# List of top-scoring protein chains for T0221.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.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 1dnyA 91 1.46e-11 1dnyA a.28.1.2 16934 1l0hA 78 4.11e-08 a.28.1.1 77642 1l0iA 78 4.27e-08 a.28.1.1 77643 1acp 77 4.86e-08 1acp a.28.1.1 16931 1hy8A 76 1.21e-07 a.28.1.1 65959 1klpA 115 2.20e-07 a.28.1.1 72721 1af8 86 3.24e-06 2af8 a.28.1.1 16932 1n8lA 89 3.48e-06 a.28.1.1 85421 1f80D 80 1.60e-05 1acp a.28.1.1 59686 1nq4A 95 4.05e-05 1or5A 83 5.31e-05 a.28.1.1 87331 1fh1A 92 3.27e-04 1fh1A i.11.1.1 46014 1dv5A 80 8.81e-03 1dv5A a.28.1.3 59139 1br2A 791 7.86e-01 1lvk b.34.3.1 24558 c.37.1.9 32155 1br1A 820 8.02e-01 1lvk b.34.3.1 24564 c.37.1.9 32161 1i84S 1184 1.07e+00 1lvk i.15.1.1 61940 1j3mA 129 1.10e+00 1amuA 563 1.47e+00 1amuA e.23.1.1 43351 1qhhA 167 2.52e+00 1pjr c.37.1.19 32393 1mvwA 840 3.35e+00 i.15.1.1 79523 2mysA 843 3.36e+00 1lvk b.34.3.1 24557 c.37.1.9 32154 1culA 217 4.95e+00 1azsA d.58.29.1 39417 1azsA 220 4.96e+00 1azsA d.58.29.1 39416 1cs4A 225 5.03e+00 1azsA d.58.29.1 39418 2apr 325 5.77e+00 2er7E b.50.1.2 26819 1icrA 217 6.06e+00 1vfrA d.90.1.1 62274 1jilA 420 6.14e+00 c.26.1.1 66745 1kfwA 435 6.35e+00 c.1.8.5 77376 d.26.3.1 77377 1e1oA 504 6.42e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1fmvA 761 6.52e+00 1lvk b.34.3.1 24580 c.37.1.9 32177 1mmn 762 6.59e+00 1lvk b.34.3.1 24582 c.37.1.9 32179 1vom 762 6.67e+00 1lvk b.34.3.1 24577 c.37.1.9 32174 1mmg 762 6.69e+00 1lvk b.34.3.1 24579 c.37.1.9 32176 1j1dB 106 6.82e+00 h.1.25.1 83964 1lvk 762 6.90e+00 1lvk b.34.3.1 24576 c.37.1.9 32173 1rpnA 335 7.01e+00 1mma 762 7.38e+00 1lvk b.34.3.1 24587 c.37.1.9 32184 1c3cA 429 7.39e+00 1c3cA a.127.1.1 19425 1d0yA 761 7.40e+00 1lvk b.34.3.1 24581 c.37.1.9 32178 1c3uA 431 7.42e+00 1c3cA a.127.1.1 19427 1jx2A 776 7.47e+00 b.34.3.1 67402 c.37.1.9 67403 1lssA 140 7.57e+00 c.2.1.9 74246 1v32A 101 7.93e+00 1qo2A 241 7.97e+00 1qo2A c.1.2.1 28533 1g8xA 1010 8.13e+00 1lvk k.1.1.1 46378 1cuv 214 1.02e+01 1cex c.23.9.1 31318 1j5tA 242 1.05e+01 c.1.2.4 71583 1i4nA 251 1.06e+01 c.1.2.4 71114 1necA 216 1.07e+01 1vfrA d.90.1.1 40249 1kqbA 217 1.08e+01 d.90.1.1 68798 1b2sD 90 1.26e+01 1ay7B c.9.1.1 30837 1uflA 116 1.29e+01 2pjrA 548 1.30e+01 1pjr c.37.1.19 32395 c.37.1.19 32396 1ka2A 499 1.34e+01 d.92.1.5 77305 1pyaB 228 1.35e+01 1pyaB 1tubA 440 1.48e+01 1tubA c.32.1.1 31751 d.79.2.1 39803 1ffxA 451 1.50e+01 1tubA i.10.1.1 46007 1sa0A 451 1.51e+01 1jffA 451 1.51e+01 c.32.1.1 62932 d.79.2.1 62933 1rmvA 157 1.57e+01 1rmvA a.24.5.1 16589 1bjfA 193 1.61e+01 1rec a.39.1.5 17331 1gq1A 567 1.61e+01 a.3.1.2 76264 b.70.2.1 76265 1hj5A 567 1.62e+01 1qksA a.3.1.2 15927 b.70.2.1 27684 1kcfA 258 1.70e+01 a.140.2.1 68434 c.55.3.7 68435 1cuwA 214 1.76e+01 1cex c.23.9.1 31324 1o6vA 466 1.76e+01 b.1.18.15 81099 c.10.2.1 81100 1qksA 567 1.80e+01 1qksA a.3.1.2 15951 b.70.2.1 27710 1mifA 115 1.80e+01 1dptA d.80.1.3 39852 1e2rA 567 1.81e+01 1qksA a.3.1.2 15953 b.70.2.1 27712 1bsvA 321 1.89e+01 1bsvA c.2.1.2 29809 1ay7B 89 1.89e+01 1ay7B c.9.1.1 30836 1o4vA 183 1.89e+01 c.23.8.1 86628 1bwsA 321 1.90e+01 1bsvA c.2.1.2 29812 1e6uA 321 1.90e+01 1bsvA c.2.1.2 29805 3pcgM 238 1.99e+01 3pchM b.3.6.1 22742 1pjr 724 2.00e+01 1pjr c.37.1.19 32391 c.37.1.19 32392 3pcdM 238 2.01e+01 3pchM b.3.6.1 22778 1e7rA 321 2.02e+01 1bsvA c.2.1.2 29808 1e7sA 321 2.03e+01 1bsvA c.2.1.2 29806 1e7qA 321 2.03e+01 1bsvA c.2.1.2 29807 1ljtA 114 2.04e+01 d.80.1.3 78053 1gd0A 122 2.06e+01 1dptA d.80.1.3 39834 1h0oA 390 2.06e+01 a.25.1.2 70845 1cgqA 115 2.07e+01 1dptA d.80.1.3 39843 1gifA 115 2.09e+01 1dptA d.80.1.3 39837 1d4m1 299 2.14e+01 1aym1 1oj4A 283 2.15e+01 1m1lA 236 2.18e+01 1dptA 117 2.26e+01 1dptA d.80.1.3 39862 1b3sD 90 2.29e+01 1ay7B c.9.1.1 30846 1orrA 347 2.30e+01 1dfkA 830 2.38e+01 1lvk b.34.3.1 24573 c.37.1.9 32170 1dflA 831 2.38e+01 1lvk b.34.3.1 24574 c.37.1.9 32171 1b7tA 835 2.42e+01 1lvk b.34.3.1 24572 c.37.1.9 32169 1kk8A 837 2.42e+01 b.34.3.1 77428 c.37.1.9 77429 1qviA 840 2.43e+01 1p1gA 114 2.44e+01 1dptA d.80.1.3 39849 1brsD 89 2.53e+01 1ay7B c.9.1.1 30825 1b27D 90 2.57e+01 1ay7B c.9.1.1 30840 1i51B 105 2.71e+01 1a19A 90 2.71e+01 1ay7B c.9.1.1 30831 1gpwA 253 2.78e+01 c.1.2.1 65460 1vh7A 265 2.80e+01 1kq3A 376 2.92e+01 e.22.1.2 68790 1uizA 115 2.94e+01 1iuz 98 3.01e+01 1plc b.6.1.1 22861 1c0aA 585 3.04e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1il2A 590 3.08e+01 b.40.4.1 66193 d.74.4.1 66194 d.104.1.1 66195 1ireA 204 3.12e+01 d.149.1.1 76769 1thfD 253 3.15e+01 1thfD c.1.2.1 28535 1v5tA 90 3.22e+01 1tmf1 276 3.26e+01 2mev1 1gl2B 65 3.31e+01 h.1.15.1 65279 1abe 306 3.34e+01 8abp c.93.1.1 35648 1eemA 241 3.40e+01 1eemA a.45.1.1 17717 c.47.1.5 33011 1bap 306 3.52e+01 8abp c.93.1.1 35654 1nukA 183 3.56e+01 1nukA b.18.1.4 23721 1n2tA 386 3.58e+01 c.67.1.3 79858 1b2uD 90 3.58e+01 1ay7B c.9.1.1 30843 1nm2A 317 3.58e+01 c.19.1.1 80654 d.58.23.1 80655 1khvA 516 3.65e+01 e.8.1.4 68627 1pu6A 218 3.71e+01 1lm8B 118 3.73e+01 d.15.1.1 74033 8abp 306 3.73e+01 8abp c.93.1.1 35647 1kgyA 181 3.74e+01 b.18.1.4 72449 1i50J 70 3.76e+01 a.4.11.1 61764 1shwB 181 3.77e+01 1ghtA 105 3.84e+01 2rslA c.53.1.1 60526 1mliA 96 3.95e+01 1bolA 222 3.99e+01 1bolA d.124.1.1 41120