# List of top-scoring protein chains for T0288.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 2fneA 117 1.86e-12 1rgrA 99 2.39e-12 b.36.1.1 104931 1kefA 93 3.05e-12 b.36.1.1 72369 1zokA 93 4.41e-12 1iu0A 91 4.60e-12 b.36.1.1 83707 2fcfA 103 5.81e-12 1um7A 113 7.49e-12 b.36.1.1 99579 2bygA 117 9.73e-12 2fe5A 94 1.40e-11 1tp5A 119 1.45e-11 1be9A 119 1.72e-11 1pdr b.36.1.1 24774 1wfvA 103 1.82e-11 1pdr 99 3.17e-11 1pdr b.36.1.1 24771 1d5gA 96 3.36e-11 b.36.1.1 70080 1vj6A 102 4.66e-11 1gm1A 94 4.77e-11 b.36.1.1 70271 1z87A 263 4.78e-11 1qlcA 95 4.86e-11 1qauA b.36.1.1 24776 1uf1A 128 5.67e-11 b.36.1.1 99288 1qavA 90 5.94e-11 1qauA b.36.1.1 24777 1gq5A 91 6.53e-11 b.36.1.1 76274 1i92A 91 6.61e-11 1pdr b.36.1.1 61990 1g9oA 91 6.72e-11 1pdr b.36.1.1 60400 1wi2A 104 7.07e-11 1whaA 105 7.78e-11 1z86A 87 7.90e-11 1gq4A 90 8.24e-11 b.36.1.1 70340 2pdzA 86 8.56e-11 1pdr b.36.1.1 24778 1wf8A 107 1.08e-10 1uezA 101 1.22e-10 b.36.1.1 99286 1uewA 114 1.25e-10 b.36.1.1 99281 1uhpA 107 1.84e-10 b.36.1.1 99400 1ujuA 111 2.25e-10 b.36.1.1 99469 1x5qA 110 2.52e-10 2csjA 117 3.67e-10 1ihjA 98 4.27e-10 1pdr b.36.1.1 62382 1q7xA 108 4.32e-10 b.36.1.1 96059 1um1A 110 5.33e-10 b.36.1.1 99578 1oziA 99 6.99e-10 b.36.1.1 93845 1ueqA 123 8.21e-10 b.36.1.1 99271 1n7eA 97 1.03e-09 b.36.1.1 91691 1t2mA 101 1.10e-09 1xz9A 101 1.30e-09 1uepA 103 1.31e-09 b.36.1.1 99270 2f0aA 98 1.33e-09 1l6oA 95 1.45e-09 b.36.1.1 84534 1v5lA 103 1.55e-09 b.36.1.1 108378 1vb7A 94 1.71e-09 b.36.1.1 108474 1q3oA 109 1.96e-09 b.36.1.1 95700 1x6dA 119 2.04e-09 1wg6A 127 2.55e-09 1rgwA 85 2.77e-09 b.36.1.1 97455 1v62A 117 3.01e-09 b.36.1.1 108390 1wjlA 90 3.09e-09 1mfgA 95 3.14e-09 b.36.1.1 79043 1n7tA 103 3.27e-09 b.36.1.1 80275 1wf7A 103 3.46e-09 1b8qA 127 3.83e-09 1qauA b.36.1.1 24781 1qavB 115 3.83e-09 1qauA b.36.1.1 24780 1mc7A 95 3.83e-09 b.36.1.1 91241 1qauA 112 4.33e-09 1qauA b.36.1.1 24779 1x8sA 102 7.52e-09 1x5nA 114 7.66e-09 1ry4A 128 8.09e-09 b.36.1.1 98085 1rzxA 98 9.29e-09 b.36.1.1 98236 1x5rA 112 1.05e-08 2cs5A 119 1.17e-08 1kwaA 88 1.31e-08 1kwaA b.36.1.1 24772 1p1dA 196 1.38e-08 b.36.1.1,b.36.1.1 93896,93897 1va8A 113 1.48e-08 1w9eA 166 1.72e-08 1u3bA 185 1.79e-08 1wh1A 124 1.84e-08 1i16 130 2.25e-08 1i16 b.36.1.2 24787 1wi4A 109 2.34e-08 1nf3C 128 2.43e-08 b.36.1.1 85596 2cssA 121 2.63e-08 1uitA 117 2.76e-08 b.36.1.1 99433 1u37A 89 3.75e-08 1ujdA 117 3.81e-08 b.36.1.1 99454 1x45A 98 3.90e-08 1wfgA 131 4.85e-08 1zubA 114 7.15e-08 1m5zA 91 8.59e-08 b.36.1.1 78676 1v5qA 122 9.41e-08 b.36.1.1 108383 1p1eA 101 1.05e-07 b.36.1.1 93898 2f5yA 91 1.66e-07 1whdA 100 3.42e-07 1v6bA 118 3.48e-07 b.36.1.1 108394 1ujvA 96 4.57e-07 b.36.1.1 99470 1u39A 80 7.33e-07 1y7nA 90 7.73e-07 1r6jA 82 8.99e-07 b.36.1.1 97151 1obxA 79 1.70e-06 b.36.1.1 86783 1ufxA 103 2.03e-06 b.36.1.1 99359 1vaeA 111 1.04e-05 b.36.1.1 108466 1wifA 126 1.49e-05 1fc6A 388 1.46e-03 1fc6A b.36.1.3,c.14.1.2 64738,64739 1fc9A 388 1.98e-03 1fc6A b.36.1.3,c.14.1.2 64742,64743 1sotA 320 3.28e-03 b.36.1.4,b.47.1.1 105852,105853 1lcyA 325 3.28e-03 b.36.1.4,b.47.1.1 73834,73835 1sozA 314 3.29e-03 b.36.1.4,b.47.1.1 105859,105860 1te0A 318 3.31e-03 1ky9A 448 4.37e-03 b.36.1.4,b.47.1.1 73198,73199 1y8tA 324 2.14e+00 1x6vA 630 2.67e+00 2bh4X 134 5.60e+00 2bgvX 134 5.66e+00 1zn8A 180 5.72e+00 1bvwA 360 1.46e+01 1bvwA c.6.1.1 30668 1gz1A 362 1.47e+01 c.6.1.1 76405 1ocjA 362 1.47e+01 c.6.1.1 86801 2bvwA 362 1.47e+01 1bvwA c.6.1.1 30666 1oc7A 364 1.48e+01 c.6.1.1 86794 1mkmA 249 1.52e+01 a.4.5.33,d.110.2.2 79242,79243 1dms 781 1.75e+01 1dmr b.52.2.2,c.81.1.1 26906,35314 1sw2A 275 1.82e+01 c.94.1.1 106064 1sw5A 275 1.82e+01 c.94.1.1 106069 1ao0A 459 1.88e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 1gph1 465 1.90e+01 1ecfB 1cot 129 2.01e+01 1ycc a.3.1.1 15899 1kk1A 410 2.03e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1m54A 363 2.05e+01 c.79.1.1 74463 1db3A 372 2.19e+01 1db3A c.2.1.2 29813 1jbqA 435 2.23e+01 1oasA c.79.1.1 62850 1lnzA 342 2.23e+01 b.117.1.1,c.37.1.8 78112,78113 1fm0E 150 2.29e+01 1fmaE d.41.5.1 38629 1nvjA 140 2.30e+01 d.41.5.1 86243 155c 135 2.37e+01 1ycc a.3.1.1 15900 1j08A 226 2.37e+01 c.47.1.2,c.47.1.2 83855,83856 1a8l 226 2.42e+01 1a8l c.47.1.2,c.47.1.2 32777,32778 1e6vC 258 2.43e+01 1mroC d.58.31.1 39439 1mzvA 235 2.59e+01 c.61.1.1 91502 1yzxA 226 2.77e+01 1a6f 119 2.95e+01 1a6f d.14.1.2 37564 1kk3A 410 3.16e+01 b.43.3.1,b.44.1.1,c.37.1.8 72640,72641,72642 1vixA 420 3.21e+01 c.56.5.4,d.58.19.1 100777,100778 1rfmA 344 3.33e+01 c.122.1.1 97385 1oxxK 353 3.42e+01 b.40.6.3,c.37.1.12 93715,93716 1oxsC 353 3.44e+01 b.40.6.3,c.37.1.12 87519,87520 1dmr 823 3.58e+01 1dmr b.52.2.2,c.81.1.1 26904,35312 4dmr 823 3.58e+01 1dmr b.52.2.2,c.81.1.1 26905,35313 1e61A 823 3.58e+01 1dmr b.52.2.2,c.81.1.1 26908,35316 1e18A 823 3.60e+01 1dmr b.52.2.2,c.81.1.1 26907,35315 1mhsA 920 3.85e+01 i.18.1.1 79130 1repC 251 4.12e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1rtwA 220 4.20e+01 a.132.1.3 97823 1kmqA 184 4.28e+01 c.37.1.8 84412 1wscA 230 4.31e+01 1qb7A 236 4.35e+01 1qb7A c.61.1.1 34087 1tx4B 177 4.36e+01 1ctqA c.37.1.8 32045 1xcgB 178 4.37e+01 1cc0A 190 4.42e+01 1eesA c.37.1.8 32050 1z2cA 193 4.45e+01 1ow3B 193 4.45e+01 c.37.1.8 87486 2a6tA 271 4.47e+01 1wkvA 389 4.57e+01 1jalA 363 4.73e+01 c.37.1.8,d.15.10.2 84138,84139 1yj5C 143 4.76e+01 1yb2A 275 4.77e+01 1kjyB 36 4.78e+01 1rlyA 60 4.95e+01 g.41.3.1 104988 1rlw 126 4.99e+01 1rlw b.7.1.1 23177 1yq8A 191 5.05e+01 1dl6A 58 5.07e+01 1dl6A g.41.3.1 45207 1wmaA 276 5.08e+01 2brfA 110 5.23e+01 1csh 435 5.30e+01 1csh a.103.1.1 18880 1bci 138 5.31e+01 1rlw b.7.1.1 23180 1al6 437 5.34e+01 1csh a.103.1.1 18885 1cfzA 162 5.44e+01 1cfzA c.56.1.1 33754 1vpqA 273 5.64e+01 2d4pA 141 5.68e+01 1qveA 126 5.87e+01 d.24.1.1 104594 1hpwA 129 5.91e+01 1hpwA d.24.1.1 61118 1fn4B 218 5.92e+01 b.1.1.1,b.1.1.2 59886,59887 1t3qB 788 5.97e+01 d.41.1.1,d.133.1.1 106369,106370 2ag0A 563 6.08e+01 2ftcH 148 6.23e+01 1k2pA 263 6.31e+01 d.144.1.7 72012 1g3qA 237 6.34e+01 1hyqA c.37.1.10 60237 1yjmA 110 6.35e+01 1yg9A 330 6.54e+01 2bngA 149 6.61e+01 1ylpA 263 6.66e+01 1zm8A 259 6.81e+01 1cts 437 6.84e+01 1csh a.103.1.1 18897 1yljA 263 7.30e+01 1gr0A 367 7.35e+01 c.2.1.3,d.81.1.3 70379,70380 5pnt 157 7.38e+01 1dg9A c.44.1.1 32641 1yltA 263 7.38e+01 1hvyA 288 7.43e+01 1bkpA d.117.1.1 41049 1hzwA 290 7.44e+01 1bkpA d.117.1.1 61464 1ylwA 263 7.44e+01 1f28A 297 7.48e+01 1bkpA d.117.1.1 59608 2cts 437 7.56e+01 1csh a.103.1.1 18896 1bnlA 178 7.66e+01 1koe d.169.1.5 42444 1ypvA 313 7.67e+01 1ujoA 144 7.70e+01 a.40.1.1 107900 1oroA 213 7.77e+01 1opr c.61.1.1 34093 1ju6A 313 7.83e+01 d.117.1.1 63289 1koe 172 7.87e+01 1koe d.169.1.5 42448 1n5dA 288 7.91e+01 c.2.1.2 80030 1vl8A 267 8.01e+01 c.2.1.2 108733 1dy1A 188 8.04e+01 1koe d.169.1.5 42450 1h67A 108 8.36e+01 a.40.1.1 65643 1hw4A 355 8.39e+01 1bkpA d.117.1.1 41054 1s9pA 227 8.43e+01 a.123.1.1 105384 1kv6A 230 8.49e+01 a.123.1.1 77546 1tis 286 8.57e+01 1bkpA d.117.1.1 41040 1tfcA 251 8.85e+01 a.123.1.1 106850 1vorL 132 8.85e+01 1s9qA 251 8.85e+01 a.123.1.1 105388 2cc0A 195 8.98e+01