# List of top-scoring protein chains for T0340.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 1gq5A 91 5.78e-10 b.36.1.1 76274 1gq4A 90 5.83e-10 b.36.1.1 70340 1g9oA 91 6.29e-10 1pdr b.36.1.1 60400 1i92A 91 6.39e-10 1pdr b.36.1.1 61990 1um7A 113 2.17e-09 b.36.1.1 99579 1tp5A 119 3.59e-09 1be9A 119 4.09e-09 1pdr b.36.1.1 24774 1pdr 99 8.60e-09 1pdr b.36.1.1 24771 2fneA 117 9.82e-09 1rgrA 99 1.39e-08 b.36.1.1 104931 1kefA 93 1.50e-08 b.36.1.1 72369 2fcfA 103 1.58e-08 1wfvA 103 1.69e-08 1x5qA 110 1.94e-08 1iu0A 91 2.17e-08 b.36.1.1 83707 1zokA 93 2.31e-08 1d5gA 96 2.99e-08 b.36.1.1 70080 2fe5A 94 3.37e-08 1uezA 101 3.66e-08 b.36.1.1 99286 1whaA 105 4.25e-08 2bygA 117 4.36e-08 1gm1A 94 4.96e-08 b.36.1.1 70271 1vj6A 102 4.99e-08 1uewA 114 5.16e-08 b.36.1.1 99281 1qlcA 95 6.06e-08 1qauA b.36.1.1 24776 1uf1A 128 7.93e-08 b.36.1.1 99288 1uhpA 107 8.98e-08 b.36.1.1 99400 1x5nA 114 9.30e-08 1wi2A 104 1.20e-07 1q7xA 108 1.24e-07 b.36.1.1 96059 1um1A 110 1.36e-07 b.36.1.1 99578 1vb7A 94 1.47e-07 b.36.1.1 108474 1v5lA 103 1.74e-07 b.36.1.1 108378 1oziA 99 1.82e-07 b.36.1.1 93845 1w9eA 166 2.34e-07 1wf7A 103 2.63e-07 1wf8A 107 2.71e-07 1ujuA 111 2.85e-07 b.36.1.1 99469 1ueqA 123 3.04e-07 b.36.1.1 99271 1q3oA 109 3.14e-07 b.36.1.1 95700 1qavA 90 3.29e-07 1qauA b.36.1.1 24777 1qavB 115 3.53e-07 1qauA b.36.1.1 24780 1qauA 112 3.55e-07 1qauA b.36.1.1 24779 1z86A 87 3.59e-07 1b8qA 127 3.67e-07 1qauA b.36.1.1 24781 2pdzA 86 3.69e-07 1pdr b.36.1.1 24778 1z87A 263 4.63e-07 1ihjA 98 4.63e-07 1pdr b.36.1.1 62382 1rgwA 85 4.70e-07 b.36.1.1 97455 1wjlA 90 4.70e-07 2f5yA 91 6.58e-07 1whdA 100 7.79e-07 1t2mA 101 8.69e-07 1n7eA 97 8.86e-07 b.36.1.1 91691 1xz9A 101 8.86e-07 1wh1A 124 1.07e-06 1x6dA 119 1.28e-06 1mfgA 95 1.35e-06 b.36.1.1 79043 1n7tA 103 1.37e-06 b.36.1.1 80275 1x5rA 112 1.40e-06 1p1eA 101 1.63e-06 b.36.1.1 93898 1uitA 117 1.66e-06 b.36.1.1 99433 1v5qA 122 1.73e-06 b.36.1.1 108383 1uepA 103 2.30e-06 b.36.1.1 99270 1p1dA 196 2.61e-06 b.36.1.1,b.36.1.1 93896,93897 1x8sA 102 2.85e-06 1rzxA 98 2.95e-06 b.36.1.1 98236 1l6oA 95 3.01e-06 b.36.1.1 84534 2f0aA 98 3.03e-06 1ry4A 128 3.07e-06 b.36.1.1 98085 1mc7A 95 3.99e-06 b.36.1.1 91241 1wi4A 109 4.02e-06 1wg6A 127 4.40e-06 1m5zA 91 4.68e-06 b.36.1.1 78676 1nf3C 128 4.78e-06 b.36.1.1 85596 1va8A 113 5.67e-06 1i16 130 6.71e-06 1i16 b.36.1.2 24787 1u37A 89 7.05e-06 1x45A 98 7.17e-06 2csjA 117 7.41e-06 1zubA 114 7.94e-06 2cssA 121 8.50e-06 2cs5A 119 1.08e-05 1u3bA 185 1.08e-05 1kwaA 88 1.25e-05 1kwaA b.36.1.1 24772 1ujdA 117 1.42e-05 b.36.1.1 99454 1fc6A 388 1.42e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1wfgA 131 1.63e-05 1fc9A 388 1.95e-05 1fc6A b.36.1.3,c.14.1.2 64742,64743 1ufxA 103 2.40e-05 b.36.1.1 99359 1v62A 117 2.40e-05 b.36.1.1 108390 1vaeA 111 3.24e-05 b.36.1.1 108466 1y7nA 90 3.47e-05 1u39A 80 3.77e-05 1v6bA 118 3.96e-05 b.36.1.1 108394 1wifA 126 4.23e-05 1ujvA 96 5.59e-05 b.36.1.1 99470 1ky9A 448 1.85e-04 b.36.1.4,b.47.1.1 73198,73199 1lcyA 325 2.09e-04 b.36.1.4,b.47.1.1 73834,73835 1r6jA 82 2.84e-04 b.36.1.1 97151 1obxA 79 3.31e-04 b.36.1.1 86783 1te0A 318 1.05e-03 1sotA 320 1.05e-03 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 1.05e-03 b.36.1.4,b.47.1.1 105859,105860 1y8tA 324 7.71e-03 1ao0A 459 3.25e+00 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 3.30e+00 1ecfB 1bx4A 345 3.56e+00 1bx4A c.72.1.1 34935 2bh4X 134 3.73e+00 2bgvX 134 3.80e+00 1db3A 372 4.34e+00 1db3A c.2.1.2 29813 1e6vC 258 4.97e+00 1mroC d.58.31.1 39439 1lnzA 342 6.31e+00 b.117.1.1,c.37.1.8 78112,78113 1cot 129 8.47e+00 1ycc a.3.1.1 15899 1yb2A 275 9.00e+00 1tis 286 1.07e+01 1bkpA d.117.1.1 41040 1hvyA 288 1.28e+01 1bkpA d.117.1.1 41049 1hzwA 290 1.28e+01 1bkpA d.117.1.1 61464 1ypvA 313 1.31e+01 1ju6A 313 1.32e+01 d.117.1.1 63289 1hw4A 355 1.39e+01 1bkpA d.117.1.1 41054 1m54A 363 1.44e+01 c.79.1.1 74463 1jbqA 435 1.55e+01 1oasA c.79.1.1 62850 1glaG 501 1.62e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1gljO 501 1.62e+01 1glcG c.55.1.4,c.55.1.4 33525,33526 1bu6O 501 1.63e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1d7aA 161 1.70e+01 1qczA c.23.8.1 31277 1qczA 169 1.76e+01 1qczA c.23.8.1 31276 1nkqA 259 2.01e+01 d.177.1.1 103862 1nvjA 140 2.08e+01 d.41.5.1 86243 1uc2A 481 2.12e+01 d.261.1.1 99161 1fm0E 150 2.13e+01 1fmaE d.41.5.1 38629 2ahsA 295 2.14e+01 1xocA 520 2.24e+01 1p99A 295 2.26e+01 c.94.1.1 94384 155c 135 2.32e+01 1ycc a.3.1.1 15900 1dl6A 58 2.40e+01 1dl6A g.41.3.1 45207 1rlyA 60 2.41e+01 g.41.3.1 104988 1r13A 148 2.45e+01 d.169.1.1,h.1.1.1 96782,96783 1bnlA 178 2.49e+01 1koe d.169.1.5 42444 1qveA 126 2.65e+01 d.24.1.1 104594 1hpwA 129 2.67e+01 1hpwA d.24.1.1 61118 1sw2A 275 2.67e+01 c.94.1.1 106064 1sw5A 275 2.68e+01 c.94.1.1 106069 1z60A 59 3.06e+01 1dxrH 258 3.08e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1prcH 259 3.08e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1koe 172 3.46e+01 1koe d.169.1.5 42448 1dy1A 188 3.58e+01 1koe d.169.1.5 42450 1t3qB 788 3.79e+01 d.41.1.1,d.133.1.1 106369,106370 1ovyA 120 3.91e+01 c.55.4.1 93624 1zn8A 180 3.98e+01 1wi9A 72 4.03e+01 1x6cA 118 4.03e+01 2tsrA 307 4.08e+01 1bkpA d.117.1.1 41043 1qw2A 102 4.34e+01 d.249.1.1 96456 1s6iA 188 4.83e+01 a.39.1.5 105310 1mkmA 249 4.92e+01 a.4.5.33,d.110.2.2 79242,79243 1ss3A 50 5.09e+01 g.2.3.1 105975 1ot1A 686 5.12e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87392,87393,87394,87395 1ot2A 686 5.16e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 87396,87397,87398,87399 1q1pA 212 5.19e+01 b.1.6.1,b.1.6.1 95597,95598 1ff5A 219 5.31e+01 1edhA b.1.6.1,b.1.6.1 22202,22203 1edhA 226 5.41e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 1z78A 215 5.46e+01 1za4A 251 5.48e+01 1wkvA 389 5.49e+01 2cbf 234 5.51e+01 1cbf c.90.1.1 35588 2erfA 209 5.78e+01 2ffcA 353 5.91e+01 2guuA 353 5.92e+01 1x6vA 630 6.05e+01 2cw9A 194 6.09e+01 1x4gA 109 6.16e+01 1ix9A 205 6.17e+01 a.2.11.1,d.44.1.1 76899,76900 1fwmA 264 6.25e+01 d.117.1.1 90500 1nceA 264 6.26e+01 d.117.1.1 80401 1suh 146 6.26e+01 1edhA b.1.6.1 22206 1t6t1 118 6.30e+01 1jg0A 264 6.34e+01 d.117.1.1 66659 1aiqA 264 6.37e+01 1bkpA d.117.1.1 40967 1qqqA 264 6.39e+01 1bkpA d.117.1.1 40931 2g8oA 264 6.40e+01 1axwA 265 6.41e+01 1bkpA d.117.1.1 40938 1zprA 264 6.45e+01 1bkpA d.117.1.1 40978 2ftnA 264 6.45e+01 1dnaA 264 6.49e+01 1bkpA d.117.1.1 40956 1tys 265 6.54e+01 1bkpA d.117.1.1 40937 1f4dA 264 6.54e+01 1bkpA d.117.1.1 40972 1i08A 205 6.60e+01 1avmA a.2.11.1,d.44.1.1 15770,38695 1d5nA 205 6.63e+01 1avmA a.2.11.1,d.44.1.1 15762,38687 1en5A 205 6.64e+01 1avmA a.2.11.1,d.44.1.1 59465,59466 1zq9A 285 6.66e+01 1kw4A 89 6.68e+01 a.60.1.2 73077 1dms 781 6.74e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1oroA 213 6.80e+01 1opr c.61.1.1 34093 1cbf 285 7.12e+01 1cbf c.90.1.1 35587 1ev5A 264 7.27e+01 1bkpA d.117.1.1 40935 1evfA 264 7.34e+01 1bkpA d.117.1.1 40932 1z3eA 132 7.41e+01 1ojhA 65 7.43e+01 a.214.1.1 103976 1bq2 264 7.52e+01 1bkpA d.117.1.1 40971 1pnuC 197 7.57e+01 i.1.1.1 88200 1vorF 198 7.64e+01 1l1dA 152 7.64e+01 b.88.1.3 73452 1nwyC 204 7.67e+01 i.1.1.2 86347 1nkwC 205 7.71e+01 i.1.1.2 80588 2fa1A 160 7.80e+01 1dtuA 686 7.81e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21840,22509,27747,28734 1en4A 205 7.82e+01 1avmA a.2.11.1,d.44.1.1 59457,59458 1ev8A 264 7.82e+01 1bkpA d.117.1.1 40989 1e0gA 48 7.84e+01 1e01A d.7.1.1 37325 2g8mA 264 8.21e+01 1eo5A 686 8.57e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21828,22497,27735,28722 1pezA 686 8.58e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94600,94601,94602,94603 1pueE 89 8.59e+01 1awcA a.4.5.21 16165 1cxlA 686 8.60e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21829,22498,27736,28723 1cdg 686 8.61e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21816,22485,27723,28710 1cgw 686 8.61e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21822,22491,27729,28716 1d3cA 686 8.61e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21827,22496,27734,28721 1tcmA 686 8.61e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21833,22502,27740,28727 1kckA 686 8.62e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 68441,68442,68443,68444 1cgv 686 8.62e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21820,22489,27727,28714 1cgy 686 8.62e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21823,22492,27730,28717 1cgx 686 8.62e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21832,22501,27739,28726 1pj9A 686 8.63e+01 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 94754,94755,94756,94757 1z5nA 242 8.84e+01 1jysA 242 8.91e+01 c.56.2.1 77216 1xdnA 277 8.92e+01