# 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 1psuA 140 5.72e-19 d.38.1.5 88285 2fs2A 151 6.10e-19 1j1yA 136 1.52e-16 d.38.1.5 90776 1wluA 136 1.92e-16 1zkiA 133 6.39e-16 2b6eA 146 8.69e-13 1o0iA 138 1.31e-12 d.38.1.5 86532 1yliA 153 3.51e-12 1q4uA 151 2.02e-11 d.38.1.5 95828 1ixlA 131 2.09e-11 d.38.1.5 90717 1vh5A 148 3.10e-11 d.38.1.5 100642 1vpmA 169 1.63e-10 2gvhA 288 2.32e-10 1s5uA 138 2.66e-05 d.38.1.1 98573 2b3nA 159 4.47e-05 1njkA 156 6.46e-05 d.38.1.1 85818 1yocA 147 1.90e-04 2cyeA 133 5.13e-04 1c8uA 285 6.46e-04 1c8uA d.38.1.3,d.38.1.3 38547,38548 1sh8A 154 8.76e-04 d.38.1.5 105549 1t82A 155 1.87e-03 d.38.1.5 106639 1z54A 132 1.94e-03 1u1zA 168 4.54e-03 d.38.1.6 107602 2av9A 147 1.03e-02 2cwzA 141 1.48e-02 1z6bA 154 8.99e-02 2gf6A 135 2.94e-01 1iq6A 134 1.04e+00 d.38.1.4 76755 1tf4A 605 1.30e+00 1tf4A a.102.1.2,b.2.2.2 18827,22393 1fo0B 112 1.83e+00 1kb5B b.1.1.1 20631 1tbuA 118 1.83e+00 2f86B 143 1.99e+00 1lo7A 141 2.04e+00 d.38.1.1 74144 1r4vA 171 2.06e+00 a.197.1.1 97049 2aliA 158 2.24e+00 1bvqA 141 2.81e+00 1bvqA d.38.1.1 38542 1vckA 115 3.04e+00 1pn2A 280 3.14e+00 d.38.1.4,d.38.1.4 94930,94931 1g87A 614 3.76e+00 a.102.1.2,b.2.2.2 83275,83276 1fts 295 3.85e+00 1ng1 a.24.13.1,c.37.1.10 16968,32279 1meoA 209 4.27e+00 c.65.1.1 79035 1h9dA 134 4.76e+00 1cmoA b.2.5.6 60821 1y9qA 192 5.00e+00 1su8A 636 6.92e+00 e.26.1.2 98999 1q7fA 286 7.32e+00 b.68.9.1 96036 2ffsA 157 9.92e+00 1udsA 255 9.93e+00 d.14.1.4,d.101.1.1 99219,99220 1jjyA 636 1.05e+01 1jjyA 1mejA 223 1.09e+01 c.65.1.1 79029 1zo2A 129 1.15e+01 1te5A 257 1.19e+01 d.153.1.1 106795 1f3uA 118 1.39e+01 1f3uA b.65.1.1 27521 1nu5A 370 1.46e+01 c.1.11.2,d.54.1.1 92183,92184 1n9lA 109 1.53e+01 d.110.3.6 85468 1eysH 259 1.69e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 2bi0A 337 1.89e+01 2f57A 317 1.95e+01 1sdjA 310 2.23e+01 d.21.1.2,d.21.1.2 98807,98808 1xtoA 311 2.33e+01 1ayyA 151 2.39e+01 1apyA d.153.1.5 42016 1txqA 93 2.43e+01 2conA 79 2.49e+01 1qyaA 307 2.57e+01 d.21.1.2,d.21.1.2 104653,104654 1te0A 318 2.59e+01 1fqtA 112 2.63e+01 1fqtA b.33.1.1 24441 1vehA 92 2.70e+01 1xg5A 279 2.70e+01 1f7lA 121 2.92e+01 1f7lA d.150.1.2 59666 3proC 166 3.03e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1xahA 354 3.04e+01 1l0wA 580 3.06e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1wgzA 510 3.12e+01 1qcnA 421 3.28e+01 1qcnA b.34.8.1,d.177.1.1 59017,59018 1f7tA 122 3.39e+01 1f7lA d.150.1.2 59667 1q08A 99 3.40e+01 a.6.1.3 95497 1se8A 301 3.71e+01 b.40.4.3 105448 2ew8A 249 3.72e+01 1eaqA 140 3.74e+01 b.2.5.6 76144 1nnxA 109 3.75e+01 b.40.10.1 92013 1qcoA 423 3.94e+01 1qcnA b.34.8.1,d.177.1.1 59021,59022 1qqjA 419 4.15e+01 1qcnA b.34.8.1,d.177.1.1 59034,59035 2brqA 97 4.22e+01 1vrbA 342 4.28e+01 1okhA 46 4.31e+01 g.13.1.1 93253 1h09A 338 4.41e+01 b.109.1.1,c.1.8.8 83420,83421 1sotA 320 4.51e+01 b.36.1.4,b.47.1.1 105852,105853 3proD 166 4.83e+01 3proC d.52.1.1,d.52.1.1 38814,38815 1wloA 136 4.92e+01 1rm6A 769 5.04e+01 1dciA 275 5.29e+01 1dciA c.14.1.3 30918 2fm8A 135 5.34e+01 1qhoA 686 5.38e+01 1cxlA b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21844,22513,27751,28738 1fx4A 231 5.53e+01 1fx2A d.58.29.1 39431 1as8A 343 5.54e+01 1nif b.6.1.3,b.6.1.3 23074,23075 2essA 248 5.83e+01 1as6A 343 5.95e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1pmd 675 5.98e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1mkaA 171 6.03e+01 1mkaA d.38.1.2 38543 1bywA 110 6.05e+01 1bywA d.110.3.6 40912 1e50A 134 6.20e+01 1cmoA b.2.5.6 59244 1fib 269 6.40e+01 3fib d.171.1.1 42456 2as9A 210 6.42e+01 1mfqC 129 6.50e+01 a.36.1.1 79046 1lqtA 456 6.62e+01 c.3.1.1,c.4.1.1 74198,74199 1xer 103 6.67e+01 1xer d.58.1.3 38990 1rbp 182 6.84e+01 1aqb b.60.1.1 27085 1aipA 405 6.87e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 1ndh 272 6.89e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 2h1tA 188 6.91e+01 1o6sB 105 6.98e+01 b.1.6.1 81096 1a9v 129 7.02e+01 1a9v b.1.18.7 21946 1hyoA 421 7.03e+01 1qcnA b.34.8.1,d.177.1.1 59001,59002 1hkxA 147 7.06e+01 d.17.4.7 83567 2fibA 269 7.13e+01 3fib d.171.1.1 42457 1v05A 96 7.29e+01 3fib 249 7.36e+01 3fib d.171.1.1 42455 1ffk1 177 7.36e+01 1ffk1 1ksr 100 7.43e+01 1qfhA b.1.18.10 21897 1dxy 333 7.44e+01 1dxy c.2.1.4,c.23.12.1 30094,31354 1o8rA 94 7.47e+01 d.234.1.1 86677 1aipE 405 7.57e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1z9fA 153 7.92e+01 1fx2A 235 8.07e+01 1fx2A d.58.29.1 39430 1s9rA 410 8.09e+01 d.126.1.4 98758 1j9qA 341 8.11e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1l6oA 95 8.18e+01 b.36.1.1 84534 1qgeE 97 8.20e+01 1cvl 2g39A 497 8.24e+01 1hbq 183 8.26e+01 1aqb b.60.1.1 27078 1ayzA 169 8.27e+01 1u9aA d.20.1.1 38326 1snrA 341 8.44e+01 b.6.1.3,b.6.1.3 105823,105824 1ktjA 129 8.58e+01 b.1.18.7 72974 2f0aA 98 8.63e+01 1fmcA 255 8.63e+01 1cydA c.2.1.2 29856 1u94A 356 8.64e+01 c.37.1.11,d.48.1.1 107743,107744 1h3nA 878 8.65e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1b5pA 385 8.84e+01 c.67.1.1 90403 2bm8A 236 8.85e+01 1lxyA 409 8.95e+01 d.126.1.4 91154 2b29A 123 8.97e+01 1oa8A 133 9.00e+01 b.145.1.1 92698