# List of top-scoring protein chains for T0340.t06-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 1um7A 113 2.36e-15 b.36.1.1 99579 1rgrA 99 8.17e-15 b.36.1.1 104931 1gq5A 91 8.63e-15 b.36.1.1 76274 1i92A 91 8.91e-15 1pdr b.36.1.1 61990 1g9oA 91 9.14e-15 1pdr b.36.1.1 60400 1gq4A 90 9.84e-15 b.36.1.1 70340 1kefA 93 1.19e-14 b.36.1.1 72369 1iu0A 91 1.68e-14 b.36.1.1 83707 1zokA 93 2.19e-14 2fneA 117 2.22e-14 1tp5A 119 2.32e-14 1pdr 99 2.38e-14 1pdr b.36.1.1 24771 1be9A 119 2.62e-14 1pdr b.36.1.1 24774 1x5qA 110 4.05e-14 1wfvA 103 4.13e-14 2bygA 117 5.87e-14 1d5gA 96 6.77e-14 b.36.1.1 70080 1gm1A 94 1.21e-13 b.36.1.1 70271 1vj6A 102 1.21e-13 2fe5A 94 1.33e-13 1whaA 105 2.65e-13 2fcfA 103 3.27e-13 1wf8A 107 3.85e-13 1qlcA 95 4.07e-13 1qauA b.36.1.1 24776 1uhpA 107 5.42e-13 b.36.1.1 99400 1uezA 101 5.74e-13 b.36.1.1 99286 1uewA 114 1.26e-12 b.36.1.1 99281 1um1A 110 1.48e-12 b.36.1.1 99578 1qavA 90 1.70e-12 1qauA b.36.1.1 24777 1q7xA 108 1.91e-12 b.36.1.1 96059 1z87A 263 2.23e-12 1uf1A 128 2.68e-12 b.36.1.1 99288 1z86A 87 2.81e-12 2pdzA 86 2.89e-12 1pdr b.36.1.1 24778 1oziA 99 3.51e-12 b.36.1.1 93845 1ueqA 123 4.33e-12 b.36.1.1 99271 1n7eA 97 7.78e-12 b.36.1.1 91691 1wi2A 104 8.24e-12 1ujuA 111 8.48e-12 b.36.1.1 99469 1t2mA 101 1.33e-11 1vb7A 94 1.43e-11 b.36.1.1 108474 1b8qA 127 1.54e-11 1qauA b.36.1.1 24781 1qavB 115 1.54e-11 1qauA b.36.1.1 24780 1xz9A 101 1.56e-11 1v5lA 103 1.70e-11 b.36.1.1 108378 1q3oA 109 1.95e-11 b.36.1.1 95700 1qauA 112 2.35e-11 1qauA b.36.1.1 24779 2csjA 117 2.99e-11 1uitA 117 3.37e-11 b.36.1.1 99433 1uepA 103 3.43e-11 b.36.1.1 99270 1ihjA 98 3.54e-11 1pdr b.36.1.1 62382 1wf7A 103 3.75e-11 1rgwA 85 5.82e-11 b.36.1.1 97455 1x5nA 114 5.84e-11 1m5zA 91 5.97e-11 b.36.1.1 78676 1wjlA 90 6.43e-11 1x8sA 102 7.26e-11 2f0aA 98 7.53e-11 1l6oA 95 7.64e-11 b.36.1.1 84534 1wg6A 127 8.43e-11 1ry4A 128 8.53e-11 b.36.1.1 98085 1x5rA 112 8.85e-11 1rzxA 98 9.70e-11 b.36.1.1 98236 1w9eA 166 1.04e-10 2f5yA 91 1.06e-10 1mc7A 95 1.10e-10 b.36.1.1 91241 1x6dA 119 1.37e-10 1wh1A 124 1.65e-10 1mfgA 95 1.66e-10 b.36.1.1 79043 1n7tA 103 1.80e-10 b.36.1.1 80275 1whdA 100 2.20e-10 1kwaA 88 2.56e-10 1kwaA b.36.1.1 24772 1i16 130 2.68e-10 1i16 b.36.1.2 24787 1v5qA 122 3.66e-10 b.36.1.1 108383 1v62A 117 4.22e-10 b.36.1.1 108390 1nf3C 128 4.45e-10 b.36.1.1 85596 1p1eA 101 4.65e-10 b.36.1.1 93898 2cs5A 119 5.09e-10 1p1dA 196 6.98e-10 b.36.1.1,b.36.1.1 93896,93897 1wi4A 109 1.04e-09 1va8A 113 1.07e-09 1ujvA 96 1.45e-09 b.36.1.1 99470 1u3bA 185 1.74e-09 2cssA 121 2.95e-09 1ujdA 117 3.87e-09 b.36.1.1 99454 1u37A 89 4.89e-09 1x45A 98 5.02e-09 1wfgA 131 6.78e-09 1y7nA 90 8.59e-09 1zubA 114 1.03e-08 1u39A 80 1.13e-08 1vaeA 111 1.52e-08 b.36.1.1 108466 1r6jA 82 2.12e-08 b.36.1.1 97151 1ufxA 103 2.70e-08 b.36.1.1 99359 1obxA 79 4.07e-08 b.36.1.1 86783 1v6bA 118 6.65e-08 b.36.1.1 108394 1wifA 126 6.77e-08 1fc6A 388 6.26e-06 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 9.30e-06 1fc6A b.36.1.3,c.14.1.2 64742,64743 1ky9A 448 1.33e-04 b.36.1.4,b.47.1.1 73198,73199 1lcyA 325 2.71e-04 b.36.1.4,b.47.1.1 73834,73835 1sotA 320 7.23e-04 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 7.25e-04 b.36.1.4,b.47.1.1 105859,105860 1te0A 318 7.27e-04 1y8tA 324 5.83e-03 2bh4X 134 1.13e+00 2bgvX 134 1.23e+00 1hvyA 288 2.26e+00 1bkpA d.117.1.1 41049 1hzwA 290 2.28e+00 1bkpA d.117.1.1 61464 1ypvA 313 2.35e+00 1ju6A 313 2.46e+00 d.117.1.1 63289 1hw4A 355 2.52e+00 1bkpA d.117.1.1 41054 1ao0A 459 2.55e+00 1ecfB c.61.1.1,d.153.1.1 34049,41816 1zn8A 180 2.56e+00 1gph1 465 2.56e+00 1ecfB 1x6vA 630 2.61e+00 1db3A 372 2.75e+00 1db3A c.2.1.2 29813 1lnzA 342 3.52e+00 b.117.1.1,c.37.1.8 78112,78113 1cot 129 4.23e+00 1ycc a.3.1.1 15899 1bx4A 345 4.84e+00 1bx4A c.72.1.1 34935 155c 135 5.38e+00 1ycc a.3.1.1 15900 1e6vC 258 5.41e+00 1mroC d.58.31.1 39439 1mzvA 235 5.42e+00 c.61.1.1 91502 2tsrA 307 5.48e+00 1bkpA d.117.1.1 41043 1f28A 297 7.27e+00 1bkpA d.117.1.1 59608 1mkmA 249 8.11e+00 a.4.5.33,d.110.2.2 79242,79243 1qb7A 236 9.13e+00 1qb7A c.61.1.1 34087 1bvwA 360 1.33e+01 1bvwA c.6.1.1 30668 2bvwA 362 1.33e+01 1bvwA c.6.1.1 30666 1gz1A 362 1.33e+01 c.6.1.1 76405 1ocjA 362 1.33e+01 c.6.1.1 86801 1oc7A 364 1.33e+01 c.6.1.1 86794 2cucA 70 1.60e+01 1hkvA 453 1.68e+01 b.49.2.3,c.1.6.1 83559,83560 1d7aA 161 1.78e+01 1qczA c.23.8.1 31277 1qczA 169 1.84e+01 1qczA c.23.8.1 31276 1vpqA 273 1.91e+01 1sw5A 275 2.40e+01 c.94.1.1 106069 1sw2A 275 2.40e+01 c.94.1.1 106064 2ew2A 316 2.49e+01 1wkvA 389 2.63e+01 1t3qB 788 2.72e+01 d.41.1.1,d.133.1.1 106369,106370 1tis 286 2.74e+01 1bkpA d.117.1.1 41040 1jalA 363 2.80e+01 c.37.1.8,d.15.10.2 84138,84139 1yb2A 275 2.88e+01 2a6tA 271 3.01e+01 1jmh 316 3.14e+01 1bkpA d.117.1.1 41009 1jmg 316 3.29e+01 1bkpA d.117.1.1 41008 2ahsA 295 3.38e+01 1s6iA 188 3.55e+01 a.39.1.5 105310 1fm0E 150 3.56e+01 1fmaE d.41.5.1 38629 1csp 67 3.56e+01 1mjc b.40.4.5 25321 1nvjA 140 3.57e+01 d.41.5.1 86243 1rfmA 344 3.84e+01 c.122.1.1 97385 1m54A 363 3.86e+01 c.79.1.1 74463 1tvv 316 3.91e+01 1bkpA d.117.1.1 40998 2d7uA 339 3.93e+01 1rlyA 60 3.94e+01 g.41.3.1 104988 1dl6A 58 4.00e+01 1dl6A g.41.3.1 45207 1i3pA 298 4.07e+01 b.28.1.1 66020 1p35A 299 4.07e+01 1p35A b.28.1.1 23925 1i3sA 298 4.07e+01 b.28.1.1 66021 1i4eA 300 4.08e+01 1p35A b.28.1.1 61685 2bngA 149 4.10e+01 1wmaA 276 4.13e+01 1m3uA 264 4.26e+01 c.1.12.8 84784 1q1pA 212 4.35e+01 b.1.6.1,b.1.6.1 95597,95598 1yxtA 293 4.38e+01 1xqzA 300 4.39e+01 1wscA 230 4.43e+01 1xwsA 313 4.44e+01 1ff5A 219 4.46e+01 1edhA b.1.6.1,b.1.6.1 22202,22203 2cw8A 537 4.48e+01 1yhsA 273 4.49e+01 2bikB 313 4.52e+01 1edhA 226 4.53e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 1jbqA 435 4.55e+01 1oasA c.79.1.1 62850 1jmi 316 4.63e+01 1bkpA d.117.1.1 41006 1jmf 316 4.69e+01 1bkpA d.117.1.1 41007 1bo8A 316 4.73e+01 1bkpA d.117.1.1 40994 1vze 316 4.73e+01 1bkpA d.117.1.1 41003 1tsw 316 4.74e+01 1bkpA d.117.1.1 40991 1bpjA 316 4.76e+01 1bkpA d.117.1.1 40996 1vza 316 4.76e+01 1bkpA d.117.1.1 41017 1yg9A 330 4.76e+01 1tdb 315 4.77e+01 1bkpA d.117.1.1 41025 1bp0A 316 4.79e+01 1bkpA d.117.1.1 40993 1nje 316 4.80e+01 1bkpA d.117.1.1 41001 1njd 316 4.82e+01 1bkpA d.117.1.1 41004 1tsy 316 4.83e+01 1bkpA d.117.1.1 40990 1bp6A 316 4.83e+01 1bkpA d.117.1.1 41000 1bo7A 316 4.84e+01 1bkpA d.117.1.1 40997 2ag0A 563 4.86e+01 1qoxA 449 4.88e+01 c.1.8.4 28965 1tsx 316 4.89e+01 1bkpA d.117.1.1 41002 2g8dA 316 4.94e+01 2g8aA 316 5.00e+01 2g86A 316 5.16e+01 2ga5A 123 5.63e+01 1xe0A 114 5.69e+01 1yzxA 226 5.91e+01 1vl8A 267 5.97e+01 c.2.1.2 108733 2g89A 316 6.08e+01 1dxrH 258 6.26e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1ymv 129 6.27e+01 3chy c.23.1.1 31045 1prcH 259 6.27e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1dms 781 6.30e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 2faoA 309 6.57e+01 1oroA 213 6.61e+01 1opr c.61.1.1 34093 1q6zA 528 6.69e+01 1pi3A 528 6.71e+01 1ynoA 527 6.72e+01 1bfd 528 6.73e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1nw9B 277 6.74e+01 c.17.1.1 86294 1jxqA 284 6.76e+01 c.17.1.1 67426 1z60A 59 7.05e+01 1yj5C 143 7.27e+01 1wxxA 382 7.30e+01 1l1dA 152 7.42e+01 b.88.1.3 73452 1x6cA 118 7.51e+01 2ar9A 278 7.74e+01 1suh 146 7.97e+01 1edhA b.1.6.1 22206 1nkqA 259 8.10e+01 d.177.1.1 103862 1u2wA 122 8.46e+01 1n5dA 288 8.46e+01 c.2.1.2 80030 1rlw 126 8.56e+01 1rlw b.7.1.1 23177 1kk1A 410 8.62e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1ydoA 307 8.64e+01 1qc6A 130 8.87e+01 1evhA b.55.1.4 26998 1bci 138 8.90e+01 1rlw b.7.1.1 23180