# List of top-scoring protein chains for T0359.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 2fneA 117 8.81e-12 1rgrA 99 1.98e-11 b.36.1.1 104931 1um7A 113 2.32e-11 b.36.1.1 99579 1kefA 93 2.36e-11 b.36.1.1 72369 1iu0A 91 3.91e-11 b.36.1.1 83707 1zokA 93 3.94e-11 2fcfA 103 5.28e-11 1d5gA 96 5.53e-11 b.36.1.1 70080 1gm1A 94 5.88e-11 b.36.1.1 70271 1vj6A 102 5.91e-11 2bygA 117 6.34e-11 1tp5A 119 6.45e-11 2fe5A 94 6.46e-11 1whaA 105 8.31e-11 1be9A 119 8.82e-11 1pdr b.36.1.1 24774 1gq5A 91 1.33e-10 b.36.1.1 76274 1gq4A 90 1.38e-10 b.36.1.1 70340 1wf8A 107 1.39e-10 1i92A 91 1.44e-10 1pdr b.36.1.1 61990 1g9oA 91 1.54e-10 1pdr b.36.1.1 60400 1pdr 99 1.57e-10 1pdr b.36.1.1 24771 1qlcA 95 1.64e-10 1qauA b.36.1.1 24776 1wfvA 103 2.21e-10 1x5qA 110 2.60e-10 2dazA 124 3.01e-10 1q7xA 108 3.18e-10 b.36.1.1 96059 1uhpA 107 3.35e-10 b.36.1.1 99400 1oziA 99 3.42e-10 b.36.1.1 93845 1um1A 110 3.73e-10 b.36.1.1 99578 1uewA 114 4.24e-10 b.36.1.1 99281 1uezA 101 4.70e-10 b.36.1.1 99286 1qavA 90 5.36e-10 1qauA b.36.1.1 24777 1z87A 263 5.94e-10 1z86A 87 6.26e-10 2pdzA 86 6.85e-10 1pdr b.36.1.1 24778 1uf1A 128 1.08e-09 b.36.1.1 99288 1ujuA 111 1.13e-09 b.36.1.1 99469 1n7eA 97 1.33e-09 b.36.1.1 91691 1wi2A 104 1.62e-09 1ihjA 98 1.72e-09 1pdr b.36.1.1 62382 1x6dA 119 2.29e-09 1t2mA 101 2.43e-09 1xz9A 101 2.52e-09 2d92A 108 2.80e-09 1q3oA 109 2.98e-09 b.36.1.1 95700 1wg6A 127 3.67e-09 1qavB 115 3.70e-09 1qauA b.36.1.1 24780 1b8qA 127 3.78e-09 1qauA b.36.1.1 24781 1l6oA 95 3.95e-09 b.36.1.1 84534 2f0aA 98 3.96e-09 1qauA 112 4.13e-09 1qauA b.36.1.1 24779 1x5rA 112 5.30e-09 2db5A 128 5.48e-09 2csjA 117 5.60e-09 1ueqA 123 8.02e-09 b.36.1.1 99271 1mc7A 95 8.34e-09 b.36.1.1 91241 1x5nA 114 9.72e-09 1wh1A 124 9.90e-09 1i16 130 1.08e-08 1i16 b.36.1.2 24787 1x8sA 102 1.25e-08 1ry4A 128 1.33e-08 b.36.1.1 98085 1vb7A 94 1.34e-08 b.36.1.1 108474 1rzxA 98 1.41e-08 b.36.1.1 98236 2cssA 121 1.60e-08 1uepA 103 1.64e-08 b.36.1.1 99270 1uitA 117 2.34e-08 b.36.1.1 99433 1wi4A 109 2.37e-08 1p1eA 101 2.42e-08 b.36.1.1 93898 1v5qA 122 2.46e-08 b.36.1.1 108383 1wf7A 103 2.50e-08 2h2bA 107 2.54e-08 2h2cA 107 2.54e-08 1v5lA 103 2.66e-08 b.36.1.1 108378 1nf3C 128 2.75e-08 b.36.1.1 85596 1zubA 114 2.75e-08 1p1dA 196 2.92e-08 b.36.1.1,b.36.1.1 93896,93897 2h3lA 103 3.04e-08 1mfgA 95 3.04e-08 b.36.1.1 79043 2h3mA 97 3.31e-08 1v62A 117 4.06e-08 b.36.1.1 108390 1wfgA 131 4.07e-08 1kwaA 88 4.22e-08 1kwaA b.36.1.1 24772 1rgwA 85 4.36e-08 b.36.1.1 97455 1wjlA 90 4.60e-08 1w9eA 166 4.76e-08 1va8A 113 5.61e-08 1x45A 98 8.46e-08 1ujdA 117 8.93e-08 b.36.1.1 99454 1u37A 89 9.10e-08 1u3bA 185 9.69e-08 2cs5A 119 2.10e-07 1whdA 100 2.86e-07 2f5yA 91 3.25e-07 1ufxA 103 3.37e-07 b.36.1.1 99359 1m5zA 91 7.17e-07 b.36.1.1 78676 1v6bA 118 1.20e-06 b.36.1.1 108394 1ujvA 96 1.25e-06 b.36.1.1 99470 1y7nA 90 2.17e-06 1u39A 80 2.21e-06 1r6jA 82 8.72e-06 b.36.1.1 97151 1wifA 126 1.10e-05 1obxA 79 1.18e-05 b.36.1.1 86783 1fc6A 388 1.26e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 1.78e-05 1fc6A b.36.1.3,c.14.1.2 64742,64743 1vaeA 111 4.37e-05 b.36.1.1 108466 2d8iA 114 2.13e-04 1lcyA 325 1.32e-03 b.36.1.4,b.47.1.1 73834,73835 1ky9A 448 1.89e-03 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 3.56e-03 b.36.1.4,b.47.1.1 105852,105853 1te0A 318 3.56e-03 1sozA 314 3.56e-03 b.36.1.4,b.47.1.1 105859,105860 1y8tA 324 9.99e-02 1wmaA 276 5.10e+00 2bh4X 134 6.40e+00 2bgvX 134 6.54e+00 1lnzA 342 8.44e+00 b.117.1.1,c.37.1.8 78112,78113 1mzvA 235 8.48e+00 c.61.1.1 91502 1qb7A 236 9.14e+00 1qb7A c.61.1.1 34087 1zn8A 180 9.14e+00 1db3A 372 1.02e+01 1db3A c.2.1.2 29813 1nvjA 140 1.06e+01 d.41.5.1 86243 1fm0E 150 1.08e+01 1fmaE d.41.5.1 38629 1ao0A 459 1.13e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1n5dA 288 1.14e+01 c.2.1.2 80030 1gph1 465 1.16e+01 1ecfB 1m54A 363 1.18e+01 c.79.1.1 74463 1bx4A 345 1.43e+01 1bx4A c.72.1.1 34935 1jbqA 435 1.44e+01 1oasA c.79.1.1 62850 1vorL 132 1.76e+01 1nkwI 134 1.93e+01 i.1.1.2 80594 1sw2A 275 1.95e+01 c.94.1.1 106064 1sw5A 275 1.95e+01 c.94.1.1 106069 2d7uA 339 1.99e+01 1mhsA 920 2.25e+01 i.18.1.1 79130 1x6vA 630 2.27e+01 1e6vC 258 2.30e+01 1mroC d.58.31.1 39439 1rfmA 344 2.32e+01 c.122.1.1 97385 1rlw 126 2.32e+01 1rlw b.7.1.1 23177 1hvyA 288 2.38e+01 1bkpA d.117.1.1 41049 1hzwA 290 2.40e+01 1bkpA d.117.1.1 61464 2d4pA 141 2.40e+01 1cot 129 2.40e+01 1ycc a.3.1.1 15899 1ypvA 313 2.46e+01 1bci 138 2.49e+01 1rlw b.7.1.1 23180 1ju6A 313 2.49e+01 d.117.1.1 63289 1hw4A 355 2.79e+01 1bkpA d.117.1.1 41054 1t6t1 118 3.31e+01 1uc2A 481 3.46e+01 d.261.1.1 99161 2a6tA 271 3.58e+01 1jalA 363 3.59e+01 c.37.1.8,d.15.10.2 84138,84139 1bnlA 178 3.63e+01 1koe d.169.1.5 42444 155c 135 3.72e+01 1ycc a.3.1.1 15900 1koe 172 3.85e+01 1koe d.169.1.5 42448 1dy1A 188 3.91e+01 1koe d.169.1.5 42450 1vl8A 267 3.99e+01 c.2.1.2 108733 1dms 781 4.17e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1mkmA 249 4.17e+01 a.4.5.33,d.110.2.2 79242,79243 1repC 251 4.37e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2ewpA 226 4.54e+01 1s9pA 227 4.56e+01 a.123.1.1 105384 1kv6A 230 4.60e+01 a.123.1.1 77546 1t3qB 788 4.70e+01 d.41.1.1,d.133.1.1 106369,106370 1s9qA 251 4.83e+01 a.123.1.1 105388 1tfcA 251 4.83e+01 a.123.1.1 106850 1fn4B 218 4.96e+01 b.1.1.1,b.1.1.2 59886,59887 1rlyA 60 5.14e+01 g.41.3.1 104988 1dl6A 58 5.17e+01 1dl6A g.41.3.1 45207 2h03A 291 5.29e+01 1p99A 295 5.31e+01 c.94.1.1 94384 1wveC 80 5.35e+01 1ot2A 686 5.37e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87396,87397,87398,87399 1kk1A 410 5.37e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1ot1A 686 5.41e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1r13A 148 5.46e+01 d.169.1.1,h.1.1.1 96782,96783 1yg9A 330 5.58e+01 1n2tA 386 5.59e+01 c.67.1.3 79858 2ahsA 295 5.65e+01 1oroA 213 5.66e+01 1opr c.61.1.1 34093 1l1dA 152 5.75e+01 b.88.1.3 73452 1pezA 686 5.79e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94600,94601,94602,94603 1dtuA 686 5.82e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21840,22509,27747,28734 1cgw 686 5.82e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21822,22491,27729,28716 1cdg 686 5.82e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21816,22485,27723,28710 1cgy 686 5.82e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21823,22492,27730,28717 1pj9A 686 5.82e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94754,94755,94756,94757 1cxlA 686 5.83e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1eo5A 686 5.83e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21828,22497,27735,28722 1cgv 686 5.83e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21820,22489,27727,28714 1d3cA 686 5.83e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1kclA 686 5.84e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68445,68446,68447,68448 1kckA 686 5.84e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68441,68442,68443,68444 1cgx 686 5.85e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21832,22501,27739,28726 1tcmA 686 5.85e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21833,22502,27740,28727 2gwnA 452 5.90e+01 1e18A 823 5.92e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 2tsrA 307 5.93e+01 1bkpA d.117.1.1 41043 1e61A 823 5.95e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 1dmr 823 5.96e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 4dmr 823 5.97e+01 1dmr b.52.2.2,c.81.1.1 26905,35313 2ag0A 563 6.04e+01 2bhtA 303 6.13e+01 1ojhA 65 6.24e+01 a.214.1.1 103976 2h04A 313 6.49e+01 1kjyB 36 6.72e+01 2cc0A 195 7.05e+01 2bwfA 77 7.20e+01 1qgc4 438 7.58e+01 1igtB 1i3pA 298 7.67e+01 b.28.1.1 66020 1i3sA 298 7.68e+01 b.28.1.1 66021 1p35A 299 7.83e+01 1p35A b.28.1.1 23925 1i4eA 300 7.84e+01 1p35A b.28.1.1 61685 1s6iA 188 7.86e+01 a.39.1.5 105310 2gasA 307 7.89e+01 1nkqA 259 8.03e+01 d.177.1.1 103862 3pga1 337 8.29e+01 4pgaA 1hgu 191 8.32e+01 1huw a.26.1.1 16837 1x4pA 66 8.43e+01 1yj5C 143 8.55e+01 1d4vB 163 8.68e+01 1d4vB b.22.1.1 23884 2d4oA 141 8.86e+01 1du3D 168 8.86e+01 1d4vB b.22.1.1 23888 1rp0A 284 8.91e+01