# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-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 1nb8A 353 2.28e-35 d.3.1.9 80385 1ubi 76 1.77e-03 1ubi d.15.1.1 37584 1ogwA 76 2.00e-03 d.15.1.1 87001 1lm8B 118 9.37e-03 d.15.1.1 74033 1vcbA 118 1.61e-02 1vcbA d.15.1.1 37603 1bt0A 76 2.36e-02 1ubi d.15.1.1 37607 1nddA 76 6.13e-02 1ubi d.15.1.1 37599 1qmyA 167 8.60e-02 1qmyA d.3.1.2 37094 1ovaA 386 1.53e-01 1ovaA e.1.1.1 42619 1euvB 86 1.59e-01 1a5r d.15.1.1 37598 1uhgA 385 2.42e-01 e.1.1.1 88491 1jrrA 382 2.44e-01 e.1.1.1 63256 1e7uA 961 2.56e-01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1ltlA 279 4.34e-01 b.40.4.11 84701 1om4A 422 6.00e-01 d.174.1.1 87067 1hleA 345 6.35e-01 1ovaA e.1.1.1 42618 1nh1A 330 7.01e-01 unknown_sccs -11798 1q1aA 289 9.86e-01 c.31.1.5 -6781 1lj5A 379 1.04e+00 e.1.1.1 73928 1ed5A 444 1.20e+00 1nseA d.174.1.1 42530 1gr0A 367 1.20e+00 c.2.1.3 70379 d.81.1.3 70380 1a7cA 379 1.29e+00 1sek e.1.1.1 42660 1qlpA 394 1.30e+00 1ovaA e.1.1.1 42628 1pfvA 551 1.60e+00 a.27.1.1 -727 c.26.1.1 -6603 g.41.1.1 -12765 1f4lA 551 1.74e+00 1qqtA a.27.1.1 59648 c.26.1.1 59649 g.41.1.1 59650 1d1vA 444 1.79e+00 1nseA d.174.1.1 59101 1t0yA 122 1.79e+00 d.15.1.1 -9151 1k6kA 143 1.95e+00 a.174.1.1 77274 1nrgA 261 2.05e+00 b.45.1.1 80694 1d0cA 444 2.09e+00 d.174.1.1 64769 1mlwA 301 2.11e+00 d.178.1.1 79289 1ryt 190 2.58e+00 1ryt a.25.1.1 16646 g.41.5.1 45245 1sdwA 314 2.76e+00 b.121.1.2 -3024 b.121.1.2 -3025 1kk1A 410 3.02e+00 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1fnnA 389 3.22e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1lfdA 87 3.37e+00 1lfdA d.15.1.5 37622 1phm 310 3.40e+00 1phm b.121.1.2 59015 b.121.1.2 59016 1lkoA 191 3.41e+00 a.25.1.1 78063 g.41.5.1 78064 1f2rI 100 3.71e+00 1c9fA d.15.2.1 37641 1kwgA 645 4.27e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1d5rA 324 4.30e+00 1d5rA b.7.1.1 23181 c.45.1.1 32697 1t2aA 375 4.45e+00 c.2.1.2 -5764 1b71A 191 4.72e+00 1ryt a.25.1.1 16647 g.41.5.1 45246 1uch 230 4.91e+00 1uch d.3.1.6 37129 1ef1A 294 4.94e+00 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1pyaB 228 4.96e+00 1pyaB 1kz7A 353 4.98e+00 a.87.1.1 73333 b.55.1.1 73334 1jofA 365 5.12e+00 b.69.10.1 71775 1hw7A 255 5.12e+00 1i7fA d.193.1.1 61297 1hkfA 122 5.16e+00 b.1.1.1 83553 1fo8A 343 5.16e+00 1foaA c.68.1.10 59927 1s5pA 235 5.17e+00 c.31.1.5 -6774 1mo9A 523 5.18e+00 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1oktA 211 5.33e+00 a.45.1.1 -942 c.47.1.5 -7467 1l1oC 181 5.93e+00 b.40.4.3 73480 1sjwA 144 6.13e+00 unknown_sccs -9296 1r4kA 169 6.32e+00 unknown_sccs -3625 1cuk 203 6.71e+00 1hjp a.5.1.1 16273 a.60.2.1 17946 b.40.4.2 25265 1mngA 203 6.89e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 1cb8A 678 7.16e+00 1cb8A a.102.3.2 18849 b.24.1.1 23898 b.30.5.2 24422 1jeyA 609 7.27e+00 1jeqA unknown_sccs -4426 unknown_sccs -7990 1cjbA 231 7.32e+00 1qk3A c.61.1.1 34079 1scfA 273 7.77e+00 1exzA a.26.1.2 16873 1se9A 126 7.80e+00 d.15.1.1 -9145 1mg7A 417 8.50e+00 d.14.1.6 84954 d.58.26.6 84955 1sek 378 8.98e+00 1sek e.1.1.1 42675 1i6iA 366 9.27e+00 1bg2 c.37.1.9 61844 1n62A 166 9.28e+00 a.56.1.1 80090 d.15.4.2 80091 1qtsA 247 9.33e+00 1qtsA b.1.10.1 22313 d.105.1.1 40789 1fpzA 212 9.38e+00 1fpzA c.45.1.1 59976 1furA 467 9.40e+00 1furA a.127.1.1 19403 1exmA 405 9.42e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1ma3A 253 9.46e+00 c.31.1.5 78883 1mc0A 368 9.65e+00 d.110.2.1 78937 d.110.2.1 78938 1dbhA 354 1.03e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1t95A 240 1.05e+01 1jj2B 337 1.06e+01 1ffkB b.43.3.2 63086 1pmi 440 1.08e+01 1pmi b.82.1.3 28114 1floA 422 1.08e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1s72B 338 1.11e+01 1msc 129 1.12e+01 1msc d.85.1.1 40039 2sas 185 1.12e+01 2sas a.39.1.5 17258 1ii7A 333 1.15e+01 1ii7A d.159.1.4 62415 1k07A 263 1.18e+01 d.157.1.1 77218 1dwnA 127 1.18e+01 1dwnA d.85.1.1 40141 1ni3A 392 1.19e+01 c.37.1.8 80531 d.15.10.2 80532 1nc7A 138 1.19e+01 b.123.1.1 85549 1h4uA 265 1.21e+01 1h4uA d.22.1.2 60622 g.3.11.5 60623 1j05B 121 1.22e+01 b.1.1.1 -2251 1rzjG 321 1.25e+01 d.172.1.1 -11666 1i5pA 633 1.28e+01 1i5pA b.18.1.3 61817 b.77.2.1 61818 f.1.3.1 61819 1oaqH 121 1.35e+01 b.1.1.1 -2287 1o4yA 288 1.36e+01 b.29.1.2 -3404 1g9mG 321 1.36e+01 1gc1G d.172.1.1 42492 1e8yA 966 1.39e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1hziA 129 1.46e+01 1rcb a.26.1.2 61449 1jj22 92 1.46e+01 1ffkZ 1s723 92 1.46e+01 2hft 218 1.52e+01 1boy b.1.2.1 21951 b.1.2.1 21952 1oeyA 83 1.54e+01 d.15.2.2 -9162 1epwA 1290 1.59e+01 b.29.1.6 24269 b.42.4.2 25614 d.92.1.7 40305 h.4.2.1 45785 1ryjA 70 1.60e+01 d.15.3.2 -9179 1kyfA 247 1.60e+01 b.1.10.1 73220 d.105.1.1 73221 1hkxA 147 1.62e+01 d.17.4.7 83567 2pil 159 1.62e+01 2pil d.24.1.1 38376 1nqcA 217 1.63e+01 d.3.1.1 86024 1memA 215 1.64e+01 1cs8A d.3.1.1 37069 1pbyA 489 1.68e+01 a.3.1.7 -178 a.3.1.7 -179 b.1.18.14 -2762 b.1.18.14 -2763 b.61.4.1 -4528 1j8uA 325 1.70e+01 d.178.1.1 71611 1h9mA 145 1.72e+01 1h9jA b.40.6.2 60833 b.40.6.2 60834 1j8fA 323 1.74e+01 1j8fA c.31.1.5 62738 1foeA 377 1.74e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1gg3A 279 1.81e+01 1ef1A a.11.2.1 16372 b.55.1.5 27007 d.15.1.4 37615 1dt9A 437 1.89e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1s0uA 408 1.94e+01 b.43.3.1 -4053 b.44.1.1 -4061 c.37.1.8 -7096 1lqaA 346 1.94e+01 c.1.7.1 84674 1p4xA 250 1.96e+01 a.4.5.28 87784 a.4.5.28 87785 1inp 400 1.96e+01 1inp e.7.1.1 42972 2pth 193 1.97e+01 2pth c.56.3.1 33793 1g0sA 209 1.97e+01 1g0sA d.113.1.1 60187 1n0xH 230 2.01e+01 b.1.1.1 -2201 b.1.1.2 -2473 1ki1B 352 2.08e+01 a.87.1.1 72497 b.55.1.1 72498 1ee8A 266 2.12e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1us7B 265 2.15e+01 unknown_sccs -1518 4pah 308 2.16e+01 4pah d.178.1.1 42576 1v04A 355 2.25e+01 unknown_sccs -4592 1ha3A 405 2.25e+01 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1rcb 129 2.25e+01 1rcb a.26.1.2 16854 1led 243 2.32e+01 1led b.29.1.1 24039 1viuA 203 2.32e+01 d.113.1.1 -10889 1rcwA 231 2.41e+01 unknown_sccs -1921 1c4oA 664 2.42e+01 1d2mA c.37.1.19 32415 c.37.1.19 32416 1rwhA 757 2.44e+01 a.102.3.2 -1340 b.24.1.1 -3300 b.30.5.2 -3508 1qwzA 235 2.47e+01 b.100.1.1 -4543 1nijA 318 2.47e+01 c.37.1.10 85741 d.237.1.1 85742 1i36A 264 2.49e+01 a.100.1.8 71108 c.2.1.6 71109 1gl4A 285 2.56e+01 d.22.1.2 65286 g.3.11.5 65287 1qxfA 66 2.57e+01 g.41.8.4 -12822 1mzbA 136 2.59e+01 unknown_sccs -266 1v2dA 381 2.64e+01 1j2gA 319 2.67e+01 1idpA 172 2.69e+01 d.17.4.1 83685 1nt4A 391 2.71e+01 c.60.1.2 -7942 1kzfA 230 2.74e+01 d.108.1.3 73354 1mtpA 323 2.76e+01 e.1.1.1 85107 1v7rA 186 2.78e+01 c.51.4.1 -7546 1h09A 338 2.83e+01 b.109.1.1 83420 c.1.8.8 83421 1jmxA 494 2.86e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 6rxn 46 2.87e+01 1rb9 g.41.5.1 45222 1jeyB 565 2.98e+01 1jeqB unknown_sccs -4431 unknown_sccs -7995 1ckmA 330 2.99e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 2hpaA 342 3.00e+01 1cviA c.60.1.2 33985 1plq 258 3.06e+01 1plq d.131.1.2 41388 d.131.1.2 41389 1ollA 188 3.06e+01 b.1.1.4 -2690 b.1.1.4 -2691 1ldjA 760 3.17e+01 a.4.5.34 73847 a.118.17.1 73848 e.40.1.1 73849 1p9qC 256 3.18e+01 2cmd 312 3.20e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1lldA 319 3.21e+01 3ldh c.2.1.5 30177 d.162.1.1 42144 1nd6A 354 3.21e+01 c.60.1.2 80407 1cbf 285 3.25e+01 1cbf c.90.1.1 35587 1d8hA 311 3.35e+01 1d8iA d.63.1.1 39544 1e7lA 157 3.47e+01 1en7A a.140.4.1 64728 d.4.1.5 64729 1luaA 287 3.56e+01 c.2.1.7 78216 c.58.1.4 78217 1gcvB 136 3.56e+01 1cg5B a.1.1.2 15589 1o5iA 249 3.58e+01 c.2.1.2 -5833 1fc1A 224 3.59e+01 1igtB b.1.1.2 21520 b.1.1.2 21521 1xvaA 292 3.62e+01 1xvaA c.66.1.5 34183 1fjgQ 105 3.64e+01 1fjfQ b.40.4.5 25352 1l3aA 228 3.67e+01 d.18.1.2 73531 1o20A 427 3.69e+01 c.82.1.1 86556 1sdoA 203 3.69e+01 unknown_sccs -7558 1poiA 317 3.70e+01 1poiA unknown_sccs 34153 1ntyA 311 3.73e+01 1j5yA 187 3.75e+01 a.4.5.1 71592 d.94.2.1 71593 1ewqA 765 3.79e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743 1jf2A 195 3.83e+01 1ej3A a.39.1.5 62930 1cvl 319 3.83e+01 1cvl c.69.1.18 34786 1afb1 154 3.84e+01 1rtm1 1f83A 425 3.85e+01 1f82A d.92.1.7 40306 1jli 112 3.88e+01 1jli a.26.1.2 16884 1pu5A 164 3.88e+01 1rj9A 304 3.98e+01 a.24.13.1 -631 c.37.1.10 -7129 1dp0A 1023 3.99e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845