# List of top-scoring protein chains for t04-100-30-CB_burial_14_7 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 1vhsA 175 5.15e-20 d.108.1.1 -10794 1tiqA 180 2.09e-19 1nslA 184 2.02e-16 d.108.1.1 86137 1s3zA 165 7.12e-15 1gheA 177 1.05e-14 d.108.1.1 76222 1qsmA 152 2.63e-14 1qsmA d.108.1.1 40808 1i1dA 161 2.77e-14 1i21A d.108.1.1 61526 1qsoA 149 4.52e-14 1qsmA d.108.1.1 40812 1i12A 160 6.42e-14 1i21A d.108.1.1 61515 1mk4A 157 1.14e-13 d.108.1.1 84979 1on0A 158 6.03e-13 d.108.1.1 87095 1n71A 180 1.20e-12 d.108.1.1 85370 1qstA 160 3.91e-12 1yghA d.108.1.1 40804 1cjwA 166 5.79e-12 1cjwA d.108.1.1 40818 1q2yA 140 7.37e-12 d.108.1.1 -10791 1p0hA 318 1.48e-11 d.108.1.1 -10802 1bo4A 168 2.33e-11 1bo4A d.108.1.1 40798 1yghA 164 1.21e-09 1yghA d.108.1.1 40802 1m4iA 181 8.05e-07 d.108.1.1 74457 1sqhA 312 9.95e-07 unknown_sccs -10812 1bob 320 6.74e-06 1bob d.108.1.1 40816 1fy7A 278 2.28e-03 1fy7A d.108.1.1 40817 1iicA 422 2.33e-03 1nmtA d.108.1.2 62422 d.108.1.2 62423 1pbjA 125 2.78e-01 d.37.1.1 -9608 d.37.1.1 -9609 1vicA 262 6.06e-01 c.68.1.13 -8252 1o50A 157 8.26e-01 d.37.1.1 -9604 d.37.1.1 -9605 1hrkA 359 9.30e-01 1hrkA c.92.1.1 61228 1oh0A 131 1.15e+00 d.17.4.3 87004 1ne9A 335 1.25e+00 d.108.1.4 -10805 d.108.1.4 -10806 1o5oA 221 1.38e+00 c.61.1.1 -7954 1mo7A 213 1.73e+00 d.220.1.1 85028 1hdoA 206 1.85e+00 1he2A c.2.1.2 60965 1lrzA 426 1.94e+00 a.2.7.4 78167 d.108.1.4 78168 d.108.1.4 78169 1dmmA 131 2.59e+00 1opy d.17.4.3 38114 1mc0A 368 2.60e+00 d.110.2.1 78937 d.110.2.1 78938 1pvmA 184 2.75e+00 d.37.1.1 -9612 d.37.1.1 -9613 unknown_sccs -12799 1eq6A 189 3.09e+00 1eq6A d.107.1.1 40796 1dd9A 338 3.18e+00 1dd9A e.13.1.1 43254 1g4mA 393 3.89e+00 b.1.18.11 65143 b.1.18.11 65144 1opy 131 4.36e+00 1opy d.17.4.3 38113 1j2zA 270 5.43e+00 b.81.1.1 -4797 3psg 370 5.62e+00 1smrA b.50.1.2 26841 1h1yA 228 5.96e+00 c.1.2.2 76506 1jhsA 188 6.33e+00 d.107.1.1 84172 1opr 213 6.72e+00 1opr c.61.1.1 34091 1pv5A 264 6.80e+00 unknown_sccs -10182 1ocvA 125 7.83e+00 d.17.4.3 86810 1fxjA 331 9.35e+00 1fwyA b.81.1.4 28062 c.68.1.5 34520 1hv9A 456 9.72e+00 1fwyA b.81.1.4 28060 c.68.1.5 34518 1lvmA 229 9.86e+00 b.47.1.3 78243 1nkiA 135 1.00e+01 d.32.1.2 -9544 1d7yA 408 1.07e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1lh0A 213 1.10e+01 c.61.1.1 73896 1h7eA 245 1.15e+01 c.68.1.13 60717 1i9zA 347 1.16e+01 1i9yA d.151.1.2 62102 1lkdA 297 1.18e+01 d.32.1.3 78059 d.32.1.3 78060 1lqpA 135 1.23e+01 d.32.1.2 78151 1oroA 213 1.24e+01 1opr c.61.1.1 34093 1i0vA 104 1.31e+01 9rnt d.1.1.4 36054 1v2xA 194 1.44e+01 c.116.1.1 -6704 1uyrA 737 1.47e+01 c.14.1.4 -6258 c.14.1.4 -6259 1t3cA 421 1.50e+01 1i0rA 169 1.54e+01 1i0rA b.45.1.2 61489 1ny1A 240 1.56e+01 c.6.2.3 86395 1h7zA 194 1.63e+01 1qhvA b.21.1.1 60733 1fjgK 129 1.66e+01 1fjfK c.55.4.1 33733 1cr1A 296 1.69e+01 1cr1A c.37.1.11 32286 1mkiA 330 1.72e+01 e.3.1.2 84994 1qs0B 338 1.79e+01 1qs0B c.36.1.7 31830 c.48.1.2 33103 1f1xA 322 1.84e+01 d.32.1.3 83208 d.32.1.3 83209 1han 297 1.85e+01 1han d.32.1.3 38506 d.32.1.3 38507 1oaoC 729 1.89e+01 e.26.1.3 86746 2hrvA 142 1.99e+01 2hrvA b.47.1.4 26429 1i0sA 169 2.04e+01 1i0rA b.45.1.2 61491 1i1iP 681 2.09e+01 1i1iP d.92.1.5 40297 1rljA 139 2.22e+01 1ecsA 126 2.29e+01 1ecsA d.32.1.2 59407 1khiA 176 2.63e+01 b.34.5.2 77408 b.40.4.5 77409 1s14A 194 2.76e+01 d.122.1.2 -10973 1gk8A 475 2.76e+01 c.1.14.1 65234 d.58.9.1 65235 1gz6A 319 2.78e+01 c.2.1.2 76410 1vjnA 220 2.80e+01 unknown_sccs -11458 1nrfA 262 2.93e+01 e.3.1.1 -11780 1nxuA 333 2.97e+01 c.122.1.1 86389 1qnxA 209 3.01e+01 1qnxA d.111.1.1 40914 1d2tA 231 3.02e+01 1d2tA a.111.1.1 19052 1scfA 273 3.03e+01 1exzA a.26.1.2 16873 1vjqA 79 3.06e+01 unknown_sccs -13478 1vkdA 338 3.07e+01 1g61A 228 3.14e+01 1g61A d.126.1.1 41126 1otjA 283 3.17e+01 b.82.2.5 -4893 1p4kA 295 3.24e+01 d.153.1.5 87772 1a4iA 301 3.27e+01 1a4iA c.2.1.7 30278 c.58.1.2 33926 1jykA 254 3.30e+01 c.68.1.13 67458 1vi7A 217 3.34e+01 unknown_sccs -9115 unknown_sccs -10052 1uehA 253 3.43e+01 c.101.1.1 -6879 1shdA 107 3.48e+01 1fmk d.93.1.1 40440 1jvnA 555 3.50e+01 c.1.2.1 67355 c.23.16.1 67356 1iw8A 231 3.53e+01 a.111.1.1 76866 1udmA 149 3.62e+01 1bcpB 199 3.66e+01 1bcpB b.40.2.1 25120 d.169.1.2 42429 1ml4A 308 3.71e+01 c.78.1.1 79255 c.78.1.1 79256 1thfD 253 3.77e+01 1thfD c.1.2.1 28535 1gsoA 431 3.83e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1rv3A 483 3.94e+01 1iae 200 3.94e+01 1iae d.92.1.8 40311