# List of top-scoring protein chains for T0288.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 2fneA 117 1.18e-13 1um7A 113 2.36e-13 b.36.1.1 99579 2fcfA 103 3.06e-13 1tp5A 119 4.40e-13 1rgrA 99 4.69e-13 b.36.1.1 104931 1be9A 119 5.38e-13 1pdr b.36.1.1 24774 1zokA 93 6.23e-13 1kefA 93 6.74e-13 b.36.1.1 72369 1iu0A 91 7.55e-13 b.36.1.1 83707 2bygA 117 1.10e-12 1pdr 99 1.31e-12 1pdr b.36.1.1 24771 1d5gA 96 2.19e-12 b.36.1.1 70080 1wfvA 103 2.42e-12 1wi2A 104 2.45e-12 2fe5A 94 2.50e-12 1uf1A 128 2.68e-12 b.36.1.1 99288 1vj6A 102 2.81e-12 1gm1A 94 2.91e-12 b.36.1.1 70271 1z87A 263 3.08e-12 1qavA 90 4.32e-12 1qauA b.36.1.1 24777 1gq5A 91 4.75e-12 b.36.1.1 76274 1i92A 91 5.01e-12 1pdr b.36.1.1 61990 1whaA 105 5.42e-12 1g9oA 91 5.45e-12 1pdr b.36.1.1 60400 1z86A 87 6.05e-12 1uezA 101 6.17e-12 b.36.1.1 99286 2pdzA 86 6.50e-12 1pdr b.36.1.1 24778 1gq4A 90 6.72e-12 b.36.1.1 70340 1qlcA 95 1.02e-11 1qauA b.36.1.1 24776 1wf8A 107 1.60e-11 1uewA 114 1.81e-11 b.36.1.1 99281 1x5qA 110 3.56e-11 1q7xA 108 3.68e-11 b.36.1.1 96059 1ihjA 98 4.23e-11 1pdr b.36.1.1 62382 1uhpA 107 4.61e-11 b.36.1.1 99400 1ujuA 111 5.39e-11 b.36.1.1 99469 1oziA 99 5.66e-11 b.36.1.1 93845 1um1A 110 9.34e-11 b.36.1.1 99578 2csjA 117 1.01e-10 1v5lA 103 1.34e-10 b.36.1.1 108378 1vb7A 94 1.49e-10 b.36.1.1 108474 1q3oA 109 1.74e-10 b.36.1.1 95700 2f0aA 98 1.84e-10 1n7eA 97 1.86e-10 b.36.1.1 91691 1ueqA 123 1.89e-10 b.36.1.1 99271 1l6oA 95 2.09e-10 b.36.1.1 84534 1x6dA 119 2.55e-10 1t2mA 101 2.70e-10 1xz9A 101 3.11e-10 1rgwA 85 4.27e-10 b.36.1.1 97455 1wjlA 90 4.55e-10 1x8sA 102 5.28e-10 1qavB 115 5.38e-10 1qauA b.36.1.1 24780 1b8qA 127 5.58e-10 1qauA b.36.1.1 24781 1ry4A 128 5.61e-10 b.36.1.1 98085 1v62A 117 5.62e-10 b.36.1.1 108390 1mc7A 95 5.76e-10 b.36.1.1 91241 1qauA 112 5.78e-10 1qauA b.36.1.1 24779 1uepA 103 6.18e-10 b.36.1.1 99270 1wg6A 127 6.18e-10 1rzxA 98 6.38e-10 b.36.1.1 98236 1n7tA 103 6.72e-10 b.36.1.1 80275 1x5nA 114 6.82e-10 1mfgA 95 7.06e-10 b.36.1.1 79043 1wf7A 103 7.91e-10 1x5rA 112 9.39e-10 1kwaA 88 1.20e-09 1kwaA b.36.1.1 24772 1w9eA 166 1.64e-09 1va8A 113 1.87e-09 1nf3C 128 1.96e-09 b.36.1.1 85596 2cs5A 119 2.48e-09 1wh1A 124 2.83e-09 1p1dA 196 3.38e-09 b.36.1.1,b.36.1.1 93896,93897 1uitA 117 3.54e-09 b.36.1.1 99433 1wi4A 109 3.76e-09 1u3bA 185 4.43e-09 2cssA 121 4.55e-09 1x45A 98 6.26e-09 1u37A 89 6.35e-09 1zubA 114 7.63e-09 1v5qA 122 8.24e-09 b.36.1.1 108383 1ujdA 117 9.86e-09 b.36.1.1 99454 1p1eA 101 1.10e-08 b.36.1.1 93898 1wfgA 131 1.19e-08 1i16 130 1.33e-08 1i16 b.36.1.2 24787 1m5zA 91 2.63e-08 b.36.1.1 78676 2f5yA 91 3.34e-08 1v6bA 118 8.21e-08 b.36.1.1 108394 1whdA 100 8.22e-08 1ujvA 96 1.34e-07 b.36.1.1 99470 1u39A 80 1.63e-07 1y7nA 90 1.87e-07 1r6jA 82 3.19e-07 b.36.1.1 97151 1obxA 79 4.47e-07 b.36.1.1 86783 1ufxA 103 4.50e-07 b.36.1.1 99359 1wifA 126 3.33e-06 1vaeA 111 3.43e-06 b.36.1.1 108466 1fc6A 388 5.31e-04 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 7.23e-04 1fc6A b.36.1.3,c.14.1.2 64742,64743 1lcyA 325 2.15e-03 b.36.1.4,b.47.1.1 73834,73835 1sotA 320 3.87e-03 b.36.1.4,b.47.1.1 105852,105853 1sozA 314 3.90e-03 b.36.1.4,b.47.1.1 105859,105860 1te0A 318 3.92e-03 1ky9A 448 5.17e-03 b.36.1.4,b.47.1.1 73198,73199 1y8tA 324 1.61e+00 1x6vA 630 2.16e+00 1zn8A 180 5.48e+00 2bh4X 134 5.82e+00 2bgvX 134 6.16e+00 1dms 781 1.07e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1rfmA 344 1.27e+01 c.122.1.1 97385 1db3A 372 1.27e+01 1db3A c.2.1.2 29813 1fm0E 150 1.35e+01 1fmaE d.41.5.1 38629 1mkmA 249 1.36e+01 a.4.5.33,d.110.2.2 79242,79243 1nvjA 140 1.38e+01 d.41.5.1 86243 1kk1A 410 1.41e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1lnzA 342 1.47e+01 b.117.1.1,c.37.1.8 78112,78113 1cot 129 1.75e+01 1ycc a.3.1.1 15899 1cfzA 162 1.92e+01 1cfzA c.56.1.1 33754 1mzvA 235 1.93e+01 c.61.1.1 91502 1kk3A 410 2.16e+01 b.43.3.1,b.44.1.1,c.37.1.8 72640,72641,72642 1e61A 823 2.26e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 4dmr 823 2.26e+01 1dmr b.52.2.2,c.81.1.1 26905,35313 1dmr 823 2.26e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 1e18A 823 2.26e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 1sw2A 275 2.40e+01 c.94.1.1 106064 1sw5A 275 2.41e+01 c.94.1.1 106069 1m54A 363 2.41e+01 c.79.1.1 74463 1jbqA 435 2.64e+01 1oasA c.79.1.1 62850 1j08A 226 2.73e+01 c.47.1.2,c.47.1.2 83855,83856 155c 135 2.75e+01 1ycc a.3.1.1 15900 1yq8A 191 2.75e+01 1a8l 226 2.76e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 2a6tA 271 2.81e+01 1yzxA 226 2.84e+01 1ao0A 459 2.92e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1bvwA 360 2.95e+01 1bvwA c.6.1.1 30668 1gph1 465 2.96e+01 1ecfB 1oc7A 364 2.96e+01 c.6.1.1 86794 1ocjA 362 2.96e+01 c.6.1.1 86801 1gz1A 362 2.96e+01 c.6.1.1 76405 2bvwA 362 2.97e+01 1bvwA c.6.1.1 30666 1wscA 230 2.99e+01 1a6f 119 3.01e+01 1a6f d.14.1.2 37564 1vixA 420 3.05e+01 c.56.5.4,d.58.19.1 100777,100778 1oxxK 353 3.13e+01 b.40.6.3,c.37.1.12 93715,93716 1oxsC 353 3.13e+01 b.40.6.3,c.37.1.12 87519,87520 1repC 251 3.15e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1qb7A 236 3.15e+01 1qb7A c.61.1.1 34087 1e6vC 258 3.18e+01 1mroC d.58.31.1 39439 1jalA 363 3.32e+01 c.37.1.8,d.15.10.2 84138,84139 1kmqA 184 3.52e+01 c.37.1.8 84412 1cc0A 190 3.70e+01 1eesA c.37.1.8 32050 1tx4B 177 3.71e+01 1ctqA c.37.1.8 32045 1xcgB 178 3.71e+01 1z2cA 193 3.72e+01 1ow3B 193 3.75e+01 c.37.1.8 87486 1rtwA 220 3.90e+01 a.132.1.3 97823 1ujoA 144 4.05e+01 a.40.1.1 107900 1wkvA 389 4.11e+01 1wmaA 276 4.30e+01 1lluA 342 4.46e+01 b.35.1.2,c.2.1.1 91064,91065 1kjyB 36 4.46e+01 1yg9A 330 4.58e+01 2bngA 149 4.70e+01 1ylpA 263 5.03e+01 1rlyA 60 5.09e+01 g.41.3.1 104988 1dl6A 58 5.17e+01 1dl6A g.41.3.1 45207 2ag0A 563 5.26e+01 1mhsA 920 5.30e+01 i.18.1.1 79130 1vl8A 267 5.31e+01 c.2.1.2 108733 1n5dA 288 5.37e+01 c.2.1.2 80030 2d4pA 141 5.44e+01 1yljA 263 5.48e+01 1yltA 263 5.54e+01 1ylwA 263 5.56e+01 1csh 435 5.58e+01 1csh a.103.1.1 18880 1al6 437 5.61e+01 1csh a.103.1.1 18885 1qveA 126 5.88e+01 d.24.1.1 104594 1hpwA 129 5.91e+01 1hpwA d.24.1.1 61118 1yj5C 143 6.18e+01 1eu1A 780 6.19e+01 1dmr b.52.2.2,c.81.1.1 26903,35311 1gr0A 367 6.31e+01 c.2.1.3,d.81.1.3 70379,70380 2cc0A 195 6.35e+01 1zm8A 259 6.42e+01 1hkvA 453 6.60e+01 b.49.2.3,c.1.6.1 83559,83560 1cts 437 6.76e+01 1csh a.103.1.1 18897 1eaxA 241 6.77e+01 b.47.1.2 64889 1f60A 458 6.77e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25705,25745,32140 1f28A 297 6.90e+01 1bkpA d.117.1.1 59608 2cts 437 7.14e+01 1csh a.103.1.1 18896 1fn4B 218 7.18e+01 b.1.1.1,b.1.1.2 59886,59887 2brfA 110 7.22e+01 1bnlA 178 7.51e+01 1koe d.169.1.5 42444 1vpqA 273 7.55e+01 1t3qB 788 7.71e+01 d.41.1.1,d.133.1.1 106369,106370 1n2tA 386 7.94e+01 c.67.1.3 79858 1xr6A 460 7.94e+01 2ftcB 136 8.03e+01 2bhtA 303 8.07e+01 1g3qA 237 8.43e+01 1hyqA c.37.1.10 60237 1xe0A 114 8.63e+01 1yjmA 110 8.72e+01 1oroA 213 8.80e+01 1opr c.61.1.1 34093 1bx4A 345 8.83e+01 1bx4A c.72.1.1 34935 1t6t1 118 8.96e+01