# List of top-scoring protein chains for T0340.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 1um7A 113 1.03e-14 b.36.1.1 99579 1g9oA 91 2.89e-14 1pdr b.36.1.1 60400 1i92A 91 3.06e-14 1pdr b.36.1.1 61990 1gq5A 91 3.08e-14 b.36.1.1 76274 1rgrA 99 3.20e-14 b.36.1.1 104931 1gq4A 90 3.62e-14 b.36.1.1 70340 1kefA 93 4.33e-14 b.36.1.1 72369 1iu0A 91 6.45e-14 b.36.1.1 83707 1pdr 99 9.09e-14 1pdr b.36.1.1 24771 1tp5A 119 9.20e-14 1zokA 93 9.49e-14 2bygA 117 9.58e-14 1be9A 119 1.03e-13 1pdr b.36.1.1 24774 2fneA 117 1.43e-13 2fe5A 94 1.72e-13 1d5gA 96 3.25e-13 b.36.1.1 70080 1wfvA 103 3.43e-13 1qlcA 95 5.01e-13 1qauA b.36.1.1 24776 1gm1A 94 5.34e-13 b.36.1.1 70271 1vj6A 102 5.39e-13 1x5qA 110 7.84e-13 1whaA 105 9.76e-13 1wf8A 107 1.15e-12 1uhpA 107 1.53e-12 b.36.1.1 99400 2fcfA 103 1.57e-12 1uezA 101 2.19e-12 b.36.1.1 99286 1qavA 90 4.68e-12 1qauA b.36.1.1 24777 1z87A 263 5.13e-12 1um1A 110 5.53e-12 b.36.1.1 99578 1q7xA 108 6.94e-12 b.36.1.1 96059 1z86A 87 8.04e-12 2pdzA 86 8.41e-12 1pdr b.36.1.1 24778 1oziA 99 1.28e-11 b.36.1.1 93845 1uf1A 128 1.45e-11 b.36.1.1 99288 1uewA 114 1.59e-11 b.36.1.1 99281 1n7eA 97 2.23e-11 b.36.1.1 91691 1wi2A 104 2.67e-11 1ujuA 111 3.33e-11 b.36.1.1 99469 1t2mA 101 3.92e-11 1ueqA 123 4.65e-11 b.36.1.1 99271 1xz9A 101 4.83e-11 2csjA 117 5.26e-11 1uitA 117 7.23e-11 b.36.1.1 99433 1ihjA 98 7.66e-11 1pdr b.36.1.1 62382 1q3oA 109 7.73e-11 b.36.1.1 95700 1v5lA 103 7.95e-11 b.36.1.1 108378 1vb7A 94 8.20e-11 b.36.1.1 108474 1qavB 115 1.16e-10 1qauA b.36.1.1 24780 1b8qA 127 1.20e-10 1qauA b.36.1.1 24781 1m5zA 91 1.64e-10 b.36.1.1 78676 1qauA 112 1.74e-10 1qauA b.36.1.1 24779 1uepA 103 1.79e-10 b.36.1.1 99270 2f0aA 98 2.54e-10 1x5nA 114 2.61e-10 1l6oA 95 2.70e-10 b.36.1.1 84534 1wf7A 103 2.94e-10 1x8sA 102 2.99e-10 1ry4A 128 3.49e-10 b.36.1.1 98085 1w9eA 166 3.59e-10 1rzxA 98 4.06e-10 b.36.1.1 98236 1rgwA 85 4.08e-10 b.36.1.1 97455 1wjlA 90 4.61e-10 1mfgA 95 5.09e-10 b.36.1.1 79043 2f5yA 91 5.19e-10 1wg6A 127 5.29e-10 1n7tA 103 5.38e-10 b.36.1.1 80275 1mc7A 95 6.50e-10 b.36.1.1 91241 1whdA 100 6.91e-10 1x5rA 112 8.48e-10 1x6dA 119 9.12e-10 1i16 130 9.62e-10 1i16 b.36.1.2 24787 1nf3C 128 1.19e-09 b.36.1.1 85596 1v62A 117 1.40e-09 b.36.1.1 108390 1kwaA 88 2.10e-09 1kwaA b.36.1.1 24772 1wh1A 124 2.28e-09 1p1dA 196 2.65e-09 b.36.1.1,b.36.1.1 93896,93897 2cs5A 119 2.82e-09 1ujvA 96 4.52e-09 b.36.1.1 99470 1ujdA 117 4.52e-09 b.36.1.1 99454 1va8A 113 5.07e-09 1wi4A 109 5.98e-09 2cssA 121 6.70e-09 1v5qA 122 7.58e-09 b.36.1.1 108383 1p1eA 101 7.84e-09 b.36.1.1 93898 1wfgA 131 1.37e-08 1zubA 114 2.01e-08 1u3bA 185 2.04e-08 1y7nA 90 3.38e-08 1x45A 98 4.33e-08 1u39A 80 4.41e-08 1u37A 89 4.48e-08 1vaeA 111 7.48e-08 b.36.1.1 108466 1r6jA 82 1.03e-07 b.36.1.1 97151 1v6bA 118 1.37e-07 b.36.1.1 108394 1obxA 79 1.88e-07 b.36.1.1 86783 1ufxA 103 1.94e-07 b.36.1.1 99359 1wifA 126 1.56e-06 1fc6A 388 5.33e-05 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 7.86e-05 1fc6A b.36.1.3,c.14.1.2 64742,64743 1ky9A 448 5.60e-04 b.36.1.4,b.47.1.1 73198,73199 1lcyA 325 7.84e-04 b.36.1.4,b.47.1.1 73834,73835 1te0A 318 1.39e-03 1sotA 320 1.41e-03 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 1.41e-03 b.36.1.4,b.47.1.1 105859,105860 1y8tA 324 3.56e-02 2bh4X 134 1.22e+00 2bgvX 134 1.25e+00 1x6vA 630 3.26e+00 1zn8A 180 3.33e+00 1cot 129 3.91e+00 1ycc a.3.1.1 15899 1lnzA 342 4.00e+00 b.117.1.1,c.37.1.8 78112,78113 155c 135 4.07e+00 1ycc a.3.1.1 15900 1ao0A 459 4.75e+00 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 4.84e+00 1ecfB 1e6vC 258 4.84e+00 1mroC d.58.31.1 39439 1mzvA 235 4.99e+00 c.61.1.1 91502 1db3A 372 6.99e+00 1db3A c.2.1.2 29813 1qb7A 236 7.12e+00 1qb7A c.61.1.1 34087 1bvwA 360 7.52e+00 1bvwA c.6.1.1 30668 1oc7A 364 7.53e+00 c.6.1.1 86794 1gz1A 362 7.54e+00 c.6.1.1 76405 1ocjA 362 7.54e+00 c.6.1.1 86801 2bvwA 362 7.55e+00 1bvwA c.6.1.1 30666 1hvyA 288 8.54e+00 1bkpA d.117.1.1 41049 1hzwA 290 8.57e+00 1bkpA d.117.1.1 61464 1ypvA 313 8.80e+00 1ju6A 313 9.01e+00 d.117.1.1 63289 1hw4A 355 9.28e+00 1bkpA d.117.1.1 41054 1sw5A 275 1.00e+01 c.94.1.1 106069 1sw2A 275 1.00e+01 c.94.1.1 106064 1d7aA 161 1.32e+01 1qczA c.23.8.1 31277 1qczA 169 1.35e+01 1qczA c.23.8.1 31276 2tsrA 307 1.62e+01 1bkpA d.117.1.1 41043 1yb2A 275 1.82e+01 1xe0A 114 2.08e+01 1mkmA 249 2.15e+01 a.4.5.33,d.110.2.2 79242,79243 1qoxA 449 2.34e+01 c.1.8.4 28965 1t3qB 788 2.36e+01 d.41.1.1,d.133.1.1 106369,106370 1tis 286 2.42e+01 1bkpA d.117.1.1 41040 1f28A 297 2.59e+01 1bkpA d.117.1.1 59608 2cucA 70 2.61e+01 1rlw 126 2.65e+01 1rlw b.7.1.1 23177 1wkvA 389 2.75e+01 1bci 138 2.77e+01 1rlw b.7.1.1 23180 2ag0A 563 2.81e+01 1gr0A 367 2.86e+01 c.2.1.3,d.81.1.3 70379,70380 1ymv 129 2.94e+01 3chy c.23.1.1 31045 2a6tA 271 3.10e+01 1m54A 363 3.40e+01 c.79.1.1 74463 2ahsA 295 3.46e+01 1vpqA 273 3.52e+01 1dxrH 258 3.57e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1prcH 259 3.58e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 1yzxA 226 3.59e+01 1qc6A 130 3.73e+01 1evhA b.55.1.4 26998 2ew2A 316 3.74e+01 1jbqA 435 3.77e+01 1oasA c.79.1.1 62850 1ss3A 50 3.96e+01 g.2.3.1 105975 1m3uA 264 3.96e+01 c.1.12.8 84784 1jmg 316 4.21e+01 1bkpA d.117.1.1 41008 2g7gA 213 4.35e+01 2ga5A 123 4.37e+01 1jalA 363 4.38e+01 c.37.1.8,d.15.10.2 84138,84139 1q1pA 212 4.42e+01 b.1.6.1,b.1.6.1 95597,95598 1ff5A 219 4.52e+01 1edhA b.1.6.1,b.1.6.1 22202,22203 1rlyA 60 4.53e+01 g.41.3.1 104988 1yj5C 143 4.53e+01 1dl6A 58 4.59e+01 1dl6A g.41.3.1 45207 1bx4A 345 4.59e+01 1bx4A c.72.1.1 34935 1edhA 226 4.59e+01 1edhA b.1.6.1,b.1.6.1 22198,22199 1ydoA 307 4.92e+01 1yq8A 191 5.04e+01 1jmh 316 5.21e+01 1bkpA d.117.1.1 41009 1x4pA 66 5.42e+01 2covD 104 5.47e+01 1njd 316 5.48e+01 1bkpA d.117.1.1 41004 1bpjA 316 5.54e+01 1bkpA d.117.1.1 40996 1bo8A 316 5.54e+01 1bkpA d.117.1.1 40994 1tsw 316 5.57e+01 1bkpA d.117.1.1 40991 1vze 316 5.65e+01 1bkpA d.117.1.1 41003 1tdb 315 5.69e+01 1bkpA d.117.1.1 41025 1vza 316 5.70e+01 1bkpA d.117.1.1 41017 1nje 316 5.71e+01 1bkpA d.117.1.1 41001 1bp0A 316 5.71e+01 1bkpA d.117.1.1 40993 1bo7A 316 5.74e+01 1bkpA d.117.1.1 40997 1bp6A 316 5.74e+01 1bkpA d.117.1.1 41000 1tsy 316 5.75e+01 1bkpA d.117.1.1 40990 2d7uA 339 5.76e+01 1jmi 316 5.78e+01 1bkpA d.117.1.1 41006 1tsx 316 5.80e+01 1bkpA d.117.1.1 41002 2g8aA 316 5.82e+01 1wscA 230 5.90e+01 2g8dA 316 5.93e+01 1yjmA 110 5.93e+01 2bngA 149 5.94e+01 1tvv 316 6.09e+01 1bkpA d.117.1.1 40998 1vl8A 267 6.14e+01 c.2.1.2 108733 2g86A 316 6.16e+01 1nvjA 140 6.23e+01 d.41.5.1 86243 1fm0E 150 6.24e+01 1fmaE d.41.5.1 38629 1xqzA 300 6.35e+01 1xwsA 313 6.35e+01 1yxtA 293 6.39e+01 2bikB 313 6.42e+01 1kk1A 410 6.45e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1jmf 316 6.47e+01 1bkpA d.117.1.1 41007 1yhsA 273 6.50e+01 1nkqA 259 6.57e+01 d.177.1.1 103862 1q6zA 528 6.65e+01 1pi3A 528 6.66e+01 1ynoA 527 6.67e+01 1bfd 528 6.68e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 2cw8A 537 6.93e+01 1wmaA 276 7.09e+01 1x6cA 118 7.13e+01 1idjA 359 7.19e+01 1qcxA b.80.1.2 28026 1qveA 126 7.41e+01 d.24.1.1 104594 1hpwA 129 7.43e+01 1hpwA d.24.1.1 61118 1s6iA 188 7.44e+01 a.39.1.5 105310 2g89A 316 7.48e+01 2ftcB 136 7.48e+01 1fdr 248 7.50e+01 1fdr b.43.4.2,c.25.1.1 25653,31543 1z60A 59 7.81e+01 1u2wA 122 7.99e+01 1suh 146 8.04e+01 1edhA b.1.6.1 22206 2bbvA 363 8.10e+01 2bbvA b.121.4.4 23323 1rfmA 344 8.13e+01 c.122.1.1 97385 1i3pA 298 8.17e+01 b.28.1.1 66020 1i3sA 298 8.18e+01 b.28.1.1 66021 1p35A 299 8.18e+01 1p35A b.28.1.1 23925 1i4eA 300 8.19e+01 1p35A b.28.1.1 61685 1wveC 80 8.29e+01 2d4pA 141 8.34e+01 2cc0A 195 8.44e+01 1hkvA 453 8.51e+01 b.49.2.3,c.1.6.1 83559,83560 1jx0A 222 8.69e+01 d.36.1.1 71923 1ezvD 245 8.71e+01 1be3D a.3.1.3,f.23.11.1 59546,59547 1kb9D 246 8.73e+01 a.3.1.3,f.23.11.1 77317,77318 1kyoD 248 8.79e+01 a.3.1.3,f.23.11.1 73254,73255 1gljO 501 8.81e+01 1glcG c.55.1.4,c.55.1.4 33525,33526 1e0gA 48 8.81e+01 1e01A d.7.1.1 37325 1glaG 501 8.82e+01 1glcG c.55.1.4,c.55.1.4 33507,33508 1bu6O 501 8.85e+01 1glcG c.55.1.4,c.55.1.4 33499,33500