# List of top-scoring protein chains for T0304.t2k-w0.5 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 1gulA 222 7.72e-01 1pgtA a.45.1.1,c.47.1.5 17675,32969 1z8yB 89 8.18e-01 1womA 271 9.39e-01 2ae6A 166 2.14e+00 1df7A 159 4.96e+00 3dfr c.71.1.1 34885 2cigA 159 5.68e+00 1wk2A 121 7.76e+00 1u69A 163 7.92e+00 d.32.1.7 107699 1pl8A 356 9.80e+00 b.35.1.2,c.2.1.1 94878,94879 1ld4M 439 9.82e+00 i.6.1.1 77898 1h9sB 140 1.10e+01 b.40.6.2,b.40.6.2 60845,60846 1yq1A 208 1.11e+01 1h9sA 140 1.12e+01 1b9mA b.40.6.2,b.40.6.2 60843,60844 2ashA 381 1.16e+01 2phkA 277 1.32e+01 1cdkA d.144.1.7 41637 1zemA 262 1.33e+01 1ny9A 143 1.35e+01 a.181.1.1 86401 1ql6A 298 1.39e+01 1cdkA d.144.1.7 41636 1phk 298 1.44e+01 1cdkA d.144.1.7 41635 1mqbA 333 1.48e+01 d.144.1.7 91392 1t35A 191 1.54e+01 c.129.1.1 99108 1sdoA 203 1.56e+01 c.52.1.21 98809 2bmeA 186 1.88e+01 1wyuB 474 1.91e+01 1m70A 190 1.97e+01 a.3.1.4,a.3.1.4 91200,91201 1glv 303 2.56e+01 1gsa c.30.1.3,d.142.1.1 31721,41480 1b9bA 255 2.63e+01 1amk c.1.1.1 28531 1y74A 57 2.69e+01 2fheA 216 2.70e+01 1b8xA a.45.1.1,c.47.1.5 17724,33018 1gsa 316 2.80e+01 1gsa c.30.1.3,d.142.1.1 31718,41477 1plfA 72 2.80e+01 1tvxA d.9.1.1 37373 1xd7A 145 2.80e+01 a.4.5.55 109566 1kkcA 221 3.08e+01 a.2.11.1,d.44.1.1 68660,68661 1w8kA 447 3.08e+01 2gc1A 188 3.12e+01 1qxrA 189 3.17e+01 b.82.1.7 96552 1x82A 190 3.18e+01 1i42A 89 3.19e+01 1jruA d.15.1.2 61651 1lba 146 3.97e+01 1lba d.118.1.1 41062 1qnxA 209 4.02e+01 1qnxA d.111.1.1 40914 1aroL 151 4.03e+01 1lba d.118.1.1 41063 1rodA 72 4.07e+01 1tvxA d.9.1.1 37395 1ituA 369 4.24e+01 c.1.9.7 71423 1s3sG 127 4.34e+01 d.15.1.2 98457 1o7lA 262 4.62e+01 a.4.5.8,b.40.6.2,b.40.6.2 81147,81148,81149 1b9mA 265 4.63e+01 1b9mA a.4.5.8,b.40.6.2,b.40.6.2 16118,58938,58939 1uunA 184 4.70e+01 f.6.1.2 100012 1whqA 99 4.81e+01 1xrkA 124 4.96e+01 1ea0A 1479 5.31e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1ee8A 266 5.33e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2gnnA 127 5.41e+01 1rybA 212 5.61e+01 c.56.3.1 98098 1b5sA 242 5.66e+01 1eaf c.43.1.1 32626 1wvtA 172 5.69e+01 1c7dA 284 5.75e+01 1abwA a.1.1.2,a.1.1.2 15278,15279 1rymA 212 5.79e+01 c.56.3.1 98106 1rwtA 232 5.94e+01 f.43.1.1 97992 1rynA 202 5.95e+01 c.56.3.1 98107 1vk8A 106 6.18e+01 d.58.48.1 108636 1tadA 324 6.23e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1kl7A 514 6.34e+01 c.79.1.1 72678 1jpaA 312 6.40e+01 d.144.1.7 67011 1fqjA 325 6.61e+01 1cipA a.66.1.1,c.37.1.8 18215,32098 1gg4A 452 6.62e+01 1gg4A c.59.1.1,c.98.1.1,c.72.2.1 33957,58985,58986 1ci0A 228 6.64e+01 1ci0A b.45.1.1 25750 1zlhB 75 6.64e+01 1z6oM 191 6.66e+01 1gotA 350 6.80e+01 1cipA a.66.1.1,c.37.1.8 18213,32096 1mun 225 6.83e+01 1mun a.96.1.2 18744 1g1pA 33 6.86e+01 1g1pA g.3.6.1 44099 1bbzE 58 6.89e+01 1bbzA b.34.2.1 24479 1kqjA 225 6.92e+01 a.96.1.2 72879 1kg4A 225 6.94e+01 a.96.1.2 77380 1knvA 293 6.96e+01 c.52.1.7 68707 1kg6A 225 7.01e+01 a.96.1.2 77382 1u6fA 139 7.02e+01 1kg2A 225 7.02e+01 a.96.1.2 77378 1weiA 225 7.04e+01 a.96.1.2 109339 1bbzA 58 7.08e+01 1bbzA b.34.2.1 24477 1lj2A 110 7.08e+01 h.1.13.2 73926 1sbqA 189 7.17e+01 c.124.1.6 105412 1kg5A 225 7.24e+01 a.96.1.2 77381 2cwtA 638 7.32e+01 2d1wA 638 7.35e+01 1omoA 322 7.90e+01 c.2.1.13 104017 2f5yA 91 7.92e+01 1ho8A 480 7.93e+01 1ho8A a.118.1.9 61107 1m32A 366 8.15e+01 c.67.1.3 78508 1vllA 334 8.15e+01 c.2.1.13 108834 1uh4A 637 8.22e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1kkmA 205 8.23e+01 c.91.1.2 72654 1ji1A 637 8.23e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1ml6A 221 8.25e+01 a.45.1.1,c.47.1.5 85009,85010 1izkA 637 8.25e+01 b.1.18.2,b.71.1.1,c.1.8.1 83844,83845,83846 1izjA 637 8.30e+01 b.1.18.2,b.71.1.1,c.1.8.1 83841,83842,83843 1vpkA 378 8.37e+01 1ju5C 61 8.64e+01 b.34.2.1 77174 1vcdA 126 8.79e+01 1vc9A 126 8.84e+01