# List of top-scoring protein chains for T0291.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 1jpaA 312 8.18e-40 d.144.1.7 67011 1mqbA 333 3.19e-39 d.144.1.7 91392 1opjA 293 4.84e-39 d.144.1.7 87230 2f4jA 287 7.30e-39 1opkA 495 1.11e-38 b.34.2.1,d.93.1.1,d.144.1.7 87232,87233,87234 2fo0A 495 1.19e-38 1oplA 537 1.21e-38 b.34.2.1,d.93.1.1,d.144.1.7 87235,87236,87237 1fgkA 310 3.82e-38 1fgkA d.144.1.7 41693 1y57A 452 5.28e-38 1fmk 452 5.33e-38 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24511,40436,41690 2ptk 453 6.95e-38 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24517,40457,41692 1kswA 452 9.31e-38 b.34.2.1,d.93.1.1,d.144.1.7 68860,68861,68862 1yolA 283 1.10e-37 1oecA 316 1.23e-37 1yojA 283 1.52e-37 1yi6A 276 2.16e-37 1irk 306 2.78e-37 1fmk d.144.1.7 41703 1qpcA 279 4.30e-37 1fgkA d.144.1.7 41685 1i44A 306 4.31e-37 1fmk d.144.1.7 61664 3lck 271 5.11e-37 1fmk d.144.1.7 41686 2b4sB 306 5.15e-37 1ir3A 306 5.32e-37 1fmk d.144.1.7 41702 1p14A 306 5.54e-37 d.144.1.7 87660 1lufA 343 6.17e-37 d.144.1.7 78223 1qcfA 454 6.89e-37 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24498,40490,41680 1m7nA 322 9.45e-37 d.144.1.7 78738 2g15A 318 1.04e-36 1p4oA 322 1.09e-36 d.144.1.7 87775 1t45A 331 1.26e-36 d.144.1.7 106396 1t46A 313 1.38e-36 d.144.1.7 106397 1pkgA 329 1.40e-36 d.144.1.7 94830 1jqhA 308 1.45e-36 d.144.1.7 71793 1qpdA 279 1.84e-36 1fmk d.144.1.7 41687 1mp8A 281 1.91e-36 d.144.1.7 91384 1fvrA 327 2.04e-36 d.144.1.7 60047 1r0pA 312 2.78e-36 d.144.1.7 96734 1k3aA 299 4.37e-36 d.144.1.7 68098 1rjbA 344 4.43e-36 d.144.1.7 97557 1sm2A 264 5.31e-36 d.144.1.7 105754 1k9aA 450 1.19e-35 b.34.2.1,d.93.1.1,d.144.1.7 72188,72189,72190 1bygA 278 1.25e-35 1fmk d.144.1.7 41705 1ad5A 438 1.92e-35 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24505,40491,41681 1k2pA 263 2.34e-35 d.144.1.7 72012 1vr2A 316 3.05e-35 1fgkA d.144.1.7 41701 1ywnA 316 3.57e-35 1y6bA 366 3.94e-35 1xkkA 352 5.50e-35 1m14A 333 5.65e-35 d.144.1.7 78367 1zmuA 327 1.15e-34 1u46A 291 1.76e-34 d.144.1.7 107656 1u54A 291 2.08e-34 d.144.1.7 107675 1zmvA 327 2.22e-34 2b7aA 293 2.29e-34 1y8gA 327 2.54e-34 2fh9A 274 4.01e-34 2evaA 307 4.81e-34 2eueA 275 1.06e-33 1muoA 297 1.16e-33 d.144.1.7 85110 1u59A 287 1.34e-33 d.144.1.7 107681 1yvjA 290 1.41e-33 1ol5A 282 1.64e-33 d.144.1.7 93310 1a06 332 1.81e-33 1tkiA d.144.1.7 41634 2bmcA 306 1.92e-33 1mq4A 272 1.95e-33 d.144.1.7 91391 2c6eA 283 2.01e-33 2c6dA 275 2.43e-33 1uwjA 276 2.68e-33 d.144.1.7 100125 1xbbA 291 2.94e-33 1uwhA 276 3.13e-33 d.144.1.7 100123 1yhwA 297 3.20e-33 1yhvA 297 4.40e-33 1ol6A 282 4.59e-33 d.144.1.7 93311 1fotA 318 1.45e-32 1cdkA d.144.1.7 59938 1u5rA 348 4.00e-32 2bdwA 362 5.02e-32 2bfxA 284 5.30e-32 1vywA 309 5.67e-32 d.144.1.7 108922 2f57A 317 6.33e-32 2bfyA 284 6.96e-32 1h1rA 303 8.20e-32 d.144.1.7 76489 1xjdA 345 8.45e-32 1oiuA 302 8.49e-32 d.144.1.7 103958 1gz8A 299 9.32e-32 d.144.1.7 83405 1qmzA 299 9.43e-32 1hcl d.144.1.7 41604 1w98A 298 9.66e-32 1pkdA 297 9.93e-32 d.144.1.7 88141 1jvpP 298 1.04e-31 d.144.1.7 67371 1oitA 299 1.23e-31 d.144.1.7 93075 1giiA 298 1.70e-31 d.144.1.7 65218 1gzkA 315 2.70e-31 d.144.1.7 83406 1mryA 339 2.74e-31 d.144.1.7 91451 2cdzA 303 2.98e-31 1gznA 335 3.02e-31 d.144.1.7 83407 1o6kA 336 3.02e-31 d.144.1.7 81091 1o6lA 337 3.05e-31 d.144.1.7 81092 2bvaA 292 3.10e-31 2br1A 297 4.74e-31 1ia8A 289 4.75e-31 1ia8A d.144.1.7 62112 2c30A 321 4.77e-31 1ua2A 346 9.76e-31 1jksA 294 9.77e-31 d.144.1.7 71710 1p4fA 293 9.87e-31 d.144.1.7 104063 1xh9A 350 1.00e-30 1q61A 350 1.24e-30 d.144.1.7 95955 1cdkA 350 1.26e-30 1cdkA d.144.1.7 41620 1cmkE 351 1.26e-30 1cdkA d.144.1.7 41623 1ctpE 350 1.31e-30 1cdkA d.144.1.7 41622 1wvwA 278 1.47e-30 1s9jA 341 1.55e-30 1xh8A 350 1.97e-30 2c1aA 351 1.97e-30 1smhA 350 2.49e-30 d.144.1.7 105757 1s9iA 354 2.52e-30 1ql6A 298 2.84e-30 1cdkA d.144.1.7 41636 1q62A 350 3.07e-30 d.144.1.7 95956 1ydrE 350 3.11e-30 1cdkA d.144.1.7 41624 1l3rE 350 3.31e-30 d.144.1.7 73552 1phk 298 3.31e-30 1cdkA d.144.1.7 41635 2erzE 351 3.31e-30 1jbpE 350 3.35e-30 1cdkA d.144.1.7 62849 1uu3A 310 4.28e-30 d.144.1.7 99999 2biyA 310 5.18e-30 1u7eA 350 5.26e-30 1apmE 350 5.70e-30 1cdkA d.144.1.7 41628 1v0oA 288 5.73e-30 d.144.1.7 100243 1v0bA 288 5.99e-30 d.144.1.7 100241 2phkA 277 6.20e-30 1cdkA d.144.1.7 41637 1zrzA 364 6.34e-30 1h1wA 289 6.64e-30 d.144.1.7 83460 1sykA 350 6.96e-30 1vzoA 355 7.02e-30 d.144.1.7 108971 1uu9A 286 7.03e-30 d.144.1.7 100002 1ob3A 288 7.04e-30 d.144.1.7 92747 1z5mA 286 7.75e-30 1wmkA 321 1.25e-29 1blxA 326 1.62e-29 1hcl d.144.1.7 41596 1koa 491 1.65e-29 1tkiA b.1.1.4,d.144.1.7 21712,41642 1xo2B 308 1.86e-29 2etrA 415 1.91e-29 1rdqE 350 2.15e-29 d.144.1.7 97314 1h4lA 292 3.98e-29 d.144.1.7 70871 2f2uA 402 5.34e-29 1wzyA 368 6.03e-29 2acxA 576 6.12e-29 3erk 364 6.13e-29 1hcl d.144.1.7 41654 1tvoA 368 6.20e-29 2erk 365 6.37e-29 1hcl d.144.1.7 41655 1unlA 292 6.92e-29 1kobA 387 8.61e-29 1tkiA d.144.1.7 41640 2b9fA 353 1.02e-28 1mruA 311 1.03e-28 d.144.1.7 79425 1o6yA 299 1.04e-28 d.144.1.7 81106 1gol 364 1.09e-28 1hcl d.144.1.7 41658 1pme 380 1.28e-28 1hcl d.144.1.7 41653 2b9hA 353 1.43e-28 1zy4A 303 1.63e-28 1zydA 303 3.99e-28 1cm8A 367 4.71e-28 1hcl d.144.1.7 41651 1t4hA 290 5.46e-28 d.144.1.7 106420 2ac5A 316 7.10e-28 1pmnA 364 7.49e-28 d.144.1.7 94907 1jnk 423 8.30e-28 1hcl d.144.1.7 41659 1zxeA 303 8.79e-28 1ukhA 369 9.18e-28 d.144.1.7 107913 2baqA 365 2.33e-27 2a19B 284 2.60e-27 2ac3A 316 3.35e-27 1oz1A 372 3.72e-27 d.144.1.7 93780 2gfsA 372 3.72e-27 1ian 366 3.73e-27 1hcl d.144.1.7 41645 2balA 365 3.73e-27 1a9u 379 3.74e-27 1hcl d.144.1.7 41646 1p38 379 3.74e-27 1hcl d.144.1.7 41650 1yqjA 366 3.75e-27 2g01A 370 3.79e-27 1zzlA 351 3.81e-27 1wbsA 360 3.90e-27 1lewA 360 3.90e-27 d.144.1.7 73875 2ghlA 348 4.80e-27 1r3cA 366 4.90e-27 d.144.1.7 96906 1ywrA 360 4.93e-27 1yw2A 360 4.94e-27 1nxkA 400 6.98e-27 d.144.1.7 92302 1omwA 689 7.14e-27 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1yxsA 293 4.46e-26 2bikB 313 5.60e-26 1xwsA 313 6.24e-26 1xqzA 300 6.45e-26 1r0eA 391 8.00e-26 1q5kA 414 8.07e-26 d.144.1.7 104537 1j1bA 420 8.11e-26 d.144.1.7 90758 1pyxA 422 8.13e-26 d.144.1.7 95383 1gngA 378 8.13e-26 d.144.1.7 76239 1q41A 424 8.13e-26 d.144.1.7 95774 1uv5A 350 9.26e-26 d.144.1.7 100029 1yxtA 293 9.63e-26 1h8fB 350 9.69e-26 d.144.1.7 65734 1h8fA 352 9.77e-26 d.144.1.7 65733 1o9uA 350 1.07e-25 d.144.1.7 92691 1yhsA 273 1.59e-25 2bujA 317 2.06e-25 1tkiA 321 2.06e-25 1tkiA d.144.1.7 41638 1b6cB 342 1.07e-23 1b6cB d.144.1.7 41673 1py5A 326 1.11e-23 d.144.1.7 104389 1ymiA 334 1.32e-23 1vjyA 303 1.45e-23 d.144.1.7 108633 1rw8A 301 1.47e-23 1jwhA 337 3.30e-23 d.144.1.7 71913 1pjkA 334 3.37e-23 d.144.1.7 88122 1na7A 329 5.80e-23 d.144.1.7 91752 1z57A 339 7.25e-23 1om1A 332 9.69e-23 d.144.1.7 93347 1m2rA 327 1.02e-22 d.144.1.7 84760 1m2pA 325 1.06e-22 d.144.1.7 84758 1x8bA 289 5.38e-22 1q8yA 373 1.15e-20 d.144.1.7 96234 1howA 373 1.16e-20 1hcl d.144.1.7 41679 2exeA 357 1.30e-20 2eu9A 355 1.31e-20 1wbpA 397 1.03e-19 1ckiA 317 1.40e-16 1csn d.144.1.7 41660 2chlA 351 2.06e-15 2c47A 313 3.17e-15 1csn 298 2.27e-13 1csn d.144.1.7 41664 2csn 297 2.27e-13 1csn d.144.1.7 41665 1zarA 282 1.03e-03 1wstA 417 8.73e-01 2bkkA 264 2.56e+00 1l8tA 263 2.84e+00 d.144.1.6 73702 1j7lA 264 2.84e+00 d.144.1.6 62697 1e6mA 128 3.82e+00 3chy c.23.1.1 31039 1z82A 335 7.81e+00 1pxuA 131 7.93e+00 b.40.3.2 104383 1jb3A 131 7.98e+00 1jc7A b.40.3.2 62833 1jc7A 131 8.15e+00 1jc7A b.40.3.2 62873 2fnaA 357 8.52e+00 1um0A 365 9.20e+00 d.258.1.1 107942 1prtB 196 9.33e+00 1bcpB b.40.2.1,d.169.1.2 25116,42425 1ptoH 198 9.35e+00 1bcpB b.40.2.1,d.169.1.2 25126,42435 1bcpB 199 9.35e+00 1bcpB b.40.2.1,d.169.1.2 25120,42429 1c4wA 128 1.05e+01 3chy c.23.1.1 31046 1zdmA 129 1.06e+01 1z1eA 390 1.10e+01 1a28A 256 1.45e+01 1a28A a.123.1.1 19290 1e3kA 258 1.46e+01 1a28A a.123.1.1 59193 1sr7A 259 1.47e+01 a.123.1.1 105957 1sqnA 261 1.48e+01 a.123.1.1 105944 2be4A 272 1.82e+01 1m9wA 98 1.90e+01 b.6.1.1 74604 1j5cA 98 1.92e+01 b.6.1.1 71541 2atvA 196 1.96e+01 1h4aX 173 2.15e+01 b.11.1.1,b.11.1.1 83479,83480 1ymv 129 2.23e+01 3chy c.23.1.1 31045 1rv6V 101 2.27e+01 g.17.1.1 97912 1ab6A 125 2.29e+01 3chy c.23.1.1 31054 2g98A 173 2.41e+01 1i5kA 84 2.43e+01 5hpgA g.14.1.1 61789 1w23A 360 2.48e+01 2bigA 361 2.48e+01 2coyA 112 2.53e+01 1zthA 258 2.54e+01 3tgl 269 2.55e+01 3tgl c.69.1.17 34733 1mb8A 243 2.59e+01 a.40.1.1,a.40.1.1 84925,84926 2c6nA 612 2.63e+01 1e6lA 127 2.65e+01 3chy c.23.1.1 59307 1hey 128 2.65e+01 3chy c.23.1.1 31061 1x64A 89 2.69e+01 1hk0X 173 2.72e+01 b.11.1.1,b.11.1.1 83522,83523 1ehc 128 2.77e+01 3chy c.23.1.1 31053 1ab5A 125 2.77e+01 3chy c.23.1.1 31056 1jbeA 128 2.78e+01 3chy c.23.1.1 62845 1cye 129 2.79e+01 3chy c.23.1.1 31077 1u8tA 128 2.81e+01 1kmiY 129 2.81e+01 c.23.1.1 72751 5chy 128 2.82e+01 3chy c.23.1.1 31050 1e6kA 130 2.83e+01 3chy c.23.1.1 59306 1mihA 129 2.88e+01 c.23.1.1 84975 1ymuA 130 2.88e+01 3chy c.23.1.1 31066 1vlzA 128 2.89e+01 3chy c.23.1.1 31048 1udrA 129 2.91e+01 3chy c.23.1.1 31041 1d4zA 128 2.93e+01 3chy c.23.1.1 31047 6chyA 128 2.96e+01 3chy c.23.1.1 31062 1fb7A 99 3.03e+01 1hvc b.50.1.1 26683 1sh5A 245 3.09e+01 a.40.1.1,a.40.1.1 105543,105544 1to6A 371 3.11e+01 c.141.1.1 107170 1e17A 150 3.12e+01 2hfh a.4.5.14 16143 1i94Q 104 3.28e+01 1fjfQ b.40.4.5 62008 1txqA 93 3.33e+01 1ceaA 88 3.54e+01 5hpgA g.14.1.1 44644 2chf 128 3.55e+01 3chy c.23.1.1 31079 1f07A 321 3.66e+01 1ezwA c.1.16.3 59560 1g8iA 190 3.73e+01 1rec a.39.1.5 60363 2chy 128 3.87e+01 3chy c.23.1.1 31081 1fzvA 132 4.10e+01 1vpfA g.17.1.1 60159 2b81A 323 4.21e+01 1zosA 230 4.36e+01 1b2iA 83 4.37e+01 5hpgA g.14.1.1 44640 2ct9A 208 4.43e+01 1ki0A 253 4.51e+01 g.14.1.1,g.14.1.1,g.14.1.1 72493,72494,72495 1rhoA 145 4.70e+01 1rhoA b.1.18.8 21899 1bg6 359 4.72e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1gph1 465 4.82e+01 1ecfB 1gz2A 142 4.84e+01 d.169.1.1 83392 1ao0A 459 4.89e+01 1ecfB c.61.1.1,d.153.1.1 34049,41816 2ckgA 225 4.92e+01 2af7A 125 4.92e+01 1pm4A 119 4.97e+01 b.135.1.1 94891 1zwvA 58 5.11e+01 1zblA 139 5.14e+01 2g8fA 142 5.23e+01 2g8iA 142 5.25e+01 1g0hA 252 5.43e+01 1dk4A e.7.1.1 60171 5tnc 162 5.62e+01 1ncx a.39.1.5 17246 1dcqA 278 5.96e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 1qb0A 211 5.98e+01 1c25 c.46.1.1 32699 2ct6A 111 6.10e+01 1ajw 145 6.14e+01 1rhoA b.1.18.8 21905 1top 162 6.15e+01 1ncx a.39.1.5 17223 1rgxA 114 6.24e+01 g.77.1.1 104932 1ft3A 139 6.27e+01 1rhoA b.1.18.8 60020 1zbfA 142 6.28e+01 1fstA 182 6.44e+01 1rhoA b.1.18.8 60008 2ch9A 131 6.48e+01 2bxwA 141 6.50e+01 1hh4D 204 6.58e+01 b.1.18.8 61039 1x18F 154 6.62e+01 1mjfA 281 6.88e+01 c.66.1.17 79198 1qvyA 139 6.97e+01 b.1.18.8 96449 1qjpA 171 7.04e+01 1bxwA f.4.1.1 43742 1bxwA 172 7.07e+01 1bxwA f.4.1.1 43743 2bkaA 242 7.22e+01 1ka9H 200 7.22e+01 c.23.16.1 77308 1tafB 70 7.43e+01 1tafB a.22.1.3 16482 1pkr 82 7.44e+01 5hpgA g.14.1.1 44646 2d4eA 515 7.50e+01 1fsoA 139 7.53e+01 1rhoA b.1.18.8 60007 1kmtA 141 7.53e+01 b.1.18.8 77442 1cojA 212 7.59e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 2gb3A 409 7.79e+01 2dfkA 402 7.83e+01 2fbyA 205 7.83e+01 2apjA 260 8.17e+01 1couA 85 8.51e+01 1eaiC g.22.1.1 44896 1rynA 202 8.54e+01 c.56.3.1 98107 1hpj 79 8.56e+01 5hpgA g.14.1.1 44649 4tnc 162 8.73e+01 1ncx a.39.1.5 17228 1poqA 118 8.82e+01 b.135.1.1 94967 1ihnA 113 8.94e+01 1ihnA c.103.1.1 62388