# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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.soe.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 2peqA 134 6.18e-01 a.280.1.1 149443 1m70A 190 3.06e+00 a.3.1.4,a.3.1.4 91200,91201 2ko6A 89 3.63e+00 2qzqA 152 5.97e+00 1i7dA 659 6.43e+00 1d6mA e.10.1.1 61886 1fzdA 201 6.87e+00 3fib d.171.1.1 42484 3bhwA 209 8.09e+00 3fmsA 209 8.50e+00 2nsaA 170 9.67e+00 3c1qA 123 1.02e+01 3huiA 126 1.04e+01 3cqcB 227 1.22e+01 3hbrA 265 1.33e+01 1ta8A 332 1.50e+01 d.142.2.2 112375 3lfkA 129 1.58e+01 1qpbA 563 1.59e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31739,31781,31782 3fncA 163 1.62e+01 1pvdA 537 1.68e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31737,31777,31778 2fjuB 799 1.74e+01 a.39.1.7,b.7.1.1,b.55.1.1,c.1.18.1 145170,145171,145172,145173 1pydA 556 1.79e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31735,31773,31774 1ax8 146 2.00e+01 1ax8 1ax8A 146 2.00e+01 a.26.1.1 16844 2gm2A 132 2.01e+01 1kpfA 125 2.04e+01 d.13.1.1 37507 1kpf 126 2.06e+01 1kpf 3f8mA 248 2.09e+01 3lnoA 108 2.13e+01 2jc7A 244 2.13e+01 1dx4A 586 2.15e+01 2bce c.69.1.1 34622 2x04A 80 2.20e+01 3dm8A 143 2.21e+01 d.17.4.20 157804 3fv7A 244 2.26e+01 2d4gA 171 2.30e+01 1pjaA 302 2.32e+01 c.69.1.13 94758 2j5zA 221 2.56e+01 2wnpF 217 2.59e+01 2o9pA 454 2.60e+01 1qwtA 255 2.60e+01 b.26.1.3 96501 3ckdA 312 2.65e+01 2boyA 254 2.72e+01 2bjoA 136 2.78e+01 3a6pA 1204 2.99e+01 1dguA 183 3.06e+01 1dguA a.39.1.5 17333 3d5lA 221 3.11e+01 3e4rA 324 3.14e+01 2jhmF 218 3.26e+01 2qcuA 501 3.31e+01 2d39A 237 3.67e+01 3g4pA 244 3.72e+01 3hinA 275 3.80e+01 1kpeA 126 3.95e+01 1kpf d.13.1.1 37508 3hhtB 229 3.98e+01 1xo5A 183 4.02e+01 a.39.1.5 115680 2ciwA 299 4.31e+01 a.39.3.1,a.39.3.1 130502,130503 1cpo 299 4.36e+01 1cpo 1ztuA 341 4.37e+01 d.110.2.1,d.110.3.9 146024,146025 3gr3A 230 4.37e+01 3e0jB 144 4.37e+01 1tp4A 97 4.59e+01 a.189.1.1 107183 3e1eA 141 4.92e+01 2zkmX 799 4.94e+01 a.39.1.7,b.7.1.1,b.55.1.1,c.1.18.1 154587,154588,154589,154590 2vk8A 563 4.96e+01 1wspA 84 5.15e+01 d.15.1.8 145834 2cvkA 110 5.22e+01 3k2yA 109 5.23e+01 3kdqA 154 5.37e+01 1keaA 221 5.45e+01 a.96.1.2 68491 2pvpA 367 5.45e+01 1b66A 140 5.46e+01 1b66A d.96.1.2 40657 2o9cA 342 5.58e+01 d.110.2.1,d.110.3.9 148684,148685 1twdA 256 5.63e+01 c.1.30.1 107397 1l8rA 101 5.64e+01 a.6.1.4 73700 1hxvA 113 5.66e+01 d.26.1.1 71089 1wh8A 111 5.66e+01 a.35.1.7 114636 2nn6B 249 5.74e+01 d.14.1.4,d.101.1.1 148297,148298 3fc7A 125 5.75e+01 1i9gA 280 5.95e+01 c.66.1.13 62090 2fk8A 318 6.21e+01 c.66.1.18 133648 2hxjA 144 6.21e+01 a.136.1.1 147432 3kusA 88 6.27e+01 3bh7B 352 6.28e+01 1bgf 124 6.36e+01 1bgf 1bgfA 124 6.36e+01 a.90.1.1 18537 2yzuA 109 6.46e+01 1dpsA 167 6.60e+01 1dpsA a.25.1.1 16716 1uhnA 189 6.76e+01 a.39.1.5 99399 1ru3A 732 6.82e+01 e.26.1.3 97835 3hemA 302 7.24e+01 1t64A 377 7.35e+01 c.42.1.2 106543 3by6A 126 7.55e+01 2h5eA 529 7.55e+01 1w9yA 319 7.66e+01 b.82.2.1 120801 3bbdA 205 7.67e+01 c.116.1.6 155061 3kheA 191 7.74e+01 1b4fA 82 7.87e+01 1b4fA a.60.1.2 17934 1uddA 226 7.91e+01 a.132.1.3 107776 2djkA 133 7.94e+01 c.47.1.2 131548 1ryp2 233 7.94e+01 1ryp2 3loyA 633 7.97e+01 2o37A 92 7.98e+01