# List of top-scoring protein chains for t2k-100-30-bys 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 1hn6A 110 8.53e-17 g.61.1.1 76721 1brlA 355 1.53e+00 1lucA c.1.16.1 29553 1seiA 130 3.33e+00 1seiA d.140.1.1 41463 1gd9A 389 3.47e+00 c.67.1.1 60454 1hyuA 521 3.73e+00 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1g1kA 143 3.78e+00 1aohA b.2.2.2 22404 1pir 124 4.08e+00 1poa a.133.1.2 19611 1gdeA 389 4.13e+00 c.67.1.1 60456 1budA 197 4.59e+00 1atlA d.92.1.9 40328 1f9fA 83 5.51e+00 1f9fA d.58.8.1 39224 1lucA 355 5.73e+00 1lucA c.1.16.1 29547 1mrj 247 5.77e+00 1mrj d.165.1.1 42177 1tupA 219 5.88e+00 1tupA b.2.5.2 22434 1tsrA 219 6.55e+00 1tupA b.2.5.2 22437 1g4iA 123 7.25e+00 1poa a.133.1.2 60241 1hn4A 131 7.46e+00 a.133.1.2 65893 1mku 123 7.48e+00 1poa a.133.1.2 19590 1e4uA 78 7.76e+00 1e4uA g.44.1.1 59231 1une 123 7.77e+00 1poa a.133.1.2 19583 1imt 80 7.89e+00 1imt g.3.10.1 44201 g.3.10.1 44202 1myn 44 8.44e+00 1gpt g.3.7.4 44172 1ewsA 32 8.50e+00 1ewsA g.9.1.1 59534 1hoe 74 8.70e+00 1hoe b.5.1.1 22833 1uolA 219 8.79e+00 b.2.5.2 -2886 1dkiA 371 8.84e+00 1dkiA d.3.1.1 37090 1a3gA 308 9.07e+00 1daaA e.17.1.1 43286 1an7A 136 9.15e+00 1seiA d.140.1.1 41465 4bp2 130 9.30e+00 1poa a.133.1.2 19584 1i1kA 309 1.04e+01 1daaA e.17.1.1 61533 1nar 290 1.16e+01 1nar c.1.8.5 28988 1rhcA 330 1.20e+01 c.1.16.3 -5606 1gvhA 396 1.20e+01 a.1.1.2 70601 b.43.4.2 70602 c.25.1.5 70603 1aba 87 1.21e+01 1aba c.47.1.1 32760 1pmc 36 1.49e+01 1pmc g.4.1.1 44382 1ur6B 52 1.52e+01 g.44.1.1 -12825 1adt 356 1.59e+01 1anv a.54.1.1 17887 g.51.1.1 45362 g.51.1.1 45368 1v6fA 151 1.60e+01 1a4yA 460 1.66e+01 1a4yA c.10.1.1 30852 3ait 74 1.72e+01 1hoe b.5.1.1 22835 1lvl 458 1.82e+01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1nxzA 246 1.83e+01 b.122.1.2 86391 c.116.1.5 86392 1zbdB 134 1.95e+01 1zbdB g.50.1.1 45359 1iqpA 327 1.95e+01 a.80.1.1 62649 c.37.1.20 62650 1kte 105 2.14e+01 1kte c.47.1.1 32771 1cr6B 554 2.16e+01 1cr6B c.108.1.2 43338 c.69.1.11 34688 1gl0I 35 2.25e+01 g.4.1.1 65271 1rypA 243 2.44e+01 1pmaA d.153.1.4 41932 1euvA 221 2.46e+01 1euvA d.3.1.7 37133 1ycsA 199 2.51e+01 1tupA b.2.5.2 22433 1e50A 134 2.51e+01 1cmoA b.2.5.6 59244 1iyeA 309 2.56e+01 e.17.1.1 83786 1lmrA 35 2.58e+01 g.3.6.3 -12429 1eg2A 319 2.81e+01 1eg2A c.66.1.11 34249 1ok0A 74 2.85e+01 b.5.1.1 -2935 1oyiA 82 2.86e+01 a.4.5.19 -292 1s5aA 150 2.94e+01 unknown_sccs -9300 1jtkA 136 2.95e+01 c.97.1.1 71862 1oheA 348 2.97e+01 c.45.1.1 87013 c.45.1.1 87014 1i9sA 210 2.98e+01 1i9sA c.45.1.1 62099 1ne5A 42 3.01e+01 g.3.7.2 85588 1m9zA 111 3.16e+01 g.7.1.3 78881 1pvc2 271 3.20e+01 1aym2 1hvyA 288 3.23e+01 1bkpA d.117.1.1 41049 1nepA 130 3.29e+01 b.1.18.7 80440 1ois 223 3.48e+01 1a36A e.15.1.1 43267 1nw8A 319 3.49e+01 c.66.1.11 86292 1kvoA 124 3.53e+01 1poa a.133.1.2 19564 1du9A 28 3.66e+01 g.3.7.2 44148 1gl1I 36 3.66e+01 g.4.1.1 65275 1iybA 208 3.70e+01 d.124.1.1 -10977 1g8pA 350 3.86e+01 1g8pA c.37.1.20 60376 1g0uG 252 3.95e+01 d.153.1.4 41952 1kmqA 184 3.98e+01 c.37.1.8 84412