# List of top-scoring protein chains for T0292.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 1zmuA 327 4.03e-40 1zmvA 327 7.62e-40 1y8gA 327 1.12e-39 2fh9A 274 1.88e-39 1vywA 309 2.49e-39 d.144.1.7 108922 1oiuA 302 2.53e-39 d.144.1.7 103958 1h1rA 303 2.53e-39 d.144.1.7 76489 1gz8A 299 2.87e-39 d.144.1.7 83405 1w98A 298 2.88e-39 1qmzA 299 2.88e-39 1hcl d.144.1.7 41604 1pkdA 297 2.88e-39 d.144.1.7 88141 1jvpP 298 3.24e-39 d.144.1.7 67371 2eueA 275 3.69e-39 1giiA 298 3.71e-39 d.144.1.7 65218 1oitA 299 3.81e-39 d.144.1.7 93075 1a06 332 3.85e-39 1tkiA d.144.1.7 41634 1fotA 318 7.12e-39 1cdkA d.144.1.7 59938 1gzkA 315 8.33e-39 d.144.1.7 83406 1o6lA 337 8.63e-39 d.144.1.7 81092 1gznA 335 8.66e-39 d.144.1.7 83407 1o6kA 336 8.67e-39 d.144.1.7 81091 1mryA 339 8.74e-39 d.144.1.7 91451 1cdkA 350 2.19e-38 1cdkA d.144.1.7 41620 1xh9A 350 2.19e-38 1cmkE 351 2.19e-38 1cdkA d.144.1.7 41623 1q61A 350 2.34e-38 d.144.1.7 95955 1ctpE 350 2.35e-38 1cdkA d.144.1.7 41622 1ol5A 282 2.99e-38 d.144.1.7 93310 1mq4A 272 3.02e-38 d.144.1.7 91391 1muoA 297 3.08e-38 d.144.1.7 85110 1xh8A 350 3.76e-38 2c1aA 351 3.77e-38 2c6dA 275 4.52e-38 2c6eA 283 4.57e-38 1smhA 350 5.01e-38 d.144.1.7 105757 2bdwA 362 5.04e-38 1ydrE 350 5.10e-38 1cdkA d.144.1.7 41624 1q62A 350 5.36e-38 d.144.1.7 95956 2bmcA 306 6.43e-38 1ol6A 282 7.93e-38 d.144.1.7 93311 1jbpE 350 8.38e-38 1cdkA d.144.1.7 62849 1l3rE 350 8.88e-38 d.144.1.7 73552 2erzE 351 8.88e-38 1apmE 350 1.46e-37 1cdkA d.144.1.7 41628 1yhwA 297 1.58e-37 1sykA 350 1.63e-37 1u7eA 350 1.72e-37 2bfxA 284 2.46e-37 1yhvA 297 2.51e-37 2bfyA 284 2.96e-37 1xjdA 345 3.44e-37 1rdqE 350 5.79e-37 d.144.1.7 97314 1v0oA 288 7.33e-37 d.144.1.7 100243 1v0bA 288 8.08e-37 d.144.1.7 100241 1ql6A 298 8.77e-37 1cdkA d.144.1.7 41636 1ob3A 288 9.06e-37 d.144.1.7 92747 1phk 298 1.15e-36 1cdkA d.144.1.7 41635 2phkA 277 1.64e-36 1cdkA d.144.1.7 41637 1zrzA 364 2.94e-36 2f57A 317 3.05e-36 1h4lA 292 3.78e-36 d.144.1.7 70871 1unlA 292 4.52e-36 2bvaA 292 4.55e-36 2cdzA 303 4.62e-36 1uu9A 286 5.21e-36 d.144.1.7 100002 1z5mA 286 5.22e-36 1h1wA 289 5.22e-36 d.144.1.7 83460 1uu3A 310 5.24e-36 d.144.1.7 99999 2biyA 310 6.88e-36 1ua2A 346 7.63e-36 1p4fA 293 1.07e-35 d.144.1.7 104063 1jksA 294 1.07e-35 d.144.1.7 71710 2c30A 321 1.09e-35 1wvwA 278 1.40e-35 1vzoA 355 2.66e-35 d.144.1.7 108971 1blxA 326 3.22e-35 1hcl d.144.1.7 41596 1xo2B 308 3.24e-35 1wmkA 321 3.84e-35 2etrA 415 8.61e-35 2f2uA 402 1.51e-34 2b9fA 353 1.82e-34 2baqA 365 1.92e-34 1cm8A 367 2.06e-34 1hcl d.144.1.7 41651 2b9hA 353 2.16e-34 1koa 491 2.32e-34 1tkiA b.1.1.4,d.144.1.7 21712,41642 1lewA 360 2.94e-34 d.144.1.7 73875 1p38 379 2.96e-34 1hcl d.144.1.7 41650 1zzlA 351 2.97e-34 1wbsA 360 3.01e-34 2balA 365 3.02e-34 1ian 366 3.02e-34 1hcl d.144.1.7 41645 1yqjA 366 3.03e-34 1oz1A 372 3.03e-34 d.144.1.7 93780 2gfsA 372 3.03e-34 1a9u 379 3.03e-34 1hcl d.144.1.7 41646 1kobA 387 3.31e-34 1tkiA d.144.1.7 41640 1ia8A 289 3.51e-34 1ia8A d.144.1.7 62112 2br1A 297 3.51e-34 2ghlA 348 3.57e-34 1yw2A 360 3.62e-34 1ywrA 360 3.67e-34 1r3cA 366 3.97e-34 d.144.1.7 96906 1u5rA 348 4.16e-34 1pmnA 364 4.18e-34 d.144.1.7 94907 1jnk 423 4.41e-34 1hcl d.144.1.7 41659 1s9jA 341 4.79e-34 1wzyA 368 4.91e-34 1tvoA 368 4.91e-34 3erk 364 4.96e-34 1hcl d.144.1.7 41654 2erk 365 5.76e-34 1hcl d.144.1.7 41655 1ukhA 369 6.71e-34 d.144.1.7 107913 1s9iA 354 9.07e-34 1gol 364 9.67e-34 1hcl d.144.1.7 41658 1pme 380 9.90e-34 1hcl d.144.1.7 41653 2acxA 576 1.30e-33 2g01A 370 1.60e-33 1mruA 311 2.28e-33 d.144.1.7 79425 1o6yA 299 2.40e-33 d.144.1.7 81106 2ac5A 316 2.02e-32 2ac3A 316 7.65e-32 1nxkA 400 1.47e-31 d.144.1.7 92302 1omwA 689 1.61e-31 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1zy4A 303 2.16e-31 1r0eA 391 2.44e-31 1q5kA 414 2.47e-31 d.144.1.7 104537 1pyxA 422 2.47e-31 d.144.1.7 95383 1q41A 424 2.47e-31 d.144.1.7 95774 1j1bA 420 2.47e-31 d.144.1.7 90758 1gngA 378 2.81e-31 d.144.1.7 76239 1uv5A 350 2.94e-31 d.144.1.7 100029 1h8fB 350 3.06e-31 d.144.1.7 65734 1h8fA 352 3.07e-31 d.144.1.7 65733 2evaA 307 3.12e-31 1o9uA 350 3.88e-31 d.144.1.7 92691 1zydA 303 4.93e-31 1t4hA 290 5.28e-31 d.144.1.7 106420 1zxeA 303 1.23e-30 1opjA 293 1.42e-30 d.144.1.7 87230 2f4jA 287 1.58e-30 1mp8A 281 4.28e-30 d.144.1.7 91384 1opkA 495 4.65e-30 b.34.2.1,d.93.1.1,d.144.1.7 87232,87233,87234 2fo0A 495 4.91e-30 1oplA 537 5.01e-30 b.34.2.1,d.93.1.1,d.144.1.7 87235,87236,87237 1yxsA 293 5.08e-30 1fmk 452 5.34e-30 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 1y57A 452 5.39e-30 1tkiA 321 5.70e-30 1tkiA d.144.1.7 41638 2ptk 453 5.99e-30 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24517,40457,41692 1yolA 283 6.04e-30 1yojA 283 6.21e-30 2bikB 313 8.42e-30 1kswA 452 8.50e-30 b.34.2.1,d.93.1.1,d.144.1.7 68860,68861,68862 1yhsA 273 8.51e-30 1yxtA 293 8.51e-30 1xqzA 300 8.57e-30 1xwsA 313 8.61e-30 1yi6A 276 9.37e-30 2a19B 284 1.16e-29 1qpcA 279 1.45e-29 1fgkA d.144.1.7 41685 3lck 271 1.46e-29 1fmk d.144.1.7 41686 1uwjA 276 2.32e-29 d.144.1.7 100125 1uwhA 276 2.77e-29 d.144.1.7 100123 1qcfA 454 3.13e-29 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24498,40490,41680 1jpaA 312 3.31e-29 d.144.1.7 67011 1qpdA 279 5.16e-29 1fmk d.144.1.7 41687 1ymiA 334 5.45e-29 1yvjA 290 9.20e-29 1om1A 332 1.17e-28 d.144.1.7 93347 1m2rA 327 1.17e-28 d.144.1.7 84760 1mqbA 333 1.21e-28 d.144.1.7 91392 2b7aA 293 1.25e-28 1m2pA 325 1.30e-28 d.144.1.7 84758 1fvrA 327 1.39e-28 d.144.1.7 60047 1jwhA 337 1.63e-28 d.144.1.7 71913 1pjkA 334 1.64e-28 d.144.1.7 88122 1k9aA 450 1.66e-28 b.34.2.1,d.93.1.1,d.144.1.7 72188,72189,72190 1sm2A 264 2.07e-28 d.144.1.7 105754 1bygA 278 2.24e-28 1fmk d.144.1.7 41705 1na7A 329 2.82e-28 d.144.1.7 91752 1ad5A 438 3.11e-28 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24505,40491,41681 1k2pA 263 5.28e-28 d.144.1.7 72012 1fgkA 310 5.59e-28 1fgkA d.144.1.7 41693 1u46A 291 6.35e-28 d.144.1.7 107656 1u54A 291 6.36e-28 d.144.1.7 107675 1oecA 316 1.52e-27 1lufA 343 2.13e-27 d.144.1.7 78223 1t46A 313 3.12e-27 d.144.1.7 106397 1t45A 331 3.22e-27 d.144.1.7 106396 1pkgA 329 3.23e-27 d.144.1.7 94830 1rjbA 344 3.48e-27 d.144.1.7 97557 1xbbA 291 3.87e-27 2b4sB 306 4.15e-27 1ir3A 306 4.25e-27 1fmk d.144.1.7 41702 1irk 306 5.10e-27 1fmk d.144.1.7 41703 2g15A 318 5.38e-27 1i44A 306 6.10e-27 1fmk d.144.1.7 61664 1r0pA 312 7.13e-27 d.144.1.7 96734 1z57A 339 7.23e-27 1u59A 287 7.52e-27 d.144.1.7 107681 1k3aA 299 1.00e-26 d.144.1.7 68098 1ywnA 316 1.01e-26 1vr2A 316 1.11e-26 1fgkA d.144.1.7 41701 1jqhA 308 1.25e-26 d.144.1.7 71793 1m7nA 322 1.26e-26 d.144.1.7 78738 1p14A 306 1.30e-26 d.144.1.7 87660 1p4oA 322 1.36e-26 d.144.1.7 87775 1m14A 333 2.06e-26 d.144.1.7 78367 1xkkA 352 2.07e-26 2bujA 317 3.24e-26 1howA 373 7.49e-26 1hcl d.144.1.7 41679 1q8yA 373 7.62e-26 d.144.1.7 96234 1y6bA 366 1.77e-25 1x8bA 289 2.78e-25 2eu9A 355 5.65e-25 2exeA 357 5.68e-25 1wbpA 397 2.65e-23 1rw8A 301 1.08e-20 1vjyA 303 1.09e-20 d.144.1.7 108633 1py5A 326 1.12e-20 d.144.1.7 104389 1b6cB 342 1.24e-20 1b6cB d.144.1.7 41673 1ckiA 317 2.64e-18 1csn d.144.1.7 41660 2chlA 351 8.14e-18 2c47A 313 1.94e-17 2csn 297 5.38e-16 1csn d.144.1.7 41665 1csn 298 5.40e-16 1csn d.144.1.7 41664 1zarA 282 2.48e-04 1zthA 258 3.71e-02 1mb8A 243 1.16e+00 a.40.1.1,a.40.1.1 84925,84926 1j5cA 98 1.24e+00 b.6.1.1 71541 1m9wA 98 1.24e+00 b.6.1.1 74604 1kb9C 385 1.29e+00 f.32.1.1,f.21.1.2 77315,77316 1sh5A 245 2.25e+00 a.40.1.1,a.40.1.1 105543,105544 1yfsA 465 5.39e+00 2ct6A 111 5.73e+00 2etvA 346 5.81e+00 1dljA 402 6.22e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18808,30212,31621 1pxuA 131 6.22e+00 b.40.3.2 104383 1jb3A 131 6.23e+00 1jc7A b.40.3.2 62833 1jc7A 131 6.26e+00 1jc7A b.40.3.2 62873 1dliA 402 6.36e+00 1dliA a.100.1.4,c.2.1.6,c.26.3.1 18809,30213,31622 1a03A 90 9.26e+00 4icb a.39.1.2 17157 1fb7A 99 9.66e+00 1hvc b.50.1.1 26683 2bkkA 264 1.01e+01 2gb3A 409 1.03e+01 1qspA 165 1.08e+01 1qspA a.24.10.2 16639 1oxkA 166 1.09e+01 a.24.10.2 93690 1c02A 166 1.09e+01 1qspA a.24.10.2 16633 1c03A 168 1.10e+01 1qspA a.24.10.2 16635 1u7tA 261 1.12e+01 1so8A 261 1.14e+01 c.2.1.2 98940 1l8tA 263 1.18e+01 d.144.1.6 73702 1j7lA 264 1.18e+01 d.144.1.6 62697 1pcs 98 1.60e+01 1plc b.6.1.1 22871 1dtp 190 1.65e+01 1ddt d.166.1.1 42248 1xiqA 157 1.69e+01 1tzfA 259 1.76e+01 c.68.1.13 107476 2ahbA 356 1.92e+01 1kas 412 1.93e+01 1dd8A c.95.1.1,c.95.1.1 35964,35965 1wstA 417 2.00e+01 1f3wA 530 2.12e+01 b.58.1.1,c.1.12.1,c.49.1.1 64934,64935,64936 1f3xA 530 2.13e+01 b.58.1.1,c.1.12.1,c.49.1.1 64958,64959,64960 1a49A 530 2.14e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1gpzA 399 2.34e+01 b.47.1.2,g.18.1.1,g.18.1.1 70302,70303,70304 1uebA 184 2.39e+01 b.34.5.2,b.40.4.5,b.40.4.5 107782,107783,107784 1f0lA 535 2.46e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 2aj9A 356 2.62e+01 1wueA 386 2.77e+01 2fnaA 357 2.91e+01 1u6eA 335 3.16e+01 1hzpA 335 3.21e+01 1hn9A c.95.1.2,c.95.1.2 61455,61456 1m1mA 355 3.29e+01 c.95.1.2,c.95.1.2 74409,74410 1w2dA 265 3.36e+01 d.143.1.3 109121 1w2fA 276 3.44e+01 d.143.1.3 109125 2ch9A 131 3.48e+01 1vkzA 412 3.49e+01 b.84.2.1,c.30.1.1,d.142.1.2 108698,108699,108700 1mrxA 99 3.53e+01 b.50.1.1 91449 1r6bX 758 3.54e+01 a.174.1.1,c.37.1.20,c.37.1.20 104818,104819,104820 1qvvA 237 3.75e+01 c.23.16.2 96442 1rw7A 243 3.77e+01 c.23.16.2 97963 1d2aA 160 3.85e+01 1dg9A c.44.1.1 32644 1d1qA 161 3.87e+01 1dg9A c.44.1.1 32642 1ollA 188 3.93e+01 b.1.1.4,b.1.1.4 93313,93314 1odxA 99 3.93e+01 1fmb b.50.1.1 26577 1d1pA 160 3.99e+01 1dg9A c.44.1.1 32646 1rqgA 722 4.01e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1qvzA 237 4.06e+01 c.23.16.2 96453 1dseA 292 4.14e+01 1ryc a.93.1.1 59130 1ccg 291 4.15e+01 1ryc a.93.1.1 18627 1ds4A 292 4.17e+01 1ryc a.93.1.1 59129 1eft 405 4.18e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1b23P 405 4.20e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25689,25729,32124 1aaqA 99 4.29e+01 1fmb b.50.1.1 26688 1e7uA 961 4.32e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1sqnA 261 4.33e+01 a.123.1.1 105944 1fnoA 417 4.35e+01 d.58.19.1,c.56.5.4 70145,75841 1sr7A 259 4.37e+01 a.123.1.1 105957 1e3kA 258 4.39e+01 1a28A a.123.1.1 59193 1a28A 256 4.45e+01 1a28A a.123.1.1 19290 1x64A 89 4.52e+01 1z82A 335 4.78e+01 1d4yA 99 4.82e+01 1hvc b.50.1.1 26549 1wyjA 125 5.01e+01 1kao 167 5.03e+01 1ctqA c.37.1.8 32014 2bn4A 682 5.06e+01 1p6fA 242 5.10e+01 b.1.1.4,b.1.1.4 94169,94170 1bg6 359 5.20e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1be4A 151 5.30e+01 1npk d.58.6.1 39090 1be4C 152 5.32e+01 1npk d.58.6.1 39092 2axpA 173 5.33e+01 1wryA 121 5.61e+01 2a3qA 170 5.86e+01 1ygpA 879 5.89e+01 1a8i c.87.1.4 35540 1metA 99 5.94e+01 1fmb b.50.1.1 26593 1bwbA 99 5.96e+01 1fmb b.50.1.1 26517 1e17A 150 5.99e+01 2hfh a.4.5.14 16143 1seiA 130 6.07e+01 1seiA d.140.1.1 41463 1d4sA 99 6.08e+01 1hvc b.50.1.1 26692 1jt9A 266 6.24e+01 c.124.1.1 67259 1wouA 123 6.30e+01 c.47.1.16 109471 1bwlA 399 6.45e+01 1oyc c.1.4.1 28606 1aipA 405 6.47e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 2c78A 405 6.48e+01 2c77A 405 6.48e+01 1exmA 405 6.48e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 1txqA 93 6.54e+01 1fs5A 266 6.57e+01 c.124.1.1 65044 1g0hA 252 6.61e+01 1dk4A e.7.1.1 60171 1i74A 309 6.81e+01 1i74A c.107.1.1 61867 1f3kA 26 6.85e+01 g.3.6.1 44101 1y97A 238 6.99e+01 1qb0A 211 7.02e+01 1c25 c.46.1.1 32699 2apjA 260 7.10e+01 1proA 99 7.21e+01 1fmb b.50.1.1 26509 2az8A 99 7.31e+01 1gnnA 99 7.39e+01 1fmb b.50.1.1 26676 2coyA 112 7.44e+01 1gnmA 99 7.47e+01 1hvc b.50.1.1 26672 1knwA 425 7.50e+01 b.49.2.3,c.1.6.1 90969,90970 1b48A 221 7.63e+01 1pgtA a.45.1.1,c.47.1.5 17703,32997 1gukA 222 7.64e+01 1pgtA a.45.1.1,c.47.1.5 17705,32999 1xwiA 322 7.66e+01 1iu8A 206 7.66e+01 c.56.4.1 71436 1a9mA 99 7.68e+01 1hvc b.50.1.1 26642 1oy5A 257 7.72e+01 c.116.1.4 93718 1k96A 90 7.81e+01 a.39.1.2 72187 1k8uA 90 7.82e+01 a.39.1.2 72181 1ceaA 88 7.90e+01 5hpgA g.14.1.1 44644 2az9A 99 7.92e+01 1va0A 239 7.95e+01 2ftzA 284 8.04e+01 1f8rA 498 8.11e+01 1f8rA c.3.1.2,d.16.1.5 30410,37974 1bf6A 291 8.13e+01 1pscA c.1.9.3 29065 1i5kA 84 8.19e+01 5hpgA g.14.1.1 61789 1merA 99 8.25e+01 1hvc b.50.1.1 26523 1hivA 99 8.26e+01 1fmb b.50.1.1 26555 1hvhA 99 8.29e+01 1hvc b.50.1.1 26585 1pkr 82 8.33e+01 5hpgA g.14.1.1 44646 1nh0A 99 8.41e+01 b.50.1.1 91869 3tlhA 99 8.51e+01 1hvc b.50.1.1 26609 2fdeA 100 8.59e+01 2c6nA 612 8.71e+01