# List of top-scoring protein chains for t04-100-30-near-backbone-11-scores 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 1v7lA 163 9.34e-03 1mp8A 281 5.36e-01 d.144.1.7 91384 1jpaA 312 1.05e+00 d.144.1.7 67011 1z5vA 474 1.59e+00 1qauA 112 2.19e+00 1qauA b.36.1.1 24779 1aquA 297 2.36e+00 1aquA c.37.1.5 31942 1vi4A 174 2.51e+00 c.8.7.1 100731 1qlaB 239 2.97e+00 1qlaB a.1.2.1,d.15.4.2 15679,37707 2bvaA 292 3.87e+00 1vj0A 380 3.99e+00 b.35.1.2,c.2.1.1 100786,100787 1yavA 159 4.01e+00 2c30A 321 4.67e+00 2d13A 227 5.03e+00 2f57A 317 5.21e+00 1qpcA 279 5.38e+00 1fgkA d.144.1.7 41685 1mx3A 347 5.58e+00 c.2.1.4,c.23.12.1 79638,79639 3erk 364 6.86e+00 1hcl d.144.1.7 41654 1tvoA 368 6.90e+00 1dkuA 317 7.14e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 2gsfA 373 7.72e+00 2evaA 307 7.73e+00 1rerA 391 7.79e+00 b.1.18.4,f.10.1.1 97327,97328 1zz2A 360 7.84e+00 1ywrA 360 7.86e+00 1pme 380 8.59e+00 1hcl d.144.1.7 41653 1nbwA 607 8.73e+00 c.8.6.1,c.55.1.6,c.55.1.6 80393,80394,80395 2furA 209 9.01e+00 2gjgA 248 9.42e+00 1ir3A 306 9.45e+00 1fmk d.144.1.7 41702 2beiA 170 1.02e+01 1p42A 270 1.06e+01 d.14.1.7,d.14.1.7 87754,87755 2df7A 458 1.08e+01 1wcdJ 441 1.11e+01 1ojjA 402 1.14e+01 b.29.1.10 93130 1jftA 340 1.21e+01 a.35.1.5,c.93.1.1 66652,66653 1tlfA 301 1.21e+01 1tlfA c.93.1.1 35687 1f3mC 297 1.22e+01 1hcl d.144.1.7 41677 1c30B 382 1.24e+01 c.8.3.1,c.23.16.1 30736,31413 1b7yB 785 1.24e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1pmnA 364 1.26e+01 d.144.1.7 94907 1k0hA 117 1.27e+01 b.106.1.2 71975 1wbsA 360 1.36e+01 1qf5A 431 1.41e+01 1adeA c.37.1.10 32212 1dbiA 280 1.43e+01 1gci c.41.1.1 32543 1fgkA 310 1.47e+01 1fgkA d.144.1.7 41693 1bg6 359 1.48e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 2mspA 126 1.51e+01 1mspA b.1.11.2 22335 1vi2A 300 1.53e+01 c.2.1.7,c.58.1.5 100726,100727 1a9xB 379 1.53e+01 1c3oB c.8.3.1,c.23.16.1 30732,31409 1in4A 334 1.58e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1ru8A 232 1.59e+01 c.26.2.1 97849 2di4A 238 1.63e+01 2gfsA 372 1.63e+01 1zzlA 351 1.63e+01 1fvrA 327 1.67e+01 d.144.1.7 60047 1qvcA 145 1.69e+01 3ullA b.40.4.3 25284 1r3cA 366 1.77e+01 d.144.1.7 96906 2b9hA 353 1.78e+01 2c2hA 192 1.78e+01 1z4hA 66 1.79e+01 1lzlA 323 1.82e+01 c.69.1.2 78306 1e0tA 470 1.93e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1ls1A 295 1.94e+01 a.24.13.1,c.37.1.10 78170,78171 1u59A 287 1.98e+01 d.144.1.7 107681 2fvgA 340 2.03e+01 2d0oA 610 2.11e+01 3ullA 132 2.12e+01 3ullA b.40.4.3 25282 1i12A 160 2.16e+01 1i21A d.108.1.1 61515 1ln1A 214 2.21e+01 d.129.3.2 74038 1gdoA 240 2.22e+01 1gdoA 2gp4A 628 2.23e+01 1pmd 675 2.25e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1uu1A 335 2.28e+01 c.67.1.1 99993 1yjsA 419 2.32e+01 1kl1A 419 2.44e+01 c.67.1.4 72663 1zyiA 171 2.49e+01 1hf2A 210 2.52e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1j9aA 184 2.54e+01 c.55.3.5 84135 3cox 507 2.55e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1xffA 240 2.60e+01 d.153.1.1 109580 2anxA 146 2.67e+01 1x84A 189 2.67e+01 1uirA 314 2.67e+01 c.66.1.17 99429 1i74A 309 2.67e+01 1i74A c.107.1.1 61867 1inlA 296 2.77e+01 c.66.1.17 66220 1i1dA 161 2.81e+01 1i21A d.108.1.1 61526 1i9sA 210 2.84e+01 1i9sA c.45.1.1 62099 2g76A 335 2.88e+01 1dbqA 289 2.90e+01 1qpzA c.93.1.1 35666 1zbmA 280 2.97e+01 1gheA 177 2.98e+01 d.108.1.1 76222 1gp1A 198 3.01e+01 1gp1A c.47.1.10 33059 1lr0A 129 3.01e+01 d.212.1.1 74213 1jyeA 349 3.11e+01 c.93.1.1 67455 1h5zA 455 3.14e+01 a.104.1.1 90622 1zvyA 136 3.15e+01 1j1uA 306 3.20e+01 c.26.1.1 83980 1xh9A 350 3.41e+01 2c46A 241 3.47e+01 1iqzA 81 3.53e+01 d.58.1.4 66281 1p4oA 322 3.59e+01 d.144.1.7 87775 1ufoA 238 3.63e+01 c.69.1.27 99344 1r6xA 395 3.64e+01 b.122.1.3,c.26.1.5 97167,97168 1v4xA 144 3.68e+01 a.1.1.2 108363 1vqrA 297 3.74e+01 1rxyA 253 3.86e+01 c.56.2.1 98065 1yhvA 297 3.94e+01 2gupA 292 3.94e+01 1oywA 523 3.96e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1u13A 455 3.97e+01 a.104.1.1 107578 1ltlA 279 3.99e+01 b.40.4.11 84701 1f0lA 535 4.05e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1x8vA 455 4.06e+01 1ymiA 334 4.06e+01 1j8mF 297 4.07e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1yrvA 169 4.09e+01 1zzoA 136 4.12e+01 1w1oA 534 4.21e+01 d.58.32.4,d.145.1.1 109071,109072 1g8fA 511 4.22e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1e9xA 455 4.22e+01 1ea1A a.104.1.1 18969 1dymA 402 4.23e+01 1celA b.29.1.10 24304 1q1gA 276 4.25e+01 c.56.2.1 95574 1q6zA 528 4.32e+01 8acn 754 4.35e+01 1amj c.8.2.1,c.83.1.1 30724,35400 1jb0A 755 4.36e+01 1jb0A f.29.1.1 62820 1iz6A 138 4.39e+01 b.34.5.2,b.40.4.5 76976,76977 1o54A 277 4.42e+01 c.66.1.13 92482 1pvdA 537 4.43e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 1ywnA 316 4.47e+01 1mh1 186 4.48e+01 1eesA c.37.1.8 32002 1xrtA 467 4.49e+01 1g7sA 594 4.60e+01 1g7rA b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8 25712,25713,31032,32147 1whi 122 4.67e+01 1whi b.39.1.1 24810 2fepA 289 4.68e+01 1qv1A 195 4.72e+01 a.39.1.5 96347 1ep3B 262 4.75e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 1hqkA 154 4.76e+01 c.16.1.1 65902 1xbbA 291 4.80e+01 2b0tA 738 4.92e+01 1in6A 334 4.96e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1bfd 528 4.97e+01 1bfd c.31.1.3,c.36.1.5,c.36.1.9 31745,31801,31802 1ru3A 732 4.98e+01 e.26.1.3 97835 1dleA 298 4.99e+01 1dleA b.47.1.2 26312 1iioA 84 5.10e+01 a.39.4.1 66150 2aa4A 289 5.15e+01 1szhA 161 5.15e+01 a.226.1.1 106157 1nuyA 337 5.22e+01 e.7.1.1 86213 1el4A 195 5.30e+01 1ej3A a.39.1.5 59453 2bsxA 253 5.30e+01 1bu7A 455 5.40e+01 1bu7A a.104.1.1 18937 1h1wA 289 5.41e+01 d.144.1.7 83460 1gz8A 299 5.46e+01 d.144.1.7 83405 2eulA 156 5.50e+01 1s12A 94 5.60e+01 1m70A 190 5.66e+01 a.3.1.4,a.3.1.4 91200,91201 1f8gA 384 5.67e+01 1sayA c.2.1.4,c.23.12.2 59695,59696 1uu3A 310 5.70e+01 d.144.1.7 99999 1iv8A 720 5.71e+01 b.71.1.1,c.1.8.1 76842,76843 1hxvA 113 5.71e+01 d.26.1.1 71089 1blxA 326 5.73e+01 1hcl d.144.1.7 41596 1lx7A 253 5.79e+01 c.56.2.1 74329 1jpzA 473 5.83e+01 a.104.1.1 67069 1euhA 475 5.88e+01 1euhA c.82.1.1 35369 1ytaA 180 5.88e+01 1g3qA 237 5.91e+01 1hyqA c.37.1.10 60237 2fu4A 83 5.95e+01 1dl2A 511 5.98e+01 1dl2A a.102.2.1 18844 1bkb 136 6.04e+01 1bkb b.34.5.2,b.40.4.5 24609,25341 1wraA 308 6.24e+01 1jf2A 195 6.26e+01 1ej3A a.39.1.5 62930 1kfcA 268 6.27e+01 c.1.2.4 77371 1r64A 481 6.29e+01 b.18.1.20,c.41.1.1 97140,97141 1apmE 350 6.44e+01 1cdkA d.144.1.7 41628 1ek6A 348 6.48e+01 1xel c.2.1.2 29800 1uf2A 1019 6.50e+01 e.28.1.2 99289 2a4dA 160 6.54e+01 2bu3A 254 6.63e+01 1w27A 714 6.66e+01 2fefA 294 6.80e+01 1opjA 293 6.86e+01 d.144.1.7 87230 1qo7A 394 6.89e+01 1qo7A c.69.1.11 34697 1t46A 313 6.95e+01 d.144.1.7 106397 1k32A 1045 7.03e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1x3eA 165 7.29e+01 1g3mA 294 7.30e+01 c.37.1.5 83268 1ty9A 222 7.35e+01 1h2kA 349 7.38e+01 b.82.2.6 76572 2aa1A 144 7.42e+01 1hcl 298 7.43e+01 1hcl d.144.1.7 41593 1vziA 126 7.45e+01 b.1.13.1,g.41.5.2 108967,108968 1rdqE 350 7.55e+01 d.144.1.7 97314 1l7mA 211 7.56e+01 c.108.1.4 73664 2f9hA 129 7.64e+01 1yfqA 342 7.72e+01 1h0hA 977 7.76e+01 b.52.2.2,c.81.1.1 76435,76436 1fjsA 234 7.77e+01 1ucyE b.47.1.2 26336 1wyuB 474 7.79e+01 1bjmA 216 7.84e+01 8fabA b.1.1.1,b.1.1.2 20524,21460 1oaoC 729 7.91e+01 e.26.1.3 86746 1ue1A 164 7.92e+01 b.40.4.3 99243 1j97A 211 7.99e+01 1f5sA c.108.1.4 62753 1tig 94 8.00e+01 1tig d.68.1.1 39566 1jbkA 195 8.07e+01 c.37.1.20 71631 1g2lA 235 8.07e+01 b.47.1.2 65112 1xd3A 230 8.12e+01 1k6kA 143 8.12e+01 a.174.1.1 77274 1j0aA 325 8.29e+01 c.79.1.1 83871 1zemA 262 8.29e+01 2a19B 284 8.30e+01 1jztA 246 8.39e+01 c.104.1.1 63319 2gpjA 252 8.44e+01 1zbxB 141 8.46e+01 1pfkA 320 8.60e+01 3pfk c.89.1.1 35575 2fi9A 128 8.62e+01 1tyyA 339 8.64e+01 1nkqA 259 8.77e+01 d.177.1.1 103862 1u5uA 374 8.90e+01 1u9cA 224 8.99e+01