8.32e+00 a.156.1.3,d.14.1.3,d.122.1.2 79618,79619,79620 1xkwA 665 8.58e+00 1y4wA 518 8.67e+00 b.29.1.19,b.67.2.3 116470,116471 2ogrA 229 8.68e+00 1m93B 245 8.99e+00 2b3rA 134 9.09e+00 3cswA 285 9.77e+00 2bjrA 368 1.04e+01 b.169.1.1,b.169.1.1 128628,128629 1yqfA 203 1.13e+01 d.25.1.1 123880 2dj0A 137 1.14e+01 2pb2A 420 1.23e+01 1fnlA 175 1.27e+01 2fcbA b.1.1.4,b.1.1.4 21783,21784 1lkeA 184 1.28e+01 b.60.1.1 84622 3cla 213 1.34e+01 3cla 3claA 213 1.34e+01 c.43.1.1 32610 1kxoA 184 1.39e+01 b.60.1.1 84475 3bn8A 128 1.44e+01 2fb2A 340 1.45e+01 1pyaB 228 1.54e+01 1pyaB 2z5wA 136 1.61e+01 2eenA 183 1.64e+01 1uok 558 1.66e+01 1uok 1uokA 558 1.66e+01 b.71.1.1,c.1.8.1 27801,28788 2hkjA 469 1.67e+01 a.156.1.3,d.14.1.3,d.122.1.2 136553,136554,136555 2d6mA 159 1.80e+01 1mq7A 154 1.93e+01 b.85.4.1 79404 2hx0A 154 1.97e+01 d.290.1.3 136830 1f5fA 205 2.02e+01 1d2sA b.29.1.4 24222 1fxoA 293 2.09e+01 1g0rA c.68.1.6 34524 2aexA 346 2.13e+01 3bgyA 237 2.27e+01 1r1a1 287 2.28e+01 1aym1 2c2iA 151 2.40e+01 d.38.1.4 129670 2zaiA 497 2.61e+01 3cnuA 116 2.62e+01 1lvwA 295 2.74e+01 c.68.1.6 84723 1vi4A 174 2.76e+01 c.8.7.1 100731 1ajoA 214 2.78e+01 1axkA b.29.1.2 24179 1xw3A 110 2.81e+01 2v9kA 530 2.87e+01 1wckA 220 2.89e+01 2mev1 277 3.03e+01 2mev1 2bm3A 166 3.04e+01 b.2.2.2 128762 1k2eA 156 3.14e+01 d.113.1.1 72010 3b9fI 395 3.19e+01 3butA 136 3.19e+01 1fm0E 150 3.27e+01 1fmaE d.41.5.1 38629 1avbA 226 3.27e+01 1led b.29.1.1 24158 1d2sA 170 3.34e+01 1d2sA b.29.1.4 24221 1led 243 3.40e+01 1led 1ledA 243 3.40e+01 b.29.1.1 24039 1zh8A 340 3.48e+01 c.2.1.3,d.81.1.5 125077,125078 1zxzA 197 3.58e+01 1y43B 173 3.58e+01 1gzcA 239 3.61e+01 b.29.1.1 70803 1vpkA 378 3.61e+01 d.131.1.1,d.131.1.1,d.131.1.1 113963,113964,113965 2r7dA 469 3.63e+01 2cxkA 95 3.66e+01 b.1.18.1 131006 1i8aA 189 3.77e+01 1i82A b.1.9.2 61951 1m2oA 768 3.79e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 78480,78481,78482,78483,78484 1c1lA 136 3.90e+01 1c1lA b.29.1.3 24219 1n7vA 555 3.90e+01 b.126.1.1 85377 1upsA 420 3.93e+01 b.29.1.2,b.42.2.3 113394,113395 1st0A 337 3.95e+01 d.13.1.3,d.246.1.1 98979,98980 2j04B 524 3.99e+01 2fs2A 151 4.01e+01 d.38.1.5 134003 2pieA 138 4.01e+01 1e8gA 560 4.07e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1e4fT 419 4.19e+01 1e4fT c.55.1.1,c.55.1.1 33453,33454 2clqA 295 4.21e+01 2cy8A 453 4.29e+01 1f8rA 498 4.35e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1hn0A 1021 4.41e+01 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1rmg 422 4.49e+01 1rmg 1rmgA 422 4.49e+01 b.80.1.3 28029 1gnyA 153 4.49e+01 b.18.1.11 65404 2rk9A 145 4.57e+01 1fx5A 242 4.61e+01 1led b.29.1.1 24135 1fepA 724 4.67e+01 1fepA f.4.3.3 43808 2iciA 227 4.71e+01 1dzkA 157 4.71e+01 1obpA b.60.1.1 27096 2gzqA 200 4.74e+01 1mveA 243 4.82e+01 b.29.1.2 85140 1cqqA 180 4.88e+01 1cqqA b.47.1.4 26422 2ux0A 143 4.90e+01 1ejxC 567 4.92e+01 b.92.1.1,c.1.9.2 83184,83185 2qn6A 414 4.96e+01 1abbA 828 4.97e+01 1a8i c.87.1.4 35536 2p8eA 307 4.99e+01 1q40B 219 4.99e+01 d.17.4.2 95771 2okxA 956 5.06e+01 1fnyA 237 5.07e+01 1led b.29.1.1 59920 1bjnA 360 5.08e+01 1bjnA c.67.1.4 34469 1g5hA 454 5.15e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 3bh7B 352 5.19e+01 1qnxA 209 5.24e+01 1qnxA d.111.1.1 40914 1psuA 140 5.27e+01 d.38.1.5 88285 2od6A 110 5.31e+01 1bkzA 135 5.44e+01 1a3k b.29.1.3 24202 2b59A 187 5.52e+01 b.2.2.2 127879 2a74B 188 5.56e+01 1p57B 255 5.60e+01 b.47.1.2 94126 2aioA 269 5.61e+01 d.157.1.1 126829 2cmwA 310 5.63e+01 1qcsA 211 5.77e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1mup 166 5.80e+01 1mup 1ukgA 252 5.81e+01 b.29.1.1 99489 2omdA 154 5.86e+01 2c5qA 240 5.87e+01 1g0dA 695 5.91e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 60166,60167,60168,60169 1h5uA 842 5.92e+01 1a8i c.87.1.4 60655 2rb8A 104 5.94e+01 1sffA 426 6.02e+01 c.67.1.4 105482 1ajkA 214 6.03e+01 1axkA b.29.1.2 24176 2cxaA 256 6.09e+01 d.108.1.6 130993 1k1xA 659 6.29e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1iktA 120 6.40e+01 d.106.1.1 66188 1q9bA 43 6.67e+01 g.3.1.1 96257 2ol2A 395 6.68e+01 2b9uA 176 6.70e+01 1tq5A 242 6.78e+01 b.82.1.12 119311 1u84A 90 6.79e+01 a.230.1.1 113114 2c1iA 431 6.82e+01 c.6.2.3,d.341.1.1 129636,129637 2psbA 320 6.96e+01 2hbvA 334 7.08e+01 c.1.9.15 136320 1who 96 7.13e+01 1who 1whoA 96 7.13e+01 b.7.3.1 23215 2brjA 188 7.16e+01 2qxlA 658 7.43e+01 1wcdJ 441 7.61e+01 b.121.4.9 120887 2olnA 397 7.64e+01 3co8A 380 7.64e+01 1z8kA 193 7.65e+01 b.159.1.1 124703 1jhjA 171 7.67e+01 b.18.1.9 66714 1dqgA 135 7.69e+01 1dqgA b.42.2.2 25579 2ayh 214 7.69e+01 1axkA 2ayhA 214 7.69e+01 b.29.1.2 24172 2p0wA 324 7.80e+01