# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1gr3A 160 7.59e-27 b.22.1.1 65476 1c3hA 137 3.18e-26 1c28A 135 3.18e-26 1c28A b.22.1.1 23857 1o91A 178 2.12e-24 1pk6C 129 1.60e-20 1pk6B 132 4.56e-19 1pk6A 133 2.16e-18 1jh5A 144 2.67e-03 b.22.1.1 66697 1d2qA 173 2.72e-03 1d4vB b.22.1.1 23894 1kxgA 152 3.48e-03 b.22.1.1 73145 1iqaA 160 4.25e-03 b.22.1.1 71274 1dg6A 191 1.14e-02 1d4vB b.22.1.1 23883 1d4vB 163 3.10e-02 1d4vB b.22.1.1 23884 1lslA 113 6.64e-02 g.60.1.1 78178 g.60.1.1 78179 1o6uA 403 9.27e-02 1tnrA 144 1.47e-01 2tnfA b.22.1.1 23867 1aly 146 2.25e-01 1aly b.22.1.1 23856 1rj8A 164 2.93e-01 1rdzA 337 1.05e+00 1frpA e.7.1.1 42882 2tnfA 156 2.56e+00 2tnfA b.22.1.1 23880 1nuyA 337 3.22e+00 e.7.1.1 86213 1j83A 180 3.32e+00 b.18.1.12 66430 1ygs 234 3.97e+00 1ygs b.26.1.1 23907 1l7lA 121 4.12e+00 b.18.1.16 77790 1pmaP 211 5.08e+00 1pmaP d.153.1.4 41863 1tnfA 158 5.39e+00 2tnfA b.22.1.1 23871 1fvkA 189 6.58e+00 1fvkA a.44.1.1 17490 c.47.1.4 32784 1ytbA 180 6.78e+00 1ytbA d.129.1.1 41276 d.129.1.1 41277 1ujxA 119 6.89e+00 1jjyA 636 7.34e+00 1jjyA e.26.1.2 63141 1hl6A 165 7.41e+00 d.58.7.1 83609 1a6bB 40 7.59e+00 1a6bB g.40.1.1 45172 2f5bH 235 7.69e+00 b.1.1.1 88506 b.1.1.2 88507 1htrB 329 7.86e+00 1smrA 1ytbB 180 7.94e+00 1ytbA d.129.1.1 41278 d.129.1.1 41279 1ffkW 73 8.94e+00 1ffkW g.41.8.1 45315 4tsvA 150 9.01e+00 2tnfA b.22.1.1 23860 1tbaB 180 9.07e+00 1ytbA d.129.1.1 41286 d.129.1.1 41287 1dsbA 189 9.22e+00 1fvkA a.44.1.1 17497 c.47.1.4 32791 1jv4A 162 1.05e+01 b.60.1.1 67343 1a23 189 1.08e+01 1fvkA a.44.1.1 17513 c.47.1.4 32807 1su8A 636 1.29e+01 1pmd 675 1.30e+01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1i05A 180 1.33e+01 1mup b.60.1.1 27130 1qcrK 45 1.33e+01 1qcrK f.23.15.1 43680 1hv9A 456 1.35e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1i06A 180 1.40e+01 1mup b.60.1.1 27131 1itpA 77 1.46e+01 d.58.3.2 66371 1frpA 335 1.55e+01 1frpA e.7.1.1 42875 1paz 123 1.55e+01 1bqk b.6.1.1 22878 1hucA 47 1.56e+01 1hucA d.3.1.1 37049 1qy1A 174 1.64e+01 1ac5 483 1.65e+01 1ac5 c.69.1.5 34653 1df3A 162 1.92e+01 1mup b.60.1.1 27134 1h7dA 49 1.97e+01 j.88.1.1 65701 1ft9A 222 2.13e+01 1ft9A a.4.5.4 16107 b.82.3.1 28131 1ew3A 159 2.15e+01 1mup b.60.1.1 27114 1el6B 219 2.19e+01 1el6B d.182.1.1 42607 1mv3A 213 2.28e+01 1rwtA 232 2.31e+01 1jj2Y 73 2.32e+01 1ffkW g.41.8.1 63110 1kz8A 337 2.41e+01 e.7.1.1 77633 1el6A 219 2.45e+01 1el6B d.182.1.1 42606 1m6sA 347 2.54e+01 c.67.1.1 78701 1jg8A 347 2.56e+01 1jg8A c.67.1.1 62946 1mup 166 2.90e+01 1mup b.60.1.1 27133 1oniA 137 2.97e+01 d.79.1.1 87144 1ihmA 530 2.98e+01 1ihmA b.121.4.3 62385 1a65A 504 2.99e+01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1qm9A 198 3.18e+01 1qm9A d.58.7.1 39207 d.58.7.1 39208 1lnh 857 3.21e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1oaoA 674 3.25e+01 e.26.1.2 86744 1uxzA 131 3.25e+01 2rmcA 182 3.29e+01 2cpl b.62.1.1 27491 1et9A 204 3.34e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1pyiA 96 3.43e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 1s5lB 510 3.47e+01 1a59 378 3.58e+01 1aj8A a.103.1.1 18902 1aozA 552 3.68e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1jxcA 68 3.71e+01 g.3.7.5 77201 1k3bA 119 3.75e+01 b.61.5.1 72016 1h6yA 170 3.79e+01 b.18.1.7 70904 1o4sA 389 3.81e+01 c.67.1.1 86620 1pixA 587 3.86e+01 1eqkA 102 3.89e+01 1eqkA d.17.1.2 37998