# List of top-scoring protein chains for T0381.t2k-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 2g7uA 257 8.75e-16 1mkmA 249 7.26e-05 a.4.5.33,d.110.2.2 79242,79243 1o5lA 213 1.52e-02 b.82.3.2 92506 1q1hA 110 2.26e-02 a.4.5.41 95580 1ft9A 222 2.37e-02 1ft9A a.4.5.4,b.82.3.1 16107,28131 1ku9A 152 1.14e-01 a.4.5.36 77544 2dbbA 151 1.47e-01 2fbhA 146 1.95e-01 1qbjA 81 2.25e-01 1qbjA a.4.5.19 16155 2acjA 66 2.28e-01 1qgpA 77 2.37e-01 1qbjA a.4.5.19 16158 1i1gA 141 3.79e-01 a.4.5.32,d.58.4.2 65982,65983 1u2wA 122 5.78e-01 1bia 321 6.32e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1o3sA 200 6.69e-01 a.4.5.4,b.82.3.2 86609,86610 1hw5A 210 7.27e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1i6xA 209 8.32e-01 a.4.5.4,b.82.3.2 83673,83674 1i5zA 209 8.40e-01 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 8.42e-01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1o3tA 200 8.76e-01 a.4.5.4,b.82.3.2 86611,86612 1lj9A 144 9.21e-01 a.4.5.28 78035 2b0lA 102 9.40e-01 1rxtA 496 9.93e-01 1cgpA 205 1.08e+00 a.4.5.4,b.82.3.2 16096,28135 1ruoA 209 1.55e+00 2cgpA a.4.5.4,b.82.3.2 16105,28144 1p6rA 82 1.71e+00 a.4.5.39 94187 1j75A 67 1.85e+00 a.4.5.19 62673 1r22A 122 1.94e+00 a.4.5.5 104777 1vhkA 268 1.98e+00 b.122.1.2,c.116.1.5 100680,100681 2cw8A 537 2.13e+00 1qzzA 374 2.61e+00 a.4.5.29,c.66.1.12 96719,96720 2gauA 232 2.62e+00 2bjcA 62 2.81e+00 2cu8A 76 2.91e+00 1wsuA 124 3.36e+00 1ri7A 171 4.90e+00 a.4.5.32,d.58.4.2 97504,97505 1jekA 42 5.46e+00 1jekA h.3.2.1 62920 1r7jA 95 5.64e+00 a.4.5.49 104836 1s3hA 539 6.21e+00 a.5.7.2,c.1.10.5 105235,105236 1jlwA 219 6.23e+00 a.45.1.1,c.47.1.5 71741,71742 1rqbA 539 6.24e+00 a.5.7.2,c.1.10.5 105057,105058 1u5jA 539 6.34e+00 a.5.7.2,c.1.10.5 107682,107683 1r1tA 122 6.40e+00 a.4.5.5 104769 2cfxA 144 6.75e+00 1t2rA 123 7.34e+00 b.34.14.1 106286 1twfJ 70 8.01e+00 1qwdA 177 8.09e+00 b.60.1.1 96471 1v4rA 102 8.23e+00 1vynA 143 8.45e+00 b.34.14.1 108904 1lvaA 258 8.62e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1bkdS 477 9.05e+00 1bkdS a.117.1.1 19111 1nvvS 481 9.08e+00 a.117.1.1 86279 1xd2C 484 9.12e+00 2cohA 202 9.24e+00 1r9hA 135 9.42e+00 d.26.1.1 97260 2fxaA 207 9.97e+00 1lccA 51 1.02e+01 1pru a.35.1.5 17110 1opc 110 1.03e+01 1opc a.4.6.1 16231 1sfxA 109 1.09e+01 a.4.5.50 105505 1odd 118 1.12e+01 1opc a.4.6.1 16232 1ecl 597 1.12e+01 1ecl e.10.1.1 43238 1mw9X 592 1.12e+01 e.10.1.1 91480 1cy2A 599 1.15e+01 1ecl e.10.1.1 43241 2a61A 145 1.17e+01 1lqc 56 1.18e+01 1pru a.35.1.5 17109 2givA 295 1.25e+01 1ebeA 294 1.25e+01 1ryc a.93.1.1 59406 1z53A 294 1.25e+01 1nzpA 87 1.26e+01 a.60.6.1 92385 1jciA 294 1.26e+01 a.93.1.1 71632 1stqA 294 1.26e+01 a.93.1.1 106008 1mkrA 294 1.26e+01 a.93.1.1 84997 1jdrA 294 1.26e+01 1ryc a.93.1.1 62908 1sogA 294 1.27e+01 a.93.1.1 105844 1krjA 294 1.28e+01 a.93.1.1 68852 7ccp 296 1.29e+01 1ryc a.93.1.1 18624 1l1mA 62 1.30e+01 a.35.1.5 73474 1s6vA 294 1.30e+01 a.93.1.1 98609 1e2xA 243 1.32e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1hw1A 239 1.32e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1timA 247 1.32e+01 1amk c.1.1.1 28453 2f8xC 434 1.35e+01 1cjgA 62 1.38e+01 1pru a.35.1.5 17112 1ulyA 192 1.41e+01 1tw3A 360 1.41e+01 a.4.5.29,c.66.1.12 107373,107374 1xdvA 847 1.46e+01 1ssdA 247 1.46e+01 c.1.1.1 105979 1xd4A 852 1.46e+01 1tpwA 247 1.47e+01 1amk c.1.1.1 28449 1tpvA 247 1.47e+01 1amk c.1.1.1 28443 1tpc1 247 1.47e+01 1amk 1spqA 247 1.48e+01 c.1.1.1 105878 1su5A 247 1.48e+01 c.1.1.1 106020 1tph1 247 1.49e+01 1amk 5ccp 296 1.49e+01 1ryc a.93.1.1 18615 1sq7A 247 1.49e+01 c.1.1.1 105886 1tpb1 247 1.50e+01 1amk 1sw3A 248 1.50e+01 c.1.1.1 106065 1sw7A 248 1.50e+01 c.1.1.1 106073 1htiA 248 1.51e+01 1amk c.1.1.1 28455 1bek 291 1.51e+01 1ryc a.93.1.1 18632 1tpuA 247 1.51e+01 1amk c.1.1.1 28441 1sw0A 248 1.51e+01 c.1.1.1 106060 1wyiA 250 1.52e+01 4ccp 296 1.52e+01 1ryc a.93.1.1 18626 1bem 291 1.54e+01 1ryc a.93.1.1 18635 1ccg 291 1.54e+01 1ryc a.93.1.1 18627 1bj9 291 1.54e+01 1ryc a.93.1.1 18636 1bej 291 1.54e+01 1ryc a.93.1.1 18638 1a2f 291 1.55e+01 1ryc a.93.1.1 18619 1kxnA 289 1.55e+01 a.93.1.1 73157 1ds4A 292 1.55e+01 1ryc a.93.1.1 59129 1ccl 291 1.55e+01 1ryc a.93.1.1 18608 1a2g 291 1.55e+01 1ryc a.93.1.1 18620 1bes 291 1.55e+01 1ryc a.93.1.1 18612 1cck 291 1.56e+01 1ryc a.93.1.1 18622 1kxmA 290 1.56e+01 a.93.1.1 73156 1ccb 297 1.57e+01 1ryc a.93.1.1 18631 1cpg 296 1.57e+01 1ryc a.93.1.1 18628 1ccc 297 1.57e+01 1ryc a.93.1.1 18611 2ccp 296 1.57e+01 1ryc a.93.1.1 18610 2bcnA 296 1.57e+01 1cpe 296 1.57e+01 1ryc a.93.1.1 18623 2cep 296 1.57e+01 1ryc a.93.1.1 18633 2anzA 294 1.57e+01 1dcc 296 1.57e+01 1ryc a.93.1.1 18613 1cca 297 1.57e+01 1ryc a.93.1.1 18602 3ccx 294 1.58e+01 1ryc a.93.1.1 18637 1cmu 294 1.58e+01 1ryc a.93.1.1 18630 2eutA 294 1.58e+01 1rztA 331 1.58e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 1dj5A 291 1.58e+01 1ryc a.93.1.1 18603 4ccx 294 1.58e+01 1ryc a.93.1.1 18606 2bcqA 335 1.59e+01 1ccj 294 1.59e+01 1ryc a.93.1.1 18644 6ccp 296 1.63e+01 1ryc a.93.1.1 18617 1cyf 296 1.63e+01 1ryc a.93.1.1 18641 2c21A 144 1.65e+01 1xsnA 335 1.67e+01 2h6bA 250 1.70e+01 2cw5A 255 1.75e+01 1dseA 292 1.88e+01 1ryc a.93.1.1 59130 1j7gA 144 1.90e+01 c.110.1.1 84130 1bvaA 294 1.94e+01 1ryc a.93.1.1 18604 1dmuA 299 1.94e+01 1dmuA c.52.1.4 33294 2ethA 154 1.95e+01 1rr7A 129 1.98e+01 a.4.1.14 105075 1vexA 56 2.02e+01 1fw1A 216 2.06e+01 a.45.1.1,c.47.1.5 60051,60052 1lvoA 302 2.08e+01 b.47.1.4 74284 2ampA 304 2.08e+01 1v38A 78 2.14e+01 a.60.1.2 100280 2fp4B 395 2.14e+01 1eudB 396 2.14e+01 2scuB c.23.4.1,d.142.1.4 31150,41571 2dboA 148 2.21e+01 1w99A 558 2.39e+01 1zx4A 192 2.46e+01 1rot 149 2.50e+01 1fkj d.26.1.1 38429 1pxgA 382 2.76e+01 c.1.20.1 95287 1mj9A 278 2.80e+01 d.108.1.1 79190 1mjaA 278 2.81e+01 d.108.1.1 79191 1wfpA 74 2.81e+01 1xnpA 202 2.82e+01 1mjbA 278 2.83e+01 d.108.1.1 79192 1fy7A 278 2.85e+01 1fy7A d.108.1.1 40817 1uz5A 402 3.14e+01 b.85.6.1,b.103.1.1,c.57.1.2 100217,100218,100219 1b0nA 111 3.15e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 1g7dA 106 3.16e+01 1g7dA a.71.1.1 18318 1wojA 214 3.17e+01 1r3nA 462 3.24e+01 c.56.5.4,d.58.19.1 96945,96946 1r43A 463 3.24e+01 c.56.5.4,d.58.19.1 96969,96970 1n1aA 140 3.45e+01 d.26.1.1 79797 1v2aA 210 3.47e+01 a.45.1.1,c.47.1.5 100263,100264 1zs4A 83 3.49e+01 1rioH 73 3.49e+01 a.4.13.2 97515 1r2rA 248 3.51e+01 c.1.1.1 96875 1oryA 130 3.66e+01 a.24.19.1 93466 1wjhA 76 3.73e+01 1umqA 81 3.73e+01 a.4.1.12 99625 1orjA 130 3.78e+01 a.24.19.1 93456 1fjlA 81 4.00e+01 2hddA a.4.1.1 16017 1bl0A 129 4.07e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1bh9B 89 4.07e+01 1bh9B a.22.1.3 16485 1u2xA 474 4.14e+01 c.72.1.3 107622 1uxc 65 4.21e+01 1uxc a.35.1.5 17119 1sd6A 123 4.21e+01 a.4.5.39 98803 1ys7A 233 4.22e+01 1xs9A 132 4.25e+01 1kt0A 457 4.25e+01 a.118.8.1,d.26.1.1,d.26.1.1 77525,77526,77527 1u2kA 309 4.26e+01 1v93A 296 4.26e+01 c.1.23.1 100532 1u2jA 326 4.30e+01 1pzxA 289 4.35e+01 c.119.1.1 95484 1okrA 123 4.38e+01 a.4.5.39 93269 1c3rA 375 4.41e+01 1c3pA c.42.1.2 32607 1xmbA 418 4.43e+01 1c3pA 375 4.43e+01 1c3pA c.42.1.2 32606 1j5yA 187 4.55e+01 a.4.5.1,d.94.2.1 71592,71593 1mo0A 275 4.74e+01 c.1.1.1 79329 1bf2 750 4.81e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1wkf 386 4.95e+01 1pud c.1.20.1 29662 1wke 386 4.95e+01 1pud c.1.20.1 29663 1efzA 386 4.95e+01 1pud c.1.20.1 29659 1ozqA 386 4.96e+01 c.1.20.1 93854 1wkd 386 4.98e+01 1pud c.1.20.1 29664 1weiA 225 4.99e+01 a.96.1.2 109339 1y5wA 385 5.01e+01 1kg7A 225 5.02e+01 a.96.1.2 77383 1r5yA 386 5.03e+01 c.1.20.1 97134 1kg6A 225 5.07e+01 a.96.1.2 77382 1kg5A 225 5.08e+01 a.96.1.2 77381 1lpfA 477 5.11e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30569,30570,40206 1kg2A 225 5.14e+01 a.96.1.2 77378 1kqjA 225 5.20e+01 a.96.1.2 72879 2f6iA 215 5.21e+01 1x50A 164 5.24e+01 1p4xA 250 5.37e+01 a.4.5.28,a.4.5.28 87784,87785 1kg4A 225 5.41e+01 a.96.1.2 77380 1mun 225 5.59e+01 1mun a.96.1.2 18744 1nuuA 252 5.59e+01 c.26.1.3 86209 1pbtA 244 5.86e+01 c.124.1.1 94416 1vl1A 232 6.00e+01 c.124.1.1 108707 1a78A 134 6.06e+01 1c1lA b.29.1.3 24212 1r6zA 509 6.08e+01 b.34.14.1,c.94.1.1 97169,97170 487dI 135 6.10e+01 1rl2A i.1.1.2 45836 1zsoA 164 6.17e+01 1wdvA 152 6.17e+01 2b1xB 172 6.21e+01 1rl2A 137 6.24e+01 1rl2A b.34.5.3,b.40.4.5 24610,25342 1vb3A 428 6.38e+01 1sr8A 298 6.39e+01 e.54.1.1 105959 1dh3A 55 6.39e+01 1a02J h.1.3.1 45546 1yqtA 538 6.44e+01 1jx2B 315 6.63e+01 c.37.1.8 67404 2h0uA 217 6.68e+01 1s3jA 155 7.04e+01 a.4.5.28 98437 1ganA 134 7.06e+01 1c1lA b.29.1.3 24214 1lmeA 176 7.07e+01 d.167.1.1 84629 2gm3A 175 7.44e+01 1gs5A 258 7.52e+01 c.73.1.2 70395 1uv0A 149 7.59e+01 d.169.1.1 100028 1b7eA 420 7.77e+01 1b7eA c.55.3.4 33680 1xwrA 97 7.80e+01 1j3uA 468 7.83e+01 a.127.1.1 84078 2eshA 118 7.92e+01 1cghA 224 8.07e+01 1a7s b.47.1.2 26290 2b66D 173 8.13e+01 1yl3D 178 8.32e+01 1kynA 235 8.34e+01 b.47.1.2 73247 1lnwA 147 8.45e+01 a.4.5.28 78104 1ku3A 73 8.51e+01 a.4.13.2 73000 1c9hA 107 8.73e+01 1fkj d.26.1.1 38425 1ryuA 120 8.90e+01 a.4.3.1 105127 2ba1A 179 8.98e+01