# 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 1grwA 126 2.38e-19 1mspA 126 1.99e-18 1mspA b.1.11.2 22333 1avgI 142 8.85e-02 1avgI b.60.1.3 27229 1qppA 218 8.92e-01 1qpxA b.1.11.1 22320 b.7.2.1 23202 1bebA 162 1.88e+00 1bebA b.60.1.1 27115 1qpxA 218 1.96e+00 1qpxA b.1.11.1 22318 b.7.2.1 23200 1l4iA 206 2.50e+00 1tf4A 605 2.72e+00 1tf4A a.102.1.2 18827 b.2.2.2 22393 1cyx 205 2.80e+00 1cyx b.6.1.2 23023 1ha3A 405 2.83e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1dgwA 178 3.30e+00 1dgwA b.82.1.2 28090 1cauA 181 3.63e+00 1dgwA b.82.1.2 28102 1bdfA 235 3.80e+00 1bdfA d.74.3.1 39727 d.181.1.1 42602 1exmA 405 3.85e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1hzoA 271 3.89e+00 1jt7A 146 3.94e+00 b.42.1.1 67255 1aipE 405 3.99e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ibyA 112 4.07e+00 1ibzA b.6.1.4 62233 1ibzA 112 4.20e+00 1ibzA b.6.1.4 62237 1bbpA 173 4.29e+00 1bbpA b.60.1.1 27147 1dgrC 178 4.32e+00 1dgwA b.82.1.2 28100 1fjgQ 105 4.96e+00 1fjfQ b.40.4.5 25352 1kgyA 181 5.02e+00 1dlfH 124 5.37e+00 1igtB b.1.1.1 20383 2afgA 140 5.38e+00 1bfg b.42.1.1 25514 1rypC 244 5.95e+00 1rypC d.153.1.4 41934 1itbB 315 6.35e+00 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1dun 134 6.58e+00 1dun b.85.4.1 28371 1a2yB 116 6.78e+00 1gc1H b.1.1.1 19927 1ivyA 452 7.28e+00 1ivyA c.69.1.5 34654 1g0dA 695 8.40e+00 1f13A b.1.1.5 60166 b.1.5.1 60167 b.1.5.1 60168 d.3.1.4 60169 1nukA 183 8.41e+00 1nukA b.18.1.4 23721 1fbaA 361 8.62e+00 1fbaA c.1.10.1 29120 1yer 228 8.65e+00 1yer d.122.1.1 41101 1ep2B 261 8.94e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 1vfaB 116 9.11e+00 1gc1H b.1.1.1 19929 1b35B 255 1.09e+01 1b35B b.10.1.3 23334 1ep3B 262 1.12e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1hae 63 1.28e+01 1xdtR g.3.11.1 44298 1ktbA 405 1.35e+01 1jmuB 666 1.39e+01 1xnb 185 1.54e+01 1axkA b.29.1.11 24308 1dq3A 454 1.55e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1j7nB 776 1.61e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1a5r 103 1.61e+01 1a5r d.15.1.1 37597 1azeA 56 1.63e+01 b.34.2.1 24536 1je5A 206 1.65e+01 1je5A b.40.4.7 62909 1j7nA 776 1.65e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1nbcA 155 1.65e+01 1nbcA b.2.2.2 22390 1ew3A 159 1.72e+01 1mup b.60.1.1 27114 1byqA 228 1.72e+01 1yer d.122.1.1 41100 1bfg 146 1.76e+01 1bfg b.42.1.1 25485 1tuc 63 1.76e+01 1tuc b.34.2.1 24492 1f6fB 210 1.76e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 1bza 262 1.82e+01 1btl e.3.1.1 42701 1h6fA 193 1.83e+01 1lckA 175 1.87e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1ijaA 148 1.91e+01 1ijaA b.100.1.1 62484 1jguH 217 1.92e+01 b.1.1.1 66688 b.1.1.2 66689 1lkkA 105 1.99e+01 1lckA d.93.1.1 40412 2bpa2 175 2.03e+01 2bpa2 1kay 381 2.07e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1ba1 386 2.07e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1bupA 386 2.13e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1gcpA 70 2.30e+01 1gcpA b.34.2.1 60430 1bqk 124 2.37e+01 1bqk b.6.1.1 22889 1eybA 471 2.39e+01 1ey2A b.82.1.4 28115 1kshB 152 2.39e+01 4blmA 265 2.42e+01 1btl e.3.1.1 42721 1gh7A 419 2.51e+01 b.1.2.1 65194 b.1.2.1 65195 b.1.2.1 65196 b.1.2.1 65197 1kkeA 210 2.51e+01 b.21.1.2 68669 b.83.1.2 68670 1f7sA 139 2.51e+01 1cof d.109.1.2 40857 1efcA 393 2.58e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1fqgA 263 2.78e+01 1btl e.3.1.1 42699 1btl 263 2.78e+01 1btl e.3.1.1 42691 1l7uA 263 2.78e+01 1m40A 263 2.78e+01 1ermA 263 2.78e+01 1btl e.3.1.1 42690 1kqrA 179 2.81e+01 1bhe 376 2.85e+01 1bhe b.80.1.3 28030 1ah6 220 2.85e+01 1yer d.122.1.1 41094 1ey2A 471 2.86e+01 1ey2A b.82.1.4 28116 1d2eA 397 2.88e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 3mddA 385 2.89e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 1nom 248 2.91e+01 1bpyA e.9.1.1 43220 3hhrB 203 2.94e+01 1axiB b.1.2.1 22005 b.1.2.1 22006 1gthD 1025 2.94e+01 1chrA 370 2.99e+01 1mucA c.1.11.2 29252 d.54.1.1 38896 1bp3B 211 3.01e+01 1axiB b.1.2.1 22031 b.1.2.1 22032 1kmoA 774 3.03e+01 3rp2A 224 3.05e+01 1a7s b.47.1.2 26298 1a8p 258 3.06e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1gteD 1025 3.07e+01 1e5eA 404 3.07e+01 1ibjA c.67.1.3 59265 1kv7A 488 3.14e+01 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 1hpwA 129 3.16e+01 1hpwA d.24.1.1 61118 1h7wA 1025 3.22e+01 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1gteA 1025 3.23e+01 1h7wD 1025 3.23e+01 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1h7wB 1025 3.23e+01 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1h4uA 265 3.26e+01 1h4uA d.22.1.2 60622 g.3.11.5 60623 1lvk 762 3.28e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1thjA 214 3.32e+01 1qreA b.81.1.5 28072 1mnd 762 3.34e+01 1lvk b.34.3.1 24591 c.37.1.9 32188 1qg0A 308 3.36e+01 1fnc b.43.4.2 25639 c.25.1.1 31529 1g4mA 393 3.38e+01 b.1.1.5 65143 b.1.1.5 65144 1gthC 1025 3.39e+01 1jnrB 150 3.41e+01 d.58.1.5 66969 1qreA 247 3.43e+01 1qreA b.81.1.5 28066 1f39A 101 3.49e+01 1umuA b.87.1.1 28386 2phlA 397 3.54e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 4ubpB 126 3.55e+01 1ubpB b.85.3.1 28345 1gthA 1025 3.55e+01 1gthB 1025 3.56e+01 1f89A 291 3.58e+01 d.160.1.1 64988 1e42A 258 3.62e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1ubpB 122 3.65e+01 1ubpB b.85.3.1 28346 1idaA 99 3.73e+01 1fmb b.50.1.1 26715 1lnh 857 3.82e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1h7xD 1025 3.86e+01 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1ejrB 101 3.98e+01 1ubpB b.85.3.1 28320 1fwcB 106 3.99e+01 1ubpB b.85.3.1 28324 2kauB 106 3.99e+01 1ubpB b.85.3.1 28328