# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1tbgA 340 1.94e-01 1tbgA b.69.4.1 27649 1gotB 340 4.02e-01 1tbgA b.69.4.1 27648 1jj2P 95 4.46e-01 1ffkN b.34.5.1 63101 1s72Q 96 4.73e-01 1f60B 94 1.24e+00 1b64 d.58.12.1 39307 1g7cB 94 1.32e+00 1b64 d.58.12.1 39308 1r6jA 82 1.32e+00 b.36.1.1 -3732 1ffkN 95 1.33e+00 1ffkN b.34.5.1 24606 1n99A 166 1.35e+00 b.36.1.1 85459 b.36.1.1 85460 1nteA 82 1.57e+00 b.36.1.1 86163 1aoa 275 1.77e+00 1aoa a.40.1.1 17396 a.40.1.1 17397 1ehiA 377 2.50e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1lc0A 294 3.06e+00 c.2.1.3 73823 d.81.1.4 73824 1erjA 393 3.09e+00 1erjA b.69.4.1 27660 1gcuA 295 3.23e+00 1gcuA c.2.1.3 30063 d.81.1.4 39978 1l7mA 211 4.22e+00 c.108.1.4 73664 3pfk 319 4.42e+00 3pfk c.89.1.1 35581 1sv6A 269 4.95e+00 1fvgA 199 4.97e+00 1fvaA d.58.28.1 39408 1c3oB 382 5.78e+00 1c3oB c.8.3.1 30744 c.23.16.1 31421 1j97A 211 5.97e+00 1f5sA c.108.1.4 62753 1cs0B 382 6.00e+00 1c3oB c.8.3.1 30740 c.23.16.1 31417 1f5sA 211 6.37e+00 1f5sA c.108.1.4 59656 1c0aA 585 6.39e+00 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1fvaA 217 6.78e+00 1fvaA d.58.28.1 39409 1viaA 175 6.80e+00 c.37.1.2 -7021 1e19A 314 7.07e+00 1b7bA c.73.1.1 34967 1dguA 183 7.23e+00 1dguA a.39.1.5 17333 1n0wA 243 7.58e+00 c.37.1.11 79772 1a9xB 379 7.86e+00 1c3oB c.8.3.1 30732 c.23.16.1 31409 1v7wA 807 7.93e+00 6pfkA 319 8.24e+00 3pfk c.89.1.1 35583 4pfk 319 8.88e+00 3pfk c.89.1.1 35582 1kwhA 492 8.99e+00 c.94.1.1 68876 1bdo 80 9.42e+00 1bdo b.84.1.1 28214 1ckeA 227 1.01e+01 1ckeA c.37.1.1 31846 1fokA 568 1.04e+01 2fokA a.4.5.12 16137 a.4.5.12 16138 a.4.5.12 16139 c.52.1.12 33325 1lqtA 456 1.04e+01 c.3.1.1 74198 c.4.1.1 74199 1hyuA 521 1.05e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1e3jA 352 1.06e+01 1e3jA b.35.1.2 24765 c.2.1.1 29781 1l6oA 95 1.08e+01 b.36.1.1 84534 1cs1A 386 1.09e+01 1ibjA c.67.1.3 34399 1i1sA 96 1.13e+01 1bjaA a.4.5.9 16124 1bj7 156 1.16e+01 1bj7 b.60.1.1 27113 1cvrA 435 1.16e+01 1cvrA b.1.18.12 21949 c.17.1.2 31006 2fokA 579 1.25e+01 2fokA a.4.5.12 16131 a.4.5.12 16132 a.4.5.12 16133 c.52.1.12 33323 1vjzA 341 1.28e+01 c.1.8.3 -5318 2cro 71 1.33e+01 1r69 a.35.1.2 17038 1xyzA 347 1.35e+01 1taxA c.1.8.3 28804 1f3lA 321 1.36e+01 1g6q2 c.66.1.6 59630 1cs1C 386 1.38e+01 1ibjA c.67.1.3 34401 1bolA 222 1.40e+01 1bolA d.124.1.1 41120 1qnaA 200 1.41e+01 1ytbA d.129.1.1 41226 d.129.1.1 41227 1mgqA 83 1.44e+01 b.38.1.1 79099 1eejA 216 1.46e+01 1eejA c.47.1.9 33057 d.17.3.1 38071 1ab4 477 1.48e+01 1ab4 e.11.1.1 43251 1lrzA 426 1.55e+01 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 4xiaA 393 1.67e+01 4xis c.1.15.3 29439 1h54B 754 1.78e+01 a.102.1.4 60636 b.30.5.3 60637 1b3qA 379 1.80e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1skoA 143 1.82e+01 1iu8A 206 1.83e+01 c.56.4.1 71436 1odzA 386 1.84e+01 c.1.8.3 86889 1gw1A 376 1.96e+01 c.1.8.3 76361 1q3eA 207 1.99e+01 b.82.3.2 -4922 1oejA 193 2.04e+01 unknown_sccs -4461 1j1nA 492 2.05e+01 c.94.1.1 83978 1o12A 376 2.05e+01 b.92.1.5 80758 c.1.9.10 80759 1rfzA 168 2.19e+01 unknown_sccs -1206 1srvA 145 2.24e+01 1derA c.8.5.1 30817 1t3lA 337 2.26e+01 1dsvA 31 2.32e+01 1dsvA g.40.1.1 45174 1df9A 191 2.34e+01 1befA b.47.1.3 26420 2tpsA 227 2.39e+01 2tpsA c.1.3.1 28591 1j9yA 385 2.43e+01 1j9yA c.1.8.3 62791 1phm 310 2.46e+01 1phm b.121.1.2 59015 b.121.1.2 59016 1i7xB 151 2.56e+01 1i7xB j.71.1.1 61914 1q7zA 566 2.57e+01 c.1.21.2 -5638 c.1.26.1 -5666 1jhgA 101 2.60e+01 1jhgA a.4.12.1 19009 1bjaA 95 2.62e+01 1bjaA a.4.5.9 16122 1dgqA 188 2.63e+01 1ido c.62.1.1 34131 1m4tA 392 2.63e+01 c.95.1.1 78617 c.95.1.1 78618 1umgA 362 2.65e+01 1sdwA 314 2.67e+01 b.121.1.2 -3024 b.121.1.2 -3025 1jdiA 231 2.69e+01 c.74.1.1 66551 1adz 71 2.75e+01 1bpi g.8.1.1 44542 1ojxA 263 3.00e+01 c.1.10.1 -5445 1draA 159 3.00e+01 1vdrA c.71.1.1 34831 2wrpR 107 3.01e+01 1jhgA a.4.12.1 19010 1ra9 159 3.04e+01 1vdrA c.71.1.1 34820 1kkhA 317 3.10e+01 d.14.1.5 72645 d.58.26.3 72646 1jajA 174 3.12e+01 d.218.1.2 66471 3sdhA 146 3.12e+01 3sdhA a.1.1.2 14984 1sjwA 144 3.15e+01 unknown_sccs -9296 1khvA 516 3.17e+01 e.8.1.4 68627 1qflA 389 3.20e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1ux5A 411 3.30e+01 unknown_sccs -1768 1m3kA 392 3.30e+01 c.95.1.1 78565 c.95.1.1 78566 1gw5S 142 3.43e+01 d.110.4.2 70633 6dfr 159 3.46e+01 1vdrA c.71.1.1 34874 1bag 425 3.49e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1vdkA 466 3.54e+01 a.127.1.1 -1752 1vgwA 231 3.56e+01 c.68.1.13 -8237 1ursA 402 3.57e+01 c.94.1.1 -8651 1st9A 143 3.58e+01 c.47.1.10 -7503 1oo2A 119 3.62e+01 b.3.4.1 -2925 1s72T 120 3.65e+01 1a3gA 308 3.66e+01 1daaA e.17.1.1 43286 1h6qA 168 3.68e+01 1h6qA b.88.1.2 60692 1kppA 145 3.70e+01 d.20.1.2 72846 1l1yA 678 3.72e+01 a.102.1.2 73486 1i1kA 309 3.77e+01 1daaA e.17.1.1 61533 1vokA 200 3.78e+01 1ytbA d.129.1.1 41242 d.129.1.1 41243 1befA 181 3.83e+01 1befA b.47.1.3 26419 1trrA 107 3.87e+01 1jhgA a.4.12.1 19017 1nxuA 333 3.89e+01 c.122.1.1 86389 1ujnA 348 3.91e+01 e.22.1.1 -11998 1qkkA 155 3.97e+01 1dbwA c.23.1.1 31104