# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores 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 2b43A 526 6.11e-01 1qbjA 81 4.51e+00 1qbjA a.4.5.19 16155 1qgpA 77 4.80e+00 1qbjA a.4.5.19 16158 1w07A 659 1.06e+01 1jt8A 102 1.07e+01 b.40.4.5 63279 1efcA 393 1.38e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25680,25720,32113 1ojxA 263 1.52e+01 c.1.10.1 93164 1w8sA 263 1.54e+01 1m4uL 139 1.58e+01 g.17.1.2 78626 1sh0A 510 1.60e+01 e.8.1.4 98876 1efuA 385 1.71e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25682,25722,32115 1gr2A 279 1.75e+01 1gr2A c.94.1.1 35825 2fulA 178 1.83e+01 1ftkA 279 1.86e+01 1gr2A c.94.1.1 35819 2fpeA 62 1.86e+01 1bmp 139 1.89e+01 2tgi g.17.1.2 44785 1udzA 182 1.94e+01 b.51.1.1 99239 1dcoA 104 2.06e+01 1dcpA d.74.1.1 39680 4ubpA 101 2.11e+01 1ubpA d.8.1.1 37352 2blfB 81 2.21e+01 1z2cB 383 2.22e+01 1dchA 104 2.24e+01 1dcpA d.74.1.1 39692 1wnyA 186 2.27e+01 1mqiA 263 2.34e+01 c.94.1.1 91398 1ubpA 101 2.34e+01 1ubpA d.8.1.1 37353 1f93A 104 2.36e+01 1dcpA d.74.1.1 39688 1ev7B 317 2.37e+01 1ev7B c.52.1.9 33316 1iawA 317 2.44e+01 c.52.1.9 62126 1m5eA 263 2.48e+01 c.94.1.1 78642 1lxiA 139 2.48e+01 g.17.1.2 84735 1ev7A 317 2.61e+01 1ev7B c.52.1.9 33315 1m5dA 263 2.66e+01 c.94.1.1 78641 1wk8A 194 2.66e+01 1rewA 114 2.75e+01 g.17.1.2 97334 1wggA 96 2.85e+01 1ycsB 239 2.85e+01 1ycsB d.211.1.1,b.34.2.1 19155,24553 1etu 394 2.90e+01 1efcA c.37.1.8 64737 1deaA 266 2.95e+01 1deaA c.124.1.1 31760 2prk 279 3.05e+01 1gci c.41.1.1 32548 1mqdA 261 3.22e+01 c.94.1.1 85049 1exmA 405 3.25e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25696,25736,32131 2c78A 405 3.37e+01 1d9tA 289 3.39e+01 1deaA 1fs5A 266 3.51e+01 c.124.1.1 65044 1fsfA 266 3.52e+01 c.124.1.1 65047 1f4kA 122 3.58e+01 1bm9A a.4.5.7 59646 1ei5A 520 3.61e+01 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1rqjA 299 3.61e+01 a.128.1.1 97744 1ic6A 279 3.66e+01 1gci c.41.1.1 62257 1eft 405 3.66e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25688,25728,32123 1ne7A 289 3.69e+01 c.124.1.1 91833 1uqvA 85 3.71e+01 a.60.1.2 99798 1o0pA 104 3.83e+01 d.58.7.1 86535 1mk4A 157 4.08e+01 d.108.1.1 84979 1bm9A 122 4.13e+01 1bm9A a.4.5.7 16116 5reqA 727 4.17e+01 1reqA c.1.19.1,c.23.6.1 29632,31259 7reqA 727 4.26e+01 1reqA c.1.19.1,c.23.6.1 29616,31243 1ka6A 128 4.30e+01 d.93.1.1 68370 2ai4A 119 4.41e+01 1vbkA 307 4.42e+01 1a6o 332 4.50e+01 1a6o 1dcpA 104 4.50e+01 1dcpA d.74.1.1 39672 1z4hA 66 4.55e+01 2ech 50 4.57e+01 1fvl g.20.1.1 44879 1gtzA 156 4.65e+01 c.23.13.1 70539 1vjvA 415 4.72e+01 d.3.1.9 108632 1wh0A 134 4.91e+01 1ha3A 405 4.92e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 60869,60870,60871 1reqA 727 4.93e+01 1reqA c.1.19.1,c.23.6.1 29620,31247 1qvaA 223 5.21e+01 1qvaA c.37.1.19 32411 1lpuA 332 5.28e+01 d.144.1.7 74177 1giqA 413 5.28e+01 d.166.1.1,d.166.1.1 76224,76225 1whi 122 5.28e+01 1whi b.39.1.1 24810 2cxxA 190 5.34e+01 1aipA 405 5.46e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25697,25737,32132 2bnxA 386 5.47e+01 1om1A 332 5.52e+01 d.144.1.7 93347 1sv6A 269 5.56e+01 d.177.1.1 106043 1d0iA 156 5.59e+01 2dhqA c.23.13.1 31383 2g7jA 124 5.77e+01 1j5eK 129 5.94e+01 c.55.4.1 71554 3sicI 107 5.95e+01 3ssi d.84.1.1 40028 1aipE 405 6.03e+01 1efcA b.43.3.1,b.44.1.1,c.37.1.8 25699,25739,32134 1vcc 77 6.28e+01 1vcc d.121.1.1 41092 3ullA 132 6.33e+01 3ullA b.40.4.3 25282 1edg 380 6.33e+01 1edg c.1.8.3 28807 1o0uA 429 6.36e+01 c.118.1.1 80743 1fjgK 129 6.40e+01 1fjfK c.55.4.1 33733 1uqrA 154 6.53e+01 c.23.13.1 99779 1c9fA 90 6.69e+01 1c9fA d.15.2.1 37639 1lp4A 332 6.76e+01 d.144.1.7 74170 1tux 301 6.93e+01 1taxA c.1.8.3 28907 1taxA 302 6.93e+01 1taxA 1xjuA 163 6.97e+01 1yuzA 202 7.00e+01 1ipd 345 7.17e+01 1cnzA c.77.1.1 35038 1jmvA 141 7.31e+01 c.26.2.4 66897 1d4tA 104 7.38e+01 1d4tA d.93.1.1 40537 1m2rA 327 7.44e+01 d.144.1.7 84760 1uedA 406 7.59e+01 a.104.1.1 99256 1zkoA 136 7.69e+01 1mjc 69 7.88e+01 1mjc b.40.4.5 25319 1yrvA 169 8.03e+01 1ljrA 244 8.36e+01 1ljrA a.45.1.1,c.47.1.5 17707,33001 2ayuA 417 8.71e+01 2b8nA 429 8.74e+01 1j26A 112 8.78e+01 d.50.4.1 103823 1hpi 71 8.84e+01 1ckuA g.35.1.1 44995 1xn5A 146 8.91e+01