# 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 1fvgA 199 1.33e-01 1fvaA d.58.28.1 39408 1fvaA 217 2.01e-01 1fvaA d.58.28.1 39409 1dabA 539 3.66e-01 1dabA b.80.1.7 28049 1broA 277 5.02e-01 1brt c.69.1.12 34700 1jj2L 194 7.88e-01 1ffkI d.12.1.2 63097 1brt 277 1.30e+00 1brt c.69.1.12 34699 1s72M 194 1.72e+00 1nbwB 117 2.57e+00 c.51.3.2 80396 1sspE 223 2.59e+00 3eugA c.18.1.1 31009 1hkhA 279 2.70e+00 c.69.1.12 -8342 1agi 125 2.76e+00 7rsa d.5.1.1 37303 1ny6A 267 3.27e+00 c.37.1.20 -7221 1g8lA 411 4.26e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1twdA 256 4.30e+00 1gio 125 4.37e+00 7rsa d.5.1.1 37304 1j27A 102 4.87e+00 unknown_sccs -10116 2anhA 446 5.06e+00 1b8jA c.76.1.1 35004 1akz 223 5.14e+00 3eugA c.18.1.1 31007 3eugA 229 5.40e+00 3eugA c.18.1.1 31018 1kh5A 449 5.49e+00 c.76.1.1 72475 4eugA 229 5.60e+00 3eugA c.18.1.1 31019 1ed8A 449 5.62e+00 1b8jA c.76.1.1 34988 1j6oA 268 6.13e+00 c.1.9.12 77088 1b8jA 449 6.46e+00 1b8jA c.76.1.1 34992 1alkA 449 6.72e+00 1b8jA c.76.1.1 34994 1p49A 562 8.05e+00 c.76.1.2 -8432 1elyA 449 1.06e+01 1b8jA c.76.1.1 35028 2prf 125 1.11e+01 3nul d.110.1.1 40887 1o6yA 299 1.17e+01 d.144.1.7 81106 1oakA 196 1.19e+01 1auq c.62.1.1 34138 1fnsA 196 1.24e+01 1auq c.62.1.1 34136 4pgaA 337 1.24e+01 4pgaA c.88.1.1 35565 1vjw 60 1.27e+01 1fxd d.58.1.4 38991 1c4xA 285 1.33e+01 1c4xA c.69.1.10 34684 1ijbA 202 1.36e+01 c.62.1.1 71229 1auq 208 1.65e+01 1auq c.62.1.1 34137 1qtwA 285 1.84e+01 1qumA c.1.15.1 29392 1t0iA 191 1.85e+01 1nmeA 146 1.90e+01 c.17.1.1 85874 1dqsA 393 1.95e+01 1dqsA e.22.1.1 43347 1iz7A 295 2.01e+01 c.69.1.8 76982 1cv2A 296 2.03e+01 1bn6A c.69.1.8 34680 1dgrN 79 2.03e+01 1caxB 1dgrV 79 2.07e+01 1caxB b.82.1.2 28099 1souA 194 2.07e+01 1ii7A 333 2.15e+01 1ii7A d.159.1.4 62415 1pauA 147 2.15e+01 1pauA c.17.1.1 30994 7taa 478 2.16e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1mj5A 302 2.25e+01 c.69.1.8 -8326 1rkd 309 2.34e+01 1rkd c.72.1.1 34928 1eaxA 241 2.35e+01 b.47.1.2 64889 1gq6A 313 2.40e+01 c.42.1.1 70341 1eqjA 511 2.40e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1iupA 282 2.42e+01 c.69.1.10 76815 1bxdA 161 2.42e+01 1bxdA d.122.1.3 41111 1qyaA 307 2.43e+01 1cauB 184 2.44e+01 1caxB b.82.1.2 28103 1ejjA 511 2.44e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1m6dA 214 2.60e+01 d.3.1.1 84849 1dgwX 79 2.62e+01 1caxB b.82.1.2 28091 1qumA 285 2.62e+01 1qumA c.1.15.1 29393 1uayA 242 2.63e+01 c.2.1.2 88390 1rboC 123 2.68e+01 1rboC d.73.1.1 39634 8rucI 123 2.68e+01 1rboC d.73.1.1 39629 3pga1 337 2.68e+01 4pgaA 1r72A 211 2.77e+01 unknown_sccs -215 unknown_sccs -5981 1uz5A 402 2.81e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1pjbA 361 2.82e+01 1sayA c.2.1.4 30103 c.23.12.2 31363 1h6kX 97 2.92e+01 d.58.7.1 60684 1caxB 184 3.05e+01 1caxB b.82.1.2 28105 1va4A 279 3.14e+01 2pia 321 3.16e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1fe8A 196 3.16e+01 1atzA c.62.1.1 59783 1bg6 359 3.20e+01 1bg6 a.100.1.5 18810 c.2.1.6 30214 1nv8A 284 3.23e+01 c.66.1.30 86224 1atzA 189 3.26e+01 1atzA c.62.1.1 34132 1ih7A 903 3.27e+01 1clqA c.55.3.5 62375 e.8.1.1 62376 1atzB 189 3.29e+01 1atzA c.62.1.1 34133 1o98A 511 3.30e+01 c.105.1.1 86684 c.76.1.3 86685 1a8s 273 3.33e+01 1brt c.69.1.12 34710 1ufoA 238 3.51e+01 unknown_sccs -8303 1iab 200 3.54e+01 1iae d.92.1.8 40312 1o5uA 101 3.56e+01 b.82.1.8 -4845 1cp3A 277 3.65e+01 1pauA c.17.1.1 30992 1ast 200 3.70e+01 1iae d.92.1.8 40310 1iae 200 3.70e+01 1iae d.92.1.8 40311 1clqA 903 3.72e+01 1clqA c.55.3.5 33717 e.8.1.1 43006 1o5oA 221 3.75e+01 c.61.1.1 -7954 1sayA 361 3.77e+01 1sayA c.2.1.4 30102 c.23.12.2 31362 1hwxA 501 3.85e+01 1hwyA c.2.1.7 30250 c.58.1.1 33898 1wkt 88 3.86e+01 1wkt b.11.1.2 23630 1bjoA 360 3.86e+01 1bjnA c.67.1.4 34471 1dorA 311 3.86e+01 2dorA c.1.4.1 28595 1h6kZ 98 3.90e+01 d.58.7.1 60686 2dorA 311 3.93e+01 2dorA c.1.4.1 28593