# List of top-scoring protein chains for 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.soe.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 1hzmA 154 1.90e-15 c.46.1.1 65975 2oucA 142 1.22e-13 1c25A 161 2.06e-13 c.46.1.1 32698 1ymkA 175 4.83e-13 c.46.1.1 123699 1cwtA 178 4.85e-13 1c25 c.46.1.1 32702 2ifdA 175 4.93e-13 1qb0A 211 5.13e-13 1c25 c.46.1.1 32699 2ifvA 175 6.18e-13 2a2kA 175 1.49e-12 1e0cA 271 7.87e-09 1e0cA c.46.1.2 32717 c.46.1.2 32718 1urhA 280 1.73e-08 c.46.1.2 99829 c.46.1.2 99830 1uarA 285 1.86e-08 c.46.1.2 107762 c.46.1.2 107763 1yt8A 539 5.60e-08 c.46.1.2 123996 c.46.1.2 123997 c.46.1.2 123998 c.46.1.2 123999 1gmxA 108 8.24e-08 c.46.1.3 65355 1tq1A 129 1.39e-07 c.46.1.3 107198 1dp2A 293 2.24e-07 1rhs c.46.1.2 32705 c.46.1.2 32706 1rhsA 296 2.25e-07 c.46.1.2 32703 c.46.1.2 32704 1rhdA 293 3.39e-07 c.46.1.2 32715 c.46.1.2 32716 2eg4A 230 1.90e-06 1t3kA 152 3.57e-06 c.46.1.1 106357 1whbA 157 3.67e-06 c.46.1.4 114639 2j6pA 152 5.91e-06 2gwfA 157 6.35e-06 c.46.1.4 135802 2hhgA 139 1.03e-05 2k0zA 110 2.11e-05 1qxnA 137 5.71e-05 c.46.1.3 96537 1okgA 373 2.39e-04 c.46.1.2 93250 c.46.1.2 93251 d.26.1.3 93252 2fsxA 148 8.62e-03 1wv9A 94 1.89e-02 1veeA 134 6.84e-01 1xl3C 92 9.62e-01 a.243.1.1 122104 2cyeA 133 2.17e+00 d.38.1.1 131021 2yvtA 260 2.22e+00 1ns5A 155 2.47e+00 c.116.1.3 80705 1qqhA 144 3.76e+00 1dtoA b.91.1.1 28404 2ooqA 286 3.96e+00 1tueB 218 5.13e+00 b.91.1.1 107324 1agqA 135 5.36e+00 1agqA g.17.1.2 44789 1ml8A 134 5.88e+00 d.227.1.2 85013 1dqzA 280 6.27e+00 1dqyA c.69.1.3 34638 1dqyA 283 6.33e+00 1dqyA c.69.1.3 34640 1va5A 303 6.74e+00 c.69.1.3 108464 1vhrA 184 7.31e+00 1vhrA c.45.1.1 32651 2oodA 475 7.42e+00 3pcgA 200 8.32e+00 3pchA b.3.6.1 22647 3pchA 200 8.32e+00 3pchA b.3.6.1 22653 2pa5A 314 8.81e+00 2q47A 151 9.31e+00 c.45.1.1 139827 1spgA 143 9.71e+00 1abwA a.1.1.2 15409 1bcgA 77 1.07e+01 g.3.7.1 44130 2nszA 129 1.12e+01 a.118.1.14 138560 2ivfA 976 1.12e+01 2ggfA 137 1.14e+01 1x8xA 322 1.15e+01 2hm8A 136 1.19e+01 1vbmA 318 1.22e+01 2ionA 152 1.26e+01 a.118.1.14 137575 2iosA 150 1.26e+01 a.118.1.14 137576 2e0tA 151 1.27e+01 2vklA 90 1.31e+01 2qbvA 90 1.31e+01 1s31A 273 1.36e+01 2bklA 695 1.37e+01 1vi4A 174 1.46e+01 c.8.7.1 100731 2ifrA 206 1.53e+01 b.29.1.20 137346 1m1nB 522 1.58e+01 c.92.2.3 78418 1g20B 523 1.58e+01 1qguB c.92.2.3 35614 1kg0C 136 1.64e+01 d.169.1.1 72445 1v61A 132 1.68e+01 b.55.1.1 108389 1mj1A 405 1.72e+01 i.1.1.1 79175 1ei1A 391 1.81e+01 1aj6 d.14.1.3 37570 d.122.1.2 41104 1z7gA 217 1.91e+01 c.61.1.1 124624 1q2yA 140 1.95e+01 d.108.1.1 95655 2af7A 125 2.03e+01 a.152.1.2 126658 1b1yA 500 2.06e+01 1byb c.1.8.1 28796 1x31B 404 2.30e+01 2q05A 195 2.40e+01 1j8hD 212 2.52e+01 b.1.1.1 71606 b.1.1.2 71607 1ntjA 320 2.55e+01 2bn8A 87 2.70e+01 2e0zA 345 2.87e+01 1sfrA 304 2.92e+01 c.69.1.3 105500 2btyA 282 2.95e+01 c.73.1.2 129161 1f0nA 285 2.99e+01 1dqyA c.69.1.3 34636 1sbqA 189 3.01e+01 c.124.1.6 105412 1n1tA 641 3.27e+01 b.29.1.15 79821 b.68.1.1 79822 2agsA 652 3.31e+01 b.29.1.15 126737 b.68.1.1 126738 1nu9C 281 3.46e+01 a.8.6.1 92200 a.8.6.1 92201 1nu7D 282 3.48e+01 a.8.6.1 92191 a.8.6.1 92192 1nqlA 624 3.64e+01 c.10.2.5 86033 c.10.2.5 86034 g.3.9.1 86035 g.3.9.1 86036 2d1gA 498 3.68e+01 2k29A 53 3.70e+01 1tzna 181 3.76e+01 1vetA 124 3.77e+01 d.110.7.1 108553 2jd4A 383 3.79e+01 1r76A 408 3.81e+01 a.102.5.1 104830 1shuX 182 3.82e+01 c.62.1.1 98882 1shtX 181 3.88e+01 c.62.1.1 98881 1omiA 248 3.95e+01 a.4.5.4 87080 b.82.3.3 87079 2nncA 124 3.99e+01