# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 2.90e-18 1mspA 126 9.35e-18 1mspA b.1.11.2 22333 1avgI 142 1.65e-01 1avgI b.60.1.3 27229 1itbB 315 3.43e-01 1itbB b.1.1.4 21720 b.1.1.4 21721 b.1.1.4 21722 1qppA 218 3.63e-01 1qpxA b.1.11.1 22320 b.7.2.1 23202 2afgA 140 5.10e-01 1bfg b.42.1.1 25514 1jt7A 146 8.01e-01 b.42.1.1 67255 1qpxA 218 9.64e-01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1cyx 205 1.05e+00 1cyx b.6.1.2 23023 1exmA 405 1.18e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1aipE 405 1.18e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ha3A 405 1.40e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1bdfA 235 2.03e+00 1bdfA d.74.3.1 39727 d.181.1.1 42602 1hzoA 271 2.05e+00 1yer 228 2.07e+00 1yer d.122.1.1 41101 1ivyA 452 2.08e+00 1ivyA c.69.1.5 34654 1a2yB 116 2.67e+00 1gc1H b.1.1.1 19927 1bebA 162 2.89e+00 1bebA b.60.1.1 27115 1bbpA 173 2.90e+00 1bbpA b.60.1.1 27147 1dlfH 124 3.05e+00 1igtB b.1.1.1 20383 1vfaB 116 3.29e+00 1gc1H b.1.1.1 19929 1jmuB 666 3.70e+00 1dc1A 323 3.99e+00 1dc1A c.52.1.11 33321 1kgyA 181 4.00e+00 1ibyA 112 4.04e+00 1ibzA b.6.1.4 62233 1ibzA 112 4.21e+00 1ibzA b.6.1.4 62237 1tf4A 605 4.70e+00 1tf4A a.102.1.2 18827 b.2.2.2 22393 1nukA 183 4.73e+00 1nukA b.18.1.4 23721 1bfg 146 4.75e+00 1bfg b.42.1.1 25485 1fjgQ 105 5.09e+00 1fjfQ b.40.4.5 25352 1byqA 228 5.76e+00 1yer d.122.1.1 41100 3rp2A 224 5.96e+00 1a7s b.47.1.2 26298 1ddt 535 6.18e+00 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 4blmA 265 6.62e+00 1btl e.3.1.1 42721 1dun 134 6.69e+00 1dun b.85.4.1 28371 1gcpA 70 7.44e+00 1gcpA b.34.2.1 60430 1lnh 857 7.70e+00 1yge a.119.1.1 19237 b.12.1.1 23637 2bpa2 175 8.61e+00 2bpa2 1l4iA 206 8.66e+00 1gcqC 70 8.83e+00 1gcpA b.34.2.1 60436 1ep2B 261 9.05e+00 1ep2B b.43.4.2 25666 c.25.1.3 31556 1kqrA 179 9.57e+00 1efcA 393 9.87e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1ktbA 405 9.87e+00 1j7nA 776 1.02e+01 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1b35B 255 1.11e+01 1b35B b.10.1.3 23334 1dq3A 454 1.11e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 8fabB 224 1.12e+01 1igtB b.1.1.1 19773 b.1.1.2 20883 1i8dA 213 1.17e+01 b.43.4.3 61953 b.43.4.3 61954 1g0dA 695 1.19e+01 1f13A b.1.1.5 60166 b.1.5.1 60167 b.1.5.1 60168 d.3.1.4 60169 1bza 262 1.23e+01 1btl e.3.1.1 42701 1egdA 396 1.29e+01 3mdeA a.29.3.1 16596 e.6.1.1 42857 1a8p 258 1.32e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1d2eA 397 1.32e+01 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1j7nB 776 1.36e+01 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 6prcH 258 1.40e+01 6prcH b.41.1.1 25457 f.2.1.2 43436 1f7dA 136 1.40e+01 1dun b.85.4.1 28353 1lckA 175 1.47e+01 1lckA b.34.2.1 24552 d.93.1.1 40421 1qunB 279 1.50e+01 b.2.3.2 22411 b.2.3.2 22412 1ew3A 159 1.52e+01 1mup b.60.1.1 27114 1cdcA 99 1.55e+01 1cdcA b.1.1.1 19746 1cdcB 99 1.55e+01 1cdcA b.1.1.1 19747 1ep3B 262 1.58e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1nbcA 155 1.62e+01 1nbcA b.2.2.2 22390 1dgwA 178 1.62e+01 1dgwA b.82.1.2 28090 1jguH 217 1.64e+01 b.1.1.1 66688 b.1.1.2 66689 1f0lA 535 1.66e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1f89A 291 1.67e+01 d.160.1.1 64988 1ah6 220 1.67e+01 1yer d.122.1.1 41094 1ermA 263 1.68e+01 1btl e.3.1.1 42690 1e42A 258 1.71e+01 1e42A b.1.10.1 22316 d.105.1.1 40792 1a64A 97 1.72e+01 1cdcA b.1.1.1 19750 1a5r 103 1.74e+01 1a5r d.15.1.1 37597 1ijaA 148 1.78e+01 1ijaA b.100.1.1 62484 1i2sA 282 1.81e+01 1ba1 386 1.82e+01 1ba1 c.55.1.1 33387 c.55.1.1 33388 1kay 381 1.83e+01 1ba1 c.55.1.1 33385 c.55.1.1 33386 1mrj 247 1.87e+01 1mrj d.165.1.1 42177 1kv7A 488 1.89e+01 b.6.1.3 68873 b.6.1.3 68874 b.6.1.3 68875 2fgf 146 1.89e+01 1bfg b.42.1.1 25487 1cauA 181 1.89e+01 1dgwA b.82.1.2 28102 1bupA 386 1.91e+01 1ba1 c.55.1.1 33377 c.55.1.1 33378 1vcaA 202 1.91e+01 1vcaA b.1.1.3 21649 b.1.1.4 21685 1nom 248 1.94e+01 1bpyA e.9.1.1 43220 1qhuA 460 1.99e+01 1qhuA b.66.1.1 27530 b.66.1.1 27531 1aozA 552 1.99e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1ayaA 101 2.03e+01 1qadA d.93.1.1 40460 1ey2A 471 2.08e+01 1ey2A b.82.1.4 28116 1bp1 456 2.15e+01 1bp1 d.83.1.1 40026 d.83.1.1 40027 1bsg 266 2.21e+01 1btl e.3.1.1 42729 1btl 263 2.22e+01 1btl e.3.1.1 42691 1thjA 214 2.24e+01 1qreA b.81.1.5 28072 1io1A 398 2.25e+01 1io1A e.32.1.1 62611 1l7uA 263 2.26e+01 1m40A 263 2.26e+01 1fqgA 263 2.32e+01 1btl e.3.1.1 42699 1hpwA 129 2.33e+01 1hpwA d.24.1.1 61118 1dgrC 178 2.36e+01 1dgwA b.82.1.2 28100 1i8kB 124 2.39e+01 1bueA 265 2.44e+01 1btl e.3.1.1 42727 1i9aA 182 2.45e+01 1i9aA d.113.1.2 62082 1ax0 239 2.56e+01 1led b.29.1.1 24042 1am2 199 2.60e+01 1am2 b.86.1.2 28381 1jpaA 312 2.61e+01 d.144.1.2 67011 1je5A 206 2.64e+01 1je5A b.40.4.7 62909 1rpl 251 2.68e+01 1bpyA e.9.1.1 43212 1tvdA 116 2.73e+01 1tvdA b.1.1.1 20650 1jmxA 494 2.78e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.1.6 66903 b.1.1.6 66904 b.61.4.1 66905 1azeA 56 2.79e+01 b.34.2.1 24536 1ndh 272 2.86e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 4fgf 146 2.88e+01 1bfg b.42.1.1 25486 1qreA 247 2.88e+01 1qreA b.81.1.5 28066 1ca1 370 2.90e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1bpb 248 2.91e+01 1bpyA e.9.1.1 43215 1g4mA 393 2.92e+01 b.1.1.5 65143 b.1.1.5 65144 1h6fA 193 2.92e+01 1ckmA 330 2.96e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1ncg 110 2.98e+01 1edhA b.1.6.1 22193 1dxrH 258 3.03e+01 6prcH b.41.1.1 25456 f.2.1.2 43433 1lvk 762 3.06e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1hztA 190 3.09e+01 1i9aA d.113.1.2 61459 3mddA 385 3.13e+01 3mdeA a.29.3.1 16592 e.6.1.1 42853 1jc4A 148 3.15e+01 1jc4A d.32.1.4 62863 1d0qA 103 3.22e+01 1d0qA g.41.3.2 45208 1ikoP 178 3.26e+01 1ijbA 202 3.26e+01 1klt 226 3.31e+01 5ptp b.47.1.2 26300 1mnd 762 3.33e+01 1lvk b.34.3.1 24591 c.37.1.9 32188 1gpmA 525 3.38e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1eybA 471 3.40e+01 1ey2A b.82.1.4 28115 1qexA 288 3.42e+01 1qexA b.32.1.1 24425 2pia 321 3.46e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 3mdeA 385 3.48e+01 3mdeA a.29.3.1 16594 e.6.1.1 42855 1preA 470 3.48e+01 1preA d.169.1.2 42437 f.8.1.1 43824 1cknA 330 3.48e+01 1ckmA b.40.4.6 25360 d.142.2.3 41587 1yge 839 3.51e+01 1yge a.119.1.1 19234 b.12.1.1 23634 1h7wD 1025 3.51e+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 1gteD 1025 3.52e+01 1igtB 444 3.60e+01 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1g8kB 133 3.64e+01 1g8jB b.33.1.1 24435 1h7wA 1025 3.69e+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 1eudA 311 3.69e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1bhe 376 3.70e+01 1bhe b.80.1.3 28030 1hae 63 3.72e+01 1xdtR g.3.11.1 44298 1kiuB 279 3.72e+01 1gteA 1025 3.75e+01 1lkkA 105 3.80e+01 1lckA d.93.1.1 40412 1kcvH 217 3.93e+01 1f39A 101 4.00e+01 1umuA b.87.1.1 28386