# List of top-scoring protein chains for t2k-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 1.38e+00 1vi4A 174 2.36e+00 c.8.7.1 100731 1adeA 431 3.27e+00 1adeA c.37.1.10 32213 1z5vA 474 4.16e+00 1ru3A 732 4.59e+00 e.26.1.3 97835 3erk 364 5.08e+00 1hcl d.144.1.7 41654 1ojjA 402 5.61e+00 b.29.1.10 93130 1pme 380 5.68e+00 1hcl d.144.1.7 41653 1eiyB 785 5.69e+00 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 16305,16306,25314,39313,40782,41458 1tvoA 368 6.30e+00 1ibsA 317 6.82e+00 c.61.1.2,c.61.1.2 66107,66108 1qf5A 431 6.91e+00 1adeA c.37.1.10 32212 1dkuA 317 7.70e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1tlfA 301 8.45e+00 1tlfA c.93.1.1 35687 1t9hA 307 8.91e+00 1pysB 785 9.45e+00 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 16299,16300,25311,39310,40779,41455 1npdA 288 9.53e+00 c.2.1.7,c.58.1.5 80681,80682 1v3fA 120 1.02e+01 a.4.5.31 100289 1zz2A 360 1.08e+01 2df7A 458 1.11e+01 1efaA 333 1.13e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 1dkrA 317 1.14e+01 1dkuA c.61.1.2,c.61.1.2 34114,34115 2evaA 307 1.20e+01 1wcdJ 441 1.34e+01 1tksA 204 1.42e+01 d.115.1.2 107114 1vi2A 300 1.46e+01 c.2.1.7,c.58.1.5 100726,100727 1ywrA 360 1.48e+01 1vpwA 340 1.55e+01 1qpzA a.35.1.5,c.93.1.1 17087,35680 1n6eA 1071 1.55e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 80149,80150,80151,80152 1q5xA 161 1.60e+01 c.8.7.1 95947 1jftA 340 1.61e+01 a.35.1.5,c.93.1.1 66652,66653 1b7yB 785 1.66e+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 1ls1A 295 1.75e+01 a.24.13.1,c.37.1.10 78170,78171 1x84A 189 1.82e+01 1r3cA 366 1.85e+01 d.144.1.7 96906 1wetA 340 1.92e+01 1qpzA a.35.1.5,c.93.1.1 17093,35670 1dbiA 280 1.92e+01 1gci c.41.1.1 32543 1zzlA 351 1.92e+01 1mp8A 281 1.93e+01 d.144.1.7 91384 1egdA 396 2.07e+01 3mdeA a.29.3.1,e.6.1.1 16596,42857 1ufoA 238 2.09e+01 c.69.1.27 99344 1wbsA 360 2.10e+01 1jyeA 349 2.12e+01 c.93.1.1 67455 1dymA 402 2.15e+01 1celA b.29.1.10 24304 1i12A 160 2.17e+01 1i21A d.108.1.1 61515 2d13A 227 2.23e+01 1i1dA 161 2.23e+01 1i21A d.108.1.1 61526 1pydA 556 2.25e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1w27A 714 2.26e+01 1i21A 159 2.27e+01 1i21A d.108.1.1 61549 2lh2 153 2.33e+01 2gdm a.1.1.2 15220 1i9aA 182 2.37e+01 1i9aA d.113.1.2 62082 2gfsA 372 2.37e+01 2di4A 238 2.40e+01 1zbmA 280 2.40e+01 1qdlB 195 2.46e+01 1qdlB c.23.16.1 31437 1mx3A 347 2.46e+01 c.2.1.4,c.23.12.1 79638,79639 1qpzA 340 2.49e+01 1qpzA a.35.1.5,c.93.1.1 17097,35673 1i74A 309 2.70e+01 1i74A c.107.1.1 61867 1pmd 675 2.73e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1k32A 1045 2.84e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 1xrtA 467 2.89e+01 1d3uB 201 2.92e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 1ui0A 205 2.93e+01 c.18.1.2 99411 1coy 507 2.95e+01 1b8sA c.3.1.2,d.16.1.1 30333,37864 2b9hA 353 2.99e+01 1gdj 153 3.02e+01 2gdm a.1.1.2 15213 3cox 507 3.03e+01 1b8sA c.3.1.2,d.16.1.1 30332,37863 1wraA 308 3.06e+01 1dbqA 289 3.16e+01 1qpzA c.93.1.1 35666 1ru8A 232 3.17e+01 c.26.2.1 97849 1e1xA 299 3.19e+01 1hcl d.144.1.7 59157 1pmnA 364 3.25e+01 d.144.1.7 94907 1a39 402 3.31e+01 1celA b.29.1.10 24305 1gz8A 299 3.44e+01 d.144.1.7 83405 1autC 250 3.46e+01 5ptp b.47.1.2 26348 1ooeA 236 3.59e+01 c.2.1.2 87196 1oaoC 729 3.59e+01 e.26.1.3 86746 1jvpP 298 3.81e+01 d.144.1.7 67371 2fvgA 340 3.84e+01 1mjgM 729 3.88e+01 e.26.1.3 79204 1lh1 153 3.89e+01 2gdm a.1.1.2 15222 1blxA 326 4.01e+01 1hcl d.144.1.7 41596 1hcl 298 4.02e+01 1hcl d.144.1.7 41593 1uf2A 1019 4.06e+01 e.28.1.2 99289 1z57A 339 4.09e+01 1j1bA 420 4.22e+01 d.144.1.7 90758 1m2xA 223 4.23e+01 d.157.1.1 84764 1rxyA 253 4.23e+01 c.56.2.1 98065 2gdm 153 4.32e+01 2gdm a.1.1.2 15212 1i9sA 210 4.57e+01 1i9sA c.45.1.1 62099 1q8uA 350 4.79e+01 d.144.1.7 96230 1fjsA 234 4.80e+01 1ucyE b.47.1.2 26336 1h1wA 289 4.80e+01 d.144.1.7 83460 1vj0A 380 4.81e+01 b.35.1.2,c.2.1.1 100786,100787 1ymiA 334 4.87e+01 2mspA 126 4.93e+01 1mspA b.1.11.2 22335 1w1oA 534 4.94e+01 d.58.32.4,d.145.1.1 109071,109072 1zzoA 136 4.99e+01 2bmhA 455 5.15e+01 1bu7A a.104.1.1 18941 1g2lA 235 5.15e+01 b.47.1.2 65112 1q41A 424 5.20e+01 d.144.1.7 95774 2a19B 284 5.24e+01 1i3kA 348 5.27e+01 1xel c.2.1.2 61595 1w1hA 151 5.45e+01 1v4xA 144 5.46e+01 a.1.1.2 108363 1iukA 140 5.48e+01 c.2.1.8 83712 1uu3A 310 5.55e+01 d.144.1.7 99999 1gp1A 198 5.62e+01 1gp1A c.47.1.10 33059 2beiA 170 5.63e+01 2g76A 335 5.82e+01 1c5mD 255 5.85e+01 5ptp b.47.1.2 26338 1q1gA 276 5.88e+01 c.56.2.1 95574 1j8mF 297 5.97e+01 1ng1 a.24.13.1,c.37.1.10 62742,62743 1gheA 177 5.99e+01 d.108.1.1 76222 2fi9A 128 6.07e+01 1dleA 298 6.09e+01 1dleA b.47.1.2 26312 1k3fA 253 6.10e+01 c.56.2.1 68105 1g3qA 237 6.19e+01 1hyqA c.37.1.10 60237 2f2sA 406 6.27e+01 1uirA 314 6.30e+01 c.66.1.17 99429 1bg6 359 6.38e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1h5zA 455 6.45e+01 a.104.1.1 90622 1d2qA 173 6.48e+01 1d4vB b.22.1.1 23894 1zjkA 403 6.58e+01 1ad0A 213 6.63e+01 8fabA b.1.1.1,b.1.1.2 20124,21154 1etpA 190 6.82e+01 1etpA a.3.1.4,a.3.1.4 15962,15963 1oywA 523 6.92e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 3cbh 365 6.94e+01 1bvwA c.6.1.1 30665 1hcgA 241 7.09e+01 5ptp b.47.1.2 26341 1zy4A 303 7.12e+01 1mo2A 294 7.21e+01 c.69.1.22 79331 1cdkA 350 7.23e+01 1cdkA d.144.1.7 41620 3mddA 385 7.24e+01 3mdeA a.29.3.1,e.6.1.1 16592,42853 1aquA 297 7.29e+01 1aquA c.37.1.5 31942 1ek6A 348 7.44e+01 1xel c.2.1.2 29800 2c46A 241 7.47e+01 2vhbA 146 7.48e+01 2vhbA a.1.1.2 15629 2bn2A 95 7.52e+01 1npoA b.9.1.1 23266 1jkeA 145 7.62e+01 c.110.1.1 66791 2aj2A 208 7.62e+01 1in4A 334 7.65e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1f5sA 211 7.81e+01 1f5sA c.108.1.4 59656 1top 162 7.81e+01 1ncx a.39.1.5 17223 1lzlA 323 7.83e+01 c.69.1.2 78306 2anxA 146 7.89e+01 2bsxA 253 7.93e+01 1m70A 190 7.93e+01 a.3.1.4,a.3.1.4 91200,91201 1neu 124 7.93e+01 1neu b.1.1.1 19704 1jwhA 337 7.98e+01 d.144.1.7 71913 1xh9A 350 8.02e+01 1lx7A 253 8.08e+01 c.56.2.1 74329 1mrzA 293 8.26e+01 b.43.5.1,c.26.1.3 91452,91453 1ufaA 520 8.32e+01 a.8.3.3,c.6.2.4 99329,99330 1ep3B 262 8.35e+01 1ep2B b.43.4.2,c.25.1.3 25664,31554 2f20A 240 8.49e+01 1jf0A 195 8.50e+01 1ej3A a.39.1.5 62926 2bokA 241 8.52e+01 1jb0A 755 8.60e+01 1jb0A f.29.1.1 62820 1qd5A 275 8.68e+01 1qd5A f.4.2.1 43748 1qasA 622 8.70e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17340,23157,29585 1va4A 279 8.73e+01 c.69.1.12 108458 1eza 259 8.77e+01 1zymA a.60.10.1,c.8.1.2 18113,30708