# 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 1souA 194 4.07e-25 1i2kA 269 4.68e-01 e.17.1.1 -11995 3chy 128 5.02e-01 3chy c.23.1.1 31038 1e6mA 128 5.35e-01 3chy c.23.1.1 31039 1cye 129 7.93e-01 3chy c.23.1.1 31077 1k9vF 201 8.02e-01 c.23.16.1 68365 1et0A 269 8.23e-01 1et0A e.17.1.1 43289 1srrA 124 1.16e+00 1dz3A c.23.1.1 31110 1v9fA 325 1.32e+00 1jbeA 128 1.48e+00 3chy c.23.1.1 62845 1a04A 215 1.51e+00 1a04A a.4.6.2 16234 c.23.1.1 31089 1gpwB 201 1.61e+00 c.23.16.1 65461 1f8yA 157 1.89e+00 1f8xA c.23.14.1 31395 1f8xA 157 2.15e+00 1f8xA c.23.14.1 31397 1h4vB 421 2.49e+00 1adjA c.51.1.1 60624 d.104.1.1 60625 1efvB 255 2.54e+00 1efvB c.26.2.3 31634 1adjA 421 2.74e+00 1adjA c.51.1.1 33188 d.104.1.1 40737 1usgA 346 2.83e+00 c.93.1.1 -8635 2lbp 346 3.00e+00 2liv c.93.1.1 35709 1n81A 186 3.35e+00 a.185.1.1 85388 1ka9H 200 4.66e+00 c.23.16.1 77308 1rprA 63 5.06e+00 1nkd a.30.1.1 16989 1p77A 272 5.08e+00 c.2.1.7 -5965 c.58.1.5 -6371 1fy2A 229 5.21e+00 1fyeA c.23.16.4 31478 1tmy 120 5.35e+00 1dbwA c.23.1.1 31083 1fyeA 229 5.85e+00 1fyeA c.23.16.4 31477 1nvmB 312 6.19e+00 c.2.1.3 86251 d.81.1.1 86252 1skyE 473 6.33e+00 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1poiA 317 7.66e+00 1poiA unknown_sccs 34153 1mxrA 375 8.14e+00 a.25.1.2 85197 2fsp 124 8.15e+00 1dz3A c.23.1.1 31119 1oz2A 331 8.68e+00 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 2ay1A 394 8.78e+00 1ajsA c.67.1.1 34357 1jqcA 375 9.48e+00 1xikA a.25.1.2 63229 1ls1A 295 1.10e+01 a.24.13.1 78170 c.37.1.10 78171 1jmxB 349 1.16e+01 b.69.2.2 66906 1fmcA 255 1.16e+01 1cydA c.2.1.2 29856 1rylA 167 1.16e+01 1dqwA 267 1.18e+01 1dqwA c.1.2.3 28551 1mo9A 523 1.20e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1w2wB 191 1.26e+01 1ihoA 283 1.27e+01 1ihoA c.26.1.4 62390 1p1mA 406 1.29e+01 b.92.1.4 87696 c.1.9.9 87697 1fw1A 216 1.34e+01 a.45.1.1 60051 c.47.1.5 60052 1gh6A 114 1.35e+01 a.2.3.1 65191 1pe0A 197 1.37e+01 c.23.16.2 88045 1i1nA 226 1.47e+01 c.66.1.7 71102 1ribA 375 1.51e+01 1xikA a.25.1.2 16788 1j6pA 418 1.54e+01 b.92.1.4 77089 c.1.9.9 77090 2ng1 293 1.56e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 2liv 344 1.56e+01 2liv c.93.1.1 35708 1nkd 65 1.60e+01 1nkd a.30.1.1 16974 1giqA 413 1.62e+01 d.166.1.1 76224 d.166.1.1 76225 1r13A 148 1.72e+01 d.169.1.1 -11646 h.1.1.1 -12895 1pwbA 177 1.72e+01 d.169.1.1 -11641 h.1.1.1 -12890 1kr5A 226 1.75e+01 c.66.1.7 68847 1wdnA 226 1.80e+01 1lst c.94.1.1 35816 1kr4A 125 1.84e+01 d.58.5.2 72889 1rpo 65 1.86e+01 1nkd a.30.1.1 16975 1omzA 293 1.98e+01 c.68.1.15 87093 2aat 396 2.04e+01 1ajsA c.67.1.1 34348 1ccwA 137 2.07e+01 1be1 c.23.6.1 31238 1pjzA 203 2.09e+01 unknown_sccs -8075 1iioA 84 2.24e+01 a.39.4.1 66150 1b0uA 262 2.25e+01 1b0uA c.37.1.12 32370 1ng1 294 2.27e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1qysA 106 2.31e+01 unknown_sccs -13432 1tidB 119 2.32e+01 1b93B 152 2.34e+01 1b93A c.24.1.2 31508 1b93A 152 2.34e+01 1b93A c.24.1.2 31507 1jpnA 296 2.36e+01 a.24.13.1 67039 c.37.1.10 67040 1gdeA 389 2.38e+01 c.67.1.1 60456 1ofuA 320 2.41e+01 c.32.1.1 86972 d.79.2.1 86973 1uu1A 335 2.45e+01 c.67.1.1 -8146 1dl5A 317 2.54e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1gggB 226 2.54e+01 1lst c.94.1.1 35818 1gd9A 389 2.58e+01 c.67.1.1 60454 1mv8A 436 2.58e+01 a.100.1.4 85128 c.2.1.6 85129 c.26.3.1 85130 1gcoA 261 2.60e+01 1ybvA c.2.1.2 29884 1geeA 261 2.61e+01 c.2.1.2 -5814 1mk4A 157 2.63e+01 d.108.1.1 84979 1xikA 375 2.66e+01 1xikA a.25.1.2 16784 1e2aA 105 2.73e+01 1e2aA a.7.2.1 16322 1mjhA 162 2.81e+01 1mjhA c.26.2.4 31639 2ltnA 181 2.97e+01 1led b.29.1.1 24024 2e2aA 105 3.03e+01 a.7.2.1 88499 1k68A 140 3.06e+01 c.23.1.1 -6403 1p5fA 189 3.11e+01 c.23.16.2 -6508 1keyA 235 3.16e+01 a.118.16.1 72389 1o08A 221 3.19e+01 c.108.1.6 86525 1mbe 53 3.20e+01 1mbe a.4.1.3 16038 1k2yX 463 3.20e+01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 4tmkA 213 3.25e+01 5tmpA c.37.1.1 31930 1qyaA 307 3.30e+01 1vi6A 208 3.31e+01 c.23.15.1 -6489 1st9A 143 3.40e+01 c.47.1.10 -7503 1gkpA 458 3.62e+01 b.92.1.3 70231 c.1.9.6 70232 1pd3A 58 3.64e+01 unknown_sccs -767 1dhs 344 3.65e+01 1dhs c.31.1.1 31727 1mb3A 124 3.66e+01 c.23.1.1 78907 1nmtA 392 3.68e+01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1gc5A 467 3.78e+01 1gc5A c.72.1.3 60429 1be1 137 3.90e+01 1be1 c.23.6.1 31237 1tlfA 301 3.90e+01 1tlfA c.93.1.1 35687