# List of top-scoring protein chains for t2k-100-30-alpha 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 1sluA 142 1.25e+00 1sluA b.16.1.1 23685 1slvA 142 1.29e+00 1sluA b.16.1.1 23688 1ihgA 370 1.39e+00 2cpl a.118.8.1 62380 b.62.1.1 62381 1eaiC 61 1.47e+00 1eaiC g.22.1.1 44894 1ddwA 120 1.62e+00 1evhA b.55.1.4 27001 1ddvA 111 1.65e+00 1evhA b.55.1.4 27002 1i2hA 168 2.24e+00 1ir3A 306 3.37e+00 1fmk d.144.1.2 41702 1mak 113 3.42e+00 8fabA b.1.1.1 19825 1nglA 179 4.03e+00 1nglA b.60.1.1 27146 1irk 306 4.19e+00 1fmk d.144.1.2 41703 1g0sA 209 4.60e+00 1g0sA d.113.1.1 60187 1f0lA 535 4.65e+00 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1gio 125 4.82e+00 7rsa d.5.1.1 37304 1qhxA 178 5.24e+00 1qhsA c.37.1.3 31936 1pdgC 109 5.91e+00 1pdgA g.17.1.1 44750 1jpaA 312 6.07e+00 d.144.1.2 67011 1ddt 535 8.21e+00 1ddt b.2.1.1 22379 d.166.1.1 42241 f.1.2.1 43384 1k59A 123 8.36e+00 1a4yB 123 8.61e+00 7rsa d.5.1.1 37296 1iqaA 160 8.74e+00 1d2pA 373 8.86e+00 1d2oA b.3.5.1 22629 b.3.5.1 22630 b.3.5.1 22631 b.3.5.1 22632 1pdgA 109 9.81e+00 1pdgA g.17.1.1 44748 1csn 298 9.91e+00 1csn d.144.1.1 41664 1d8cA 723 9.92e+00 1d8cA c.1.13.1 29325 1dfnA 30 1.02e+01 g.9.1.1 44570 1am2 199 1.11e+01 1am2 b.86.1.2 28381 1j6nA 303 1.13e+01 1e58A 249 1.14e+01 1qhfA c.60.1.1 59262 1jenA 267 1.15e+01 1jenA 1qhsA 178 1.15e+01 1qhsA c.37.1.3 31938 1d2oA 187 1.19e+01 1d2oA b.3.5.1 22625 b.3.5.1 22626 1hbyA 123 1.22e+01 7rsa d.5.1.1 60936 1dlfL 113 1.25e+01 8fabA b.1.1.1 20382 1a1z 91 1.33e+01 1a1z a.77.1.1 18427 1hxmA 229 1.34e+01 1hxmA b.1.1.1 61367 b.1.1.2 61368 1gr2A 279 1.35e+01 1gr2A c.94.1.1 35825 1rhd 293 1.35e+01 1rhs c.46.1.2 32715 c.46.1.2 32716 1qubA 319 1.38e+01 1qubA g.18.1.1 44863 g.18.1.1 44864 g.18.1.1 44865 g.18.1.1 44866 g.18.1.1 44867 1k47A 337 1.45e+01 1a1w 91 1.47e+01 1a1z a.77.1.1 18425 1itxA 419 1.58e+01 1je5A 206 1.66e+01 1je5A b.40.4.7 62909 1b9wA 89 1.70e+01 1b9wA g.3.11.4 44334 g.3.11.4 44335 1ftkA 279 1.72e+01 1gr2A c.94.1.1 35819 1jroB 777 1.74e+01 d.41.1.1 67141 d.133.1.1 67142 1agi 125 1.89e+01 7rsa d.5.1.1 37303 1nra 63 1.94e+01 1aho g.3.7.1 44126 1rhs 296 2.08e+01 1rhs c.46.1.2 32703 c.46.1.2 32704 1qppA 218 2.09e+01 1qpxA b.1.11.1 22320 b.7.2.1 23202 1lba 146 2.12e+01 1lba d.118.1.1 41062 2cpl 165 2.18e+01 2cpl b.62.1.1 27420 1a44 185 2.19e+01 1a44 b.17.1.1 23704 1h9oA 112 2.20e+01 1qadA d.93.1.1 60837 1thg 544 2.21e+01 1thg c.69.1.17 34763 1d2vC 466 2.21e+01 1mhlC 1mhlC 466 2.46e+01 1mhlC 1gk8I 140 2.51e+01 d.73.1.1 65242 1aym1 285 2.54e+01 1aym1 1cp3A 277 2.56e+01 1pauA c.17.1.1 30992 1cxpC 466 2.65e+01 1mhlC 1bj7 156 2.71e+01 1bj7 b.60.1.1 27113 1d3gA 367 2.73e+01 1d3gA c.1.4.1 28600 1jj2I 145 2.80e+01 1ffkG c.21.1.1 63094 1ibzA 112 2.94e+01 1ibzA b.6.1.4 62237 1cd9B 215 2.94e+01 1cto b.1.2.1 22041 b.1.2.1 22042 1avgI 142 3.01e+01 1avgI b.60.1.3 27229 1apyB 141 3.11e+01 1apyB 1cwoA 165 3.20e+01 2cpl b.62.1.1 27445 1awqA 164 3.25e+01 2cpl b.62.1.1 27461 1qadA 111 3.64e+01 1qadA d.93.1.1 40498 1a2vA 655 3.84e+01 1a2vA b.30.2.1 24416 d.17.2.1 38059 d.17.2.1 38060 1ibyA 112 3.85e+01 1ibzA b.6.1.4 62233 2rmcA 182 3.89e+01 2cpl b.62.1.1 27491 1ei5A 520 3.89e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772