# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1rlhA 173 3.04e-28 unknown_sccs -10786 1cnt3 187 1.32e+00 1cnt3 1l6wA 220 1.41e+00 c.1.10.1 73632 2hvm 273 1.60e+00 1cnv c.1.8.5 28985 2pfkA 320 2.60e+00 3pfk c.89.1.1 35577 1skoA 143 3.10e+00 1m41A 380 3.92e+00 c.1.16.4 78595 1c2n 137 4.09e+00 1ycc a.3.1.1 15889 1b35B 255 4.20e+00 1b35B b.121.4.1 23334 1m3uA 264 4.20e+00 c.1.12.8 84784 1h6kZ 98 4.37e+00 d.58.7.1 60686 1gp4A 356 4.42e+00 b.82.2.1 65439 1h6kX 97 4.43e+00 d.58.7.1 60684 1ikpA 613 4.54e+00 b.29.1.7 66182 d.166.1.1 66183 f.1.5.1 66184 1kqzA 273 4.60e+00 c.1.8.5 68844 1gp6A 356 4.66e+00 b.82.2.1 65441 1orrA 347 4.76e+00 c.2.1.2 -5776 1brlA 355 4.84e+00 1lucA c.1.16.1 29553 1c2rA 116 5.16e+00 1ycc a.3.1.1 15887 1ff9A 450 5.54e+00 1ff9A c.2.1.3 30039 d.81.1.2 39954 1jkeA 145 6.27e+00 c.110.1.1 66791 1r5jA 337 6.42e+00 unknown_sccs -8471 1qdlA 422 6.94e+00 1qdlA d.161.1.1 42088 1lucA 355 7.14e+00 1lucA c.1.16.1 29547 1q52A 314 8.66e+00 c.14.1.3 -6246 1pfkA 320 9.16e+00 3pfk c.89.1.1 35575 1jkw 323 9.52e+00 1jkw a.74.1.1 18356 a.74.1.1 18357 1uzbA 516 1.01e+01 c.82.1.1 -8552 1qqeA 292 1.04e+01 1qqeA a.118.8.1 19210 1oyb 400 1.07e+01 1oyc c.1.4.1 28602 1oyc 400 1.13e+01 1oyc c.1.4.1 28603 1oya 400 1.17e+01 1oyc c.1.4.1 28604 1bfa 134 1.18e+01 1bea a.52.1.2 17827 1bea 127 1.24e+01 1bea a.52.1.2 17826 1uc7A 125 1.27e+01 c.47.1.1 -7414 1pscA 365 1.39e+01 1pscA c.1.9.3 29058 1g0uE 234 1.42e+01 d.153.1.4 41950 1o5kA 306 1.43e+01 c.1.10.1 -5482 1eywA 331 1.47e+01 1pscA c.1.9.3 29057 1dv2A 452 1.50e+01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 1pta 318 1.54e+01 1pscA c.1.9.3 29064 1bncB 449 1.55e+01 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1jg1A 235 1.56e+01 c.66.1.7 66661 1kxu 333 1.58e+01 1jkw a.74.1.1 18358 a.74.1.1 18359 1kqyA 273 1.59e+01 c.1.8.5 68843 1i0dA 332 1.60e+01 1pscA c.1.9.3 61487 1m0wA 491 1.71e+01 c.30.1.4 78363 d.142.1.6 78364 1cs8A 316 1.74e+01 1cs8A d.3.1.1 37065 1pyfA 312 1.75e+01 c.1.7.1 -5251 1hzyA 332 1.80e+01 1pscA c.1.9.3 61468 1ttzA 87 1.87e+01 1b06A 210 1.87e+01 1avmA a.2.11.1 15740 d.44.1.1 38737 1kr7A 110 1.91e+01 a.1.1.4 72890 2mhr 118 2.02e+01 2mhr a.24.4.1 16581 1dv1A 449 2.10e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1lqxA 82 2.17e+01 d.120.1.1 78153 1nom 248 2.18e+01 1bpyA a.60.12.1 75929 d.218.1.2 75930 1d1gA 168 2.19e+01 1d1gA c.71.1.1 34889 1qhhD 169 2.22e+01 1pjr 1jayA 212 2.22e+01 c.2.1.6 66478 1m56D 51 2.29e+01 f.23.8.1 74475 1nzyA 269 2.32e+01 1nzyA c.14.1.3 30903 1dl5A 317 2.33e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1nv8A 284 2.38e+01 c.66.1.30 86224 1rypF 233 2.39e+01 1rypF d.153.1.4 41937 1e8tA 454 2.41e+01 1e8tA b.68.1.1 59387 1oeyJ 107 2.49e+01 d.15.2.2 -9168 1fp1D 372 2.50e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 1bebA 162 2.54e+01 1bebA b.60.1.1 27115 1j3vA 289 2.55e+01 a.100.1.1 -1303 c.2.1.6 -5947 1a1d 146 2.58e+01 1a1d b.40.4.8 25394 1hyeA 313 2.62e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1ofuA 320 2.63e+01 c.32.1.1 86972 d.79.2.1 86973 1o20A 427 2.68e+01 c.82.1.1 86556 1e8uA 454 2.75e+01 1e8tA b.68.1.1 59389 1no4A 97 2.82e+01 h.1.24.1 85918 1bpb 248 2.82e+01 1bpyA a.60.12.1 75811 d.218.1.2 75812 1vih 71 2.88e+01 1vih d.51.1.1 38807 1p9iA 31 2.92e+01 h.1.10.1 -12934 1bxsA 501 2.92e+01 1bpwA c.82.1.1 35357 1mqsA 671 2.93e+01 e.25.1.1 79414 1jaxA 212 3.07e+01 c.2.1.6 66476 1g8fA 511 3.12e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1nktA 922 3.20e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1iqpA 327 3.26e+01 a.80.1.1 62649 c.37.1.20 62650 1o6lA 337 3.48e+01 d.144.1.7 81092 1usrA 454 3.50e+01 b.68.1.1 -4569 1wdnA 226 3.51e+01 1lst c.94.1.1 35816 1ajsA 412 3.51e+01 1ajsA c.67.1.1 34276 1i3cA 149 3.59e+01 c.23.1.1 71112 1jwwA 80 3.59e+01 d.58.17.1 71919 1g61A 228 3.59e+01 1g61A d.126.1.1 41126 1dfaA 454 3.60e+01 1vdeA b.86.1.2 28375 d.95.2.2 40575 d.95.2.2 40576 1vjpA 394 3.72e+01 c.2.1.3 -5897 d.81.1.3 -10480 1nqkA 381 3.76e+01 c.1.16.4 -5607 1gjuA 637 3.76e+01 b.71.1.1 60580 c.1.8.1 60581 1n4kA 381 3.80e+01 unknown_sccs 79992 b.42.6.1 79993 1c0aA 585 3.86e+01 1c0aA b.40.4.1 25246 d.74.4.1 39731 d.104.1.1 40767 1k3kA 158 3.90e+01 f.1.4.1 72017 1kq6A 141 3.96e+01 d.189.1.1 -9926 1mr8A 93 3.96e+01 1b4cA a.39.1.2 17186 1jv2A 957 3.96e+01 b.1.15.1 67334 b.1.15.1 67335 b.1.15.1 67336 b.69.8.1 67337 1cnt1 187 3.97e+01 1cnt3 1bg2 325 3.98e+01 1bg2 c.37.1.9 32189