# 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 1eta1 127 1.41e-18 1etb1 1ttbA 127 1.54e-18 1etb1 b.3.4.1 22543 2pabA 127 1.96e-18 1etb1 b.3.4.1 22597 1f41A 127 1.98e-18 1etb1 b.3.4.1 22539 1etb1 127 2.10e-18 1etb1 1f86A 115 2.17e-18 1etb1 b.3.4.1 59689 1tfpA 130 2.29e-18 1etb1 b.3.4.1 22623 1qmuA 380 3.61e-01 1qmuA b.3.2.1 22534 c.56.5.1 33827 1ew3A 159 6.80e-01 1mup b.60.1.1 27114 1js8A 394 7.89e-01 a.86.1.1 67219 b.1.1.5 67220 2rspB 124 1.06e+00 2rspB b.50.1.1 26772 2rspA 124 1.43e+00 2rspB b.50.1.1 26771 1mvpA 124 2.05e+00 2rspB b.50.1.1 26775 2pcdM 238 2.27e+00 3pchM b.3.6.1 22760 1nfkA 325 2.38e+00 1a3qA b.1.1.5 21929 b.2.5.1 22444 1ah1 129 2.57e+00 1ah1 b.1.1.1 20652 1g84A 105 3.06e+00 1g84A b.1.1.2 60345 1pdkB 157 3.33e+00 1pdkB b.2.3.2 22427 3pcgM 238 3.59e+00 3pchM b.3.6.1 22742 3pchM 238 3.59e+00 3pchM b.3.6.1 22748 1tnrA 144 4.00e+00 2tnfA b.22.1.1 23867 1yaiA 151 4.27e+00 1yaiA b.1.8.1 22289 1cwvA 492 5.32e+00 1cwvA b.1.14.1 22373 b.1.14.1 22374 b.1.14.1 22375 b.1.14.1 22376 d.169.1.3 42442 1apmE 350 5.90e+00 1cdkA d.144.1.1 41628 1jb0E 75 6.58e+00 1pse b.34.4.2 62824 3eipA 84 7.51e+00 3eipA d.26.2.1 38434 1ehiA 377 7.81e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1igtB 444 8.34e+00 1igtB b.1.1.1 19765 b.1.1.2 20867 b.1.1.2 20868 b.1.1.2 20869 1eo9B 241 8.67e+00 3pchM b.3.6.1 22826 1ea7A 310 9.32e+00 1pse 69 9.95e+00 1pse b.34.4.2 24595 1dmhA 311 1.21e+01 1dmhA b.3.6.1 22633 2sak 121 1.22e+01 2sak d.15.5.1 37711 1emwA 88 1.23e+01 1emwA d.27.1.1 38448 1azsA 220 1.26e+01 1azsA d.58.29.1 39416 3pchA 200 1.30e+01 3pchA b.3.6.1 22653 3pcgA 200 1.43e+01 3pchA b.3.6.1 22647 2prd 174 1.47e+01 2prd b.40.5.1 25435 1lktA 104 1.47e+01 1lktA b.90.1.1 28398 1a3k 137 1.59e+01 1a3k b.29.1.3 24218 1pgs 314 1.62e+01 1pgs b.13.1.1 23653 b.13.1.1 23654 1jj2A 239 1.65e+01 1rl2A b.34.5.3 63084 b.40.4.5 63085 1quqB 121 1.71e+01 1quqB b.40.4.3 25305 1gv9A 260 1.71e+01 1b3nA 412 1.81e+01 1dd8A c.95.1.1 35966 c.95.1.1 35967 1cmkE 350 1.84e+01 1cdkA d.144.1.1 41623 1fjgP 88 1.86e+01 1emwA d.27.1.1 38444 1kas 412 1.88e+01 1dd8A c.95.1.1 35964 c.95.1.1 35965 3pcnA 200 1.89e+01 3pchA b.3.6.1 22725 1cdkA 350 2.11e+01 1cdkA d.144.1.1 41620 1hlcA 129 2.20e+01 1c1lA b.29.1.3 24208 1tnfA 158 2.26e+01 2tnfA b.22.1.1 23871 1ql0A 241 2.42e+01 1qaeA d.4.1.2 37139 1smnA 245 2.46e+01 1qaeA d.4.1.2 37143 1qaeA 245 2.46e+01 1qaeA d.4.1.2 37141 2rmpA 361 2.50e+01 2rmpA b.50.1.2 26825 1gpr 162 2.51e+01 1gpr b.84.3.1 28267 1u9aA 160 2.58e+01 1u9aA d.20.1.1 38333 1ag9A 175 2.63e+01 1rcf c.23.5.1 31178 1g8tA 245 2.64e+01 1qaeA d.4.1.2 37137 1igtD 444 2.67e+01 1igtB b.1.1.1 19767 b.1.1.2 20871 b.1.1.2 20872 b.1.1.2 20873 1pcfA 66 2.69e+01 1pcfA d.18.1.1 38142 1cjtA 217 2.80e+01 1azsA d.58.29.1 39419 1tf4A 605 2.88e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 4tsvA 150 2.89e+01 2tnfA b.22.1.1 23860 1floA 422 2.96e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1dqtA 117 3.09e+01 1ah1 b.1.1.1 20653 2pcdA 200 3.16e+01 3pchA b.3.6.1 22665 1jdpA 441 3.29e+01 c.93.1.1 62906 1rss 151 3.31e+01 1rss a.75.1.1 18392 1cjcA 460 3.41e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 2arcA 164 3.48e+01 2arcA b.82.4.1 28148 1fo0A 116 3.66e+01 1tvdA b.1.1.1 20610 1k42A 168 3.71e+01 1d2kA 392 3.79e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442