# List of top-scoring protein chains for T0359.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 1rgrA 99 9.87e-15 b.36.1.1 104931 2fneA 117 1.16e-14 1kefA 93 1.39e-14 b.36.1.1 72369 1iu0A 91 2.14e-14 b.36.1.1 83707 1zokA 93 3.08e-14 1um7A 113 5.04e-14 b.36.1.1 99579 2bygA 117 5.18e-14 1d5gA 96 7.92e-14 b.36.1.1 70080 2fe5A 94 1.12e-13 1gm1A 94 1.40e-13 b.36.1.1 70271 1vj6A 102 1.40e-13 1tp5A 119 2.08e-13 1be9A 119 2.45e-13 1pdr b.36.1.1 24774 1qlcA 95 3.10e-13 1qauA b.36.1.1 24776 1pdr 99 3.94e-13 1pdr b.36.1.1 24771 1whaA 105 3.99e-13 1wf8A 107 7.09e-13 2fcfA 103 7.69e-13 2dazA 124 8.06e-13 1uhpA 107 8.31e-13 b.36.1.1 99400 1wfvA 103 8.89e-13 1gq4A 90 1.18e-12 b.36.1.1 70340 1gq5A 91 1.20e-12 b.36.1.1 76274 1g9oA 91 1.22e-12 1pdr b.36.1.1 60400 1i92A 91 1.24e-12 1pdr b.36.1.1 61990 1q7xA 108 1.34e-12 b.36.1.1 96059 1um1A 110 1.89e-12 b.36.1.1 99578 1x5qA 110 1.93e-12 1oziA 99 2.79e-12 b.36.1.1 93845 1z87A 263 4.71e-12 2d92A 108 6.07e-12 1qavA 90 6.27e-12 1qauA b.36.1.1 24777 1uewA 114 8.12e-12 b.36.1.1 99281 1z86A 87 8.12e-12 1ujuA 111 8.71e-12 b.36.1.1 99469 2pdzA 86 9.18e-12 1pdr b.36.1.1 24778 1uezA 101 9.81e-12 b.36.1.1 99286 2csjA 117 9.94e-12 1ueqA 123 1.14e-11 b.36.1.1 99271 1ihjA 98 1.55e-11 1pdr b.36.1.1 62382 1t2mA 101 1.64e-11 1xz9A 101 2.00e-11 1uf1A 128 3.34e-11 b.36.1.1 99288 1n7eA 97 4.12e-11 b.36.1.1 91691 1wg6A 127 4.29e-11 2db5A 128 6.44e-11 1uepA 103 6.80e-11 b.36.1.1 99270 2f0aA 98 6.83e-11 1l6oA 95 7.28e-11 b.36.1.1 84534 1mc7A 95 8.57e-11 b.36.1.1 91241 2h2cA 107 1.42e-10 2h2bA 107 1.42e-10 1wi2A 104 1.44e-10 1x5rA 112 1.45e-10 1uitA 117 2.14e-10 b.36.1.1 99433 2h3mA 97 2.28e-10 1x6dA 119 2.40e-10 1b8qA 127 3.25e-10 1qauA b.36.1.1 24781 2h3lA 103 3.26e-10 1qavB 115 3.29e-10 1qauA b.36.1.1 24780 1mfgA 95 3.54e-10 b.36.1.1 79043 1x8sA 102 3.85e-10 1x5nA 114 3.88e-10 1q3oA 109 4.09e-10 b.36.1.1 95700 1ry4A 128 4.43e-10 b.36.1.1 98085 1v5lA 103 4.54e-10 b.36.1.1 108378 1i16 130 4.60e-10 1i16 b.36.1.2 24787 1wh1A 124 4.94e-10 1qauA 112 5.12e-10 1qauA b.36.1.1 24779 1rzxA 98 5.16e-10 b.36.1.1 98236 1vb7A 94 5.64e-10 b.36.1.1 108474 1v62A 117 5.99e-10 b.36.1.1 108390 1v5qA 122 6.58e-10 b.36.1.1 108383 1ujdA 117 7.19e-10 b.36.1.1 99454 1p1dA 196 7.87e-10 b.36.1.1,b.36.1.1 93896,93897 1p1eA 101 8.08e-10 b.36.1.1 93898 1wi4A 109 9.93e-10 2cssA 121 1.00e-09 1rgwA 85 1.36e-09 b.36.1.1 97455 1wf7A 103 1.52e-09 1wjlA 90 1.56e-09 1nf3C 128 1.66e-09 b.36.1.1 85596 1va8A 113 1.68e-09 1m5zA 91 2.30e-09 b.36.1.1 78676 2f5yA 91 2.65e-09 1zubA 114 3.25e-09 1kwaA 88 3.25e-09 1kwaA b.36.1.1 24772 1wfgA 131 4.08e-09 2cs5A 119 4.25e-09 1whdA 100 4.78e-09 1w9eA 166 7.43e-09 1ujvA 96 1.21e-08 b.36.1.1 99470 1u3bA 185 3.19e-08 1x45A 98 6.88e-08 1u37A 89 6.92e-08 1v6bA 118 1.69e-07 b.36.1.1 108394 1ufxA 103 2.84e-07 b.36.1.1 99359 1vaeA 111 4.09e-07 b.36.1.1 108466 1y7nA 90 4.67e-07 1u39A 80 6.90e-07 1wifA 126 8.46e-07 1r6jA 82 2.19e-06 b.36.1.1 97151 1obxA 79 4.46e-06 b.36.1.1 86783 2d8iA 114 5.20e-05 1lcyA 325 9.42e-04 b.36.1.4,b.47.1.1 73834,73835 1fc6A 388 2.09e-03 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 3.02e-03 1fc6A b.36.1.3,c.14.1.2 64742,64743 1ky9A 448 1.30e-02 b.36.1.4,b.47.1.1 73198,73199 1sotA 320 2.03e-02 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 2.04e-02 b.36.1.4,b.47.1.1 105859,105860 1te0A 318 2.04e-02 1mzvA 235 2.16e+00 c.61.1.1 91502 2bh4X 134 2.43e+00 2bgvX 134 2.47e+00 1x6vA 630 2.74e+00 1y8tA 324 2.82e+00 1qb7A 236 3.28e+00 1qb7A c.61.1.1 34087 2a6tA 271 3.28e+00 1zn8A 180 4.66e+00 1u2wA 122 6.04e+00 1cot 129 6.98e+00 1ycc a.3.1.1 15899 1m54A 363 8.10e+00 c.79.1.1 74463 1jbqA 435 8.88e+00 1oasA c.79.1.1 62850 1wmaA 276 9.72e+00 1mkmA 249 9.88e+00 a.4.5.33,d.110.2.2 79242,79243 1bvwA 360 1.08e+01 1bvwA c.6.1.1 30668 1ocjA 362 1.09e+01 c.6.1.1 86801 2bvwA 362 1.09e+01 1bvwA c.6.1.1 30666 1gz1A 362 1.09e+01 c.6.1.1 76405 1yg9A 330 1.09e+01 1oc7A 364 1.09e+01 c.6.1.1 86794 1jalA 363 1.32e+01 c.37.1.8,d.15.10.2 84138,84139 2ewpA 226 1.69e+01 1s9pA 227 1.69e+01 a.123.1.1 105384 1kv6A 230 1.71e+01 a.123.1.1 77546 1lnzA 342 1.72e+01 b.117.1.1,c.37.1.8 78112,78113 1tfcA 251 1.76e+01 a.123.1.1 106850 1s9qA 251 1.77e+01 a.123.1.1 105388 1fm0E 150 1.85e+01 1fmaE d.41.5.1 38629 1nvjA 140 1.85e+01 d.41.5.1 86243 1kk1A 410 1.90e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1kjyB 36 1.91e+01 1n5dA 288 1.95e+01 c.2.1.2 80030 1hvyA 288 2.02e+01 1bkpA d.117.1.1 41049 1hzwA 290 2.03e+01 1bkpA d.117.1.1 61464 1ypvA 313 2.10e+01 1ju6A 313 2.17e+01 d.117.1.1 63289 1ao0A 459 2.23e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1db3A 372 2.23e+01 1db3A c.2.1.2 29813 1gph1 465 2.25e+01 1ecfB 1hw4A 355 2.27e+01 1bkpA d.117.1.1 41054 1eaxA 241 2.42e+01 b.47.1.2 64889 1yj5C 143 2.44e+01 1gr0A 367 2.74e+01 c.2.1.3,d.81.1.3 70379,70380 155c 135 2.85e+01 1ycc a.3.1.1 15900 1kk3A 410 3.08e+01 b.43.3.1,b.44.1.1,c.37.1.8 72640,72641,72642 1yjmA 110 3.14e+01 1usyE 208 3.27e+01 1o63A 219 3.28e+01 c.94.1.1 92540 1oroA 213 3.34e+01 1opr c.61.1.1 34093 1mhsA 920 3.41e+01 i.18.1.1 79130 2gasA 307 3.45e+01 1sw2A 275 3.50e+01 c.94.1.1 106064 1sw5A 275 3.51e+01 c.94.1.1 106069 1r61A 207 3.72e+01 c.8.8.1 97138 1bx4A 345 3.83e+01 1bx4A c.72.1.1 34935 2tsrA 307 3.94e+01 1bkpA d.117.1.1 41043 1rfmA 344 4.44e+01 c.122.1.1 97385 1f28A 297 4.60e+01 1bkpA d.117.1.1 59608 1x4pA 66 4.70e+01 1tis 286 4.73e+01 1bkpA d.117.1.1 41040 1e6vC 258 4.78e+01 1mroC d.58.31.1 39439 1a98A 152 5.05e+01 1nulA c.61.1.1 34021 1a97A 148 5.12e+01 1nulA c.61.1.1 34023 1nulA 152 5.36e+01 1nulA c.61.1.1 34011 1vjjA 692 5.80e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1rleA 692 5.80e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 97638,97639,97640,97641 1usyH 208 5.92e+01 1xe0A 114 5.95e+01 2d7uA 339 6.03e+01 3pga1 337 6.04e+01 4pgaA 2ftcH 148 6.11e+01 1t3qB 788 6.16e+01 d.41.1.1,d.133.1.1 106369,106370 1vpqA 273 6.36e+01 1rlyA 60 6.37e+01 g.41.3.1 104988 1dl6A 58 6.43e+01 1dl6A g.41.3.1 45207 2ag0A 563 6.45e+01 1ujxA 119 6.46e+01 b.26.1.2 99473 1xo5A 183 6.61e+01 1djpA 330 6.67e+01 4pgaA c.88.1.1 35567 2d4pA 141 6.75e+01 1rlw 126 6.84e+01 1rlw b.7.1.1 23177 1jx0A 222 7.00e+01 d.36.1.1 71923 4pgaA 337 7.07e+01 4pgaA c.88.1.1 35565 1bci 138 7.21e+01 1rlw b.7.1.1 23180 1vixA 420 7.23e+01 c.56.5.4,d.58.19.1 100777,100778 1wkvA 389 7.47e+01 1dxrH 258 7.58e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1prcH 259 7.60e+01 6prcH b.41.1.1,f.23.10.1 25460,43445 2cts 437 8.00e+01 1csh a.103.1.1 18896 1yb2A 275 8.03e+01 1repC 251 8.47e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2bhtA 303 8.53e+01