# 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 1jroB 777 6.83e-01 d.41.1.1 67141 d.133.1.1 67142 1ddt 535 1.97e+00 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1jpaA 312 2.67e+00 d.144.1.2 67011 1slvA 142 2.81e+00 1sluA b.16.1.1 23688 1i2hA 168 3.83e+00 1ddvA 111 4.37e+00 1evhA b.55.1.4 27002 1j6nA 303 4.69e+00 1eaiC 61 4.99e+00 1eaiC g.22.1.1 44894 1f0lA 535 5.21e+00 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1dfnA 30 6.34e+00 g.9.1.1 44570 1ddwA 120 6.35e+00 1evhA b.55.1.4 27001 1irk 306 6.60e+00 1fmk d.144.1.2 41703 1ihgA 370 7.00e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1ir3A 306 7.39e+00 1fmk d.144.1.2 41702 1bshA 138 7.42e+00 1aqt a.2.10.1 15720 b.93.1.1 28437 1icfA 175 7.96e+00 1cs8A d.3.1.1 37067 1g0sA 209 8.62e+00 1g0sA d.113.1.1 60187 1ib8A 164 9.50e+00 1sluA 142 1.10e+01 1sluA b.16.1.1 23685 1iqaA 160 1.16e+01 1f3yA 165 1.30e+01 d.113.1.1 59635 1hxmA 229 1.36e+01 1hxmA b.1.1.1 61367 b.1.1.2 61368 1gr2A 279 1.43e+01 1gr2A c.94.1.1 35825 1pdgC 109 1.60e+01 1pdgA g.17.1.1 44750 1je5A 206 1.61e+01 1je5A b.40.4.7 62909 1pdgA 109 1.65e+01 1pdgA g.17.1.1 44748 1pmd 675 1.69e+01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1aqt 138 1.87e+01 1aqt a.2.10.1 15718 b.93.1.1 28435 1ftkA 279 1.94e+01 1gr2A c.94.1.1 35819 1a1w 91 2.11e+01 1a1z a.77.1.1 18425 1qmeA 702 2.29e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1ggvA 232 2.35e+01 1din c.69.1.9 34683 1cs8A 316 2.36e+01 1cs8A d.3.1.1 37065 1din 236 2.37e+01 1din c.69.1.9 34682 1stmA 157 2.38e+01 1stmA b.10.1.2 23281 1lba 146 2.38e+01 1lba d.118.1.1 41062 1mak 113 2.43e+01 8fabA b.1.1.1 19825 1a1z 91 2.62e+01 1a1z a.77.1.1 18427 1d1gA 168 2.67e+01 1d1gA c.71.1.1 34889 1b65A 375 2.70e+01 1b65A d.154.1.1 42020 1aw7A 194 3.03e+01 1aw7A b.40.2.2 25164 d.15.6.1 37753 1rhd 293 3.04e+01 1rhs c.46.1.2 32715 c.46.1.2 32716 1d2pA 373 3.11e+01 1d2oA b.3.5.1 22629 b.3.5.1 22630 b.3.5.1 22631 b.3.5.1 22632 1qppA 218 3.19e+01 1qpxA b.1.11.1 22320 b.7.2.1 23202 1cz3A 168 3.29e+01 1d1gA c.71.1.1 34891 1d2oA 187 3.38e+01 1d2oA b.3.5.1 22625 b.3.5.1 22626 1rhs 296 3.47e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1d3gA 367 3.55e+01 1d3gA c.1.4.1 28600 1f74A 293 3.65e+01 1nal3 c.1.10.1 29079 7apiB 36 3.69e+01 7apiB 9apiB 36 3.69e+01 7apiB 2rgf 97 3.71e+01 1lfdA d.15.1.5 37627 1a5r 103 3.72e+01 1a5r d.15.1.1 37597 1fthA 122 3.73e+01 d.150.1.2 60028 1apyB 141 3.80e+01 1apyB 1qo7A 394 3.97e+01 1qo7A c.69.1.11 34697