# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1hfoA 113 2.67e-01 d.80.1.3 61006 1gyxA 76 2.89e-01 d.80.1.1 76387 1dptA 117 5.45e-01 1dptA d.80.1.3 39862 1k6xA 352 6.17e-01 c.2.1.2 68238 1k6iA 352 6.19e-01 c.2.1.2 68223 9gafA 295 7.75e-01 1apyA d.153.1.5 42008 1p4kA 295 8.01e-01 d.153.1.5 87772 1cqqA 180 1.12e+00 1cqqA b.47.1.4 26422 1qj5A 429 1.73e+00 1dtyA c.67.1.4 34493 1otgA 125 1.96e+00 1otgA d.80.1.2 39831 1m0dA 138 2.16e+00 c.52.1.17 74354 1ihfA 99 2.25e+00 1huuA a.55.1.1 17893 1owfA 99 2.25e+00 a.55.1.1 87487 1npdA 288 3.41e+00 c.2.1.7 80681 c.58.1.5 80682 1dtyA 429 5.39e+00 1dtyA c.67.1.4 34495 1e6qM 501 5.62e+00 1e70M c.1.8.4 28920 1s0aA 429 5.70e+00 c.67.1.4 -8201 1pwhA 327 6.04e+00 c.79.1.1 -8524 1e4mM 501 6.09e+00 1e70M c.1.8.4 59226 1e70M 501 6.12e+00 1e70M c.1.8.4 28926 1m4jA 142 6.54e+00 d.109.1.2 78602 1k20A 310 7.00e+00 c.107.1.1 68027 1s0yA 76 7.07e+00 d.80.1.1 -10434 1nrhX 472 7.50e+00 c.2.1.5 -5944 d.162.1.2 -11511 1fzrA 138 7.88e+00 1fzrA c.52.1.17 33336 1owfB 94 9.24e+00 a.55.1.1 87488 1ur1A 378 9.93e+00 c.1.8.3 -5311 1mfiA 114 1.01e+01 1dptA d.80.1.3 39856 1qysA 106 1.09e+01 unknown_sccs -13432 1ihfB 94 1.10e+01 1huuA a.55.1.1 17894 1b3qA 379 1.10e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1uvqB 198 1.13e+01 b.1.1.2 -2659 d.19.1.1 -9348 1ii7A 333 1.13e+01 1ii7A d.159.1.4 62415 1rypI 222 1.13e+01 d.153.1.4 41877 1fiuA 286 1.16e+01 1fiuA c.52.1.10 33317 1iicA 422 1.19e+01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1kkoA 413 1.32e+01 c.1.11.2 68675 d.54.1.1 68676 3mefA 69 1.32e+01 1mjc b.40.4.5 25320 1esgA 213 1.33e+01 1bam c.52.1.3 33286 1jwqA 179 1.39e+01 unknown_sccs -7897 1qo7A 394 1.42e+01 1qo7A c.69.1.11 34697 1q53A 112 1.45e+01 d.58.4.4 -9944 1iv3A 152 1.46e+01 d.79.5.1 76828 1exnB 290 1.50e+01 1exnA a.60.7.1 18089 c.120.1.2 33359 1npeA 267 1.54e+01 b.68.5.1 -4588 2vil 126 1.55e+01 2vil d.109.1.1 40830 2vik 126 1.57e+01 2vil d.109.1.1 40829 1q4rA 112 1.66e+01 d.58.4.4 -9943 1ffkI 194 1.73e+01 1ffkI d.12.1.2 37494 3bamB 213 1.73e+01 1bam c.52.1.3 33289 1mwwA 128 1.78e+01 unknown_sccs -10451 1i58A 189 1.84e+01 1b3qA d.122.1.3 61773 1jznA 135 1.88e+01 d.169.1.1 84262 3bamA 213 1.89e+01 1bam c.52.1.3 33288 1i60A 278 2.07e+01 c.1.15.4 71118 1otfA 62 2.07e+01 1otfA d.80.1.1 39820 1bam 213 2.25e+01 1bam c.52.1.3 33285 1i74A 309 2.32e+01 1i74A c.107.1.1 61867 1fjgJ 105 2.36e+01 1fjfJ d.58.15.1 39330 2chsA 127 2.40e+01 2chsA d.79.1.2 39764 2kinA 238 2.40e+01 1bg2 c.37.1.9 32190 1pf5A 131 2.44e+01 d.79.1.1 -10368 1dbfA 127 2.54e+01 2chsA d.79.1.2 39761 1c9oA 66 2.61e+01 1mjc b.40.4.5 25325 1hmpA 217 2.68e+01 1qk3A c.61.1.1 34075 1vi2A 300 2.78e+01 c.2.1.7 -5960 c.58.1.5 -6366 1rypD 241 2.82e+01 1rypD d.153.1.4 41935 1ow1A 195 2.83e+01 unknown_sccs -4422 1jkxA 212 2.84e+01 c.65.1.1 66813 1iyhA 198 2.95e+01 a.45.1.1 83790 c.47.1.5 83791 1ex2A 189 2.99e+01 1ex2A c.51.4.2 33225 1p5jA 372 3.11e+01 1j7nB 776 3.11e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1hqsA 423 3.18e+01 1iso c.77.1.1 61154 1ufkA 254 3.20e+01 unknown_sccs -8103 1m5sA 297 3.22e+01 d.58.33.1 74511 d.58.33.1 74512 1sviA 195 3.22e+01 1i1qA 520 3.30e+01 1qdlA d.161.1.1 61543 1h5vA 304 3.36e+01 c.1.8.3 70898 1jsqA 582 3.38e+01 i.13.1.1 63270 1iz5A 249 3.42e+01 d.131.1.2 83834 d.131.1.2 83835 1ig8A 486 3.50e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1b7yA 350 3.55e+01 1pysA d.104.1.1 40776 1bzyA 217 3.56e+01 1qk3A c.61.1.1 34071 1yagG 125 3.56e+01 1d0nA d.109.1.1 40846 1nm1G 125 3.56e+01 d.109.1.1 80653 1d4xG 126 3.57e+01 1d0nA d.109.1.1 59109 1hnuA 280 3.58e+01 1hnoA c.14.1.3 61096 1a99A 344 3.61e+01 1pot c.94.1.1 35812 1pe9A 361 3.75e+01 b.80.1.1 -4765 1ut8A 291 3.79e+01 a.60.7.1 -1036 c.120.1.2 -6675 1al3 324 3.80e+01 1al3 c.94.1.1 35835 1rp4A 389 3.85e+01 1exnA 290 3.88e+01 1exnA a.60.7.1 18088 c.120.1.2 33358 1jtaA 361 3.89e+01 b.80.1.1 71859