# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-scores 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 1n71A 180 3.14e-01 d.108.1.1 85370 1b87A 181 3.99e-01 1b87A d.108.1.1 40797 1upaA 573 5.53e-01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1v6sA 390 6.95e-01 c.86.1.1 -8567 1im8A 244 7.18e-01 c.66.1.14 66212 1o4tA 133 1.59e+00 b.82.1.9 86622 1f42A 306 3.10e+00 1f42A b.1.1.4 59636 b.1.2.1 59637 b.1.2.1 59638 1neq 74 3.31e+00 1neq a.35.1.2 17063 2sxl 88 3.71e+00 1b7fA d.58.7.1 39179 1o6yA 299 5.89e+00 d.144.1.7 81106 1ir3A 306 6.35e+00 1fmk d.144.1.7 41702 1ghsA 306 6.74e+00 1aq0A c.1.8.3 28840 1obbA 480 8.08e+00 c.2.1.5 86760 d.162.1.2 86761 1etb1 127 9.61e+00 1etb1 2pabA 127 1.04e+01 1etb1 b.3.4.1 22597 1brwA 433 1.07e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1e9pA 151 1.27e+01 1mfmA b.1.8.1 22215 1uuzA 137 1.29e+01 d.233.1.1 -9478 1hw7A 255 1.33e+01 1i7fA d.193.1.1 61297 1pzdA 322 1.35e+01 unknown_sccs -2848 unknown_sccs -10778 1cbjA 151 1.37e+01 1mfmA b.1.8.1 22213 1q0eA 152 1.38e+01 b.1.8.1 -2798 1hkeA 137 1.42e+01 1nsf 273 1.46e+01 1d2nA c.37.1.20 32429 1qf8A 182 1.75e+01 1qf8A g.41.4.1 45212 2sodB 152 1.84e+01 1mfmA b.1.8.1 22242 1klaA 112 1.87e+01 2tgi g.17.1.2 44779 1b7fA 168 2.07e+01 1b7fA d.58.7.1 39169 d.58.7.1 39170 1f41A 127 2.20e+01 1etb1 b.3.4.1 22539 1lw3A 657 2.23e+01 unknown_sccs -4378 unknown_sccs -7358 1kobA 387 2.25e+01 1tkiA d.144.1.7 41640 1e5pA 151 2.44e+01 1bj7 b.60.1.1 59272 1r4xA 275 2.51e+01 unknown_sccs -2846 unknown_sccs -10776 1b64 91 2.52e+01 1b64 d.58.12.1 39306 1tiv 86 2.58e+01 1tiv j.40.1.1 46307 1bouA 139 2.73e+01 1bouA a.88.1.1 18521 1jzxK 205 2.86e+01 i.1.1.2 67885 1hcl 298 2.87e+01 1hcl d.144.1.7 41593 1b4uA 139 2.91e+01 1bouA a.88.1.1 18523 1jksA 294 2.94e+01 d.144.1.7 71710 3thiA 371 2.98e+01 2thiA c.94.1.1 35792 1o13A 136 3.10e+01 c.55.5.1 80762 1ndoB 194 3.11e+01 1ndoB d.17.4.4 38121 1atiB 505 3.20e+01 1atiA c.51.1.1 33197 d.104.1.1 40746 1griA 217 3.25e+01 1griA b.34.2.1 24531 b.34.2.1 24532 d.93.1.1 40473 1zug 71 3.27e+01 1r69 a.35.1.2 17041 1xsoA 150 3.30e+01 1mfmA b.1.8.1 22273 1sviA 195 3.41e+01 7ceiB 206 3.48e+01 1bxiB d.4.1.1 37134 2cro 71 3.52e+01 1r69 a.35.1.2 17038 1d2nA 272 3.59e+01 1d2nA c.37.1.20 32428 1o7nB 194 3.61e+01 d.17.4.4 81164 2thiA 379 3.71e+01 2thiA c.94.1.1 35794 1adr 76 3.75e+01 1r69 a.35.1.2 17042 1mzjA 339 3.96e+01 c.95.1.1 79700 c.95.1.1 79701 1kshB 152 3.97e+01 b.1.18.8 72915