# 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 1yacA 208 3.68e-01 1yacA c.33.1.2 31757 1uok 558 4.87e-01 1uok b.71.1.1 27801 c.1.8.1 28788 1a6q 382 5.15e-01 1a6q d.158.1.1 42063 1fua 215 7.18e-01 2fua c.74.1.1 34973 2fua 215 7.41e-01 2fua c.74.1.1 34977 1e4cP 215 7.49e-01 2fua c.74.1.1 34969 1exrA 148 7.55e-01 1cll a.39.1.5 17299 1osa 148 7.67e-01 1cll a.39.1.5 17300 1hruA 188 9.64e-01 1hruA d.115.1.1 40926 1g4yR 148 1.21e+00 1cll a.39.1.5 60252 1ehyA 294 1.28e+00 1ehyA c.69.1.11 34693 1cll 148 1.63e+00 1cll a.39.1.5 17263 1hqsA 423 1.65e+00 1iso c.77.1.1 61154 1tfr 305 2.03e+00 1tfr a.60.7.1 18081 c.53.1.2 33351 3cln 148 2.24e+00 1cll a.39.1.5 17286 1c4xA 285 2.52e+00 1c4xA c.69.1.10 34684 1sfe 180 2.84e+00 1sfe a.4.2.1 16073 c.55.7.1 33748 1floA 422 3.57e+00 1floA a.60.9.1 18106 d.163.1.1 42166 1qgpA 77 3.93e+00 1qbjA a.4.5.19 16158 1ggwA 140 3.99e+00 1ggwA a.39.1.5 60490 1qbjA 81 4.13e+00 1qbjA a.4.5.19 16155 1f37A 110 4.19e+00 1f37A c.47.1.11 33088 1qjgA 125 4.74e+00 1opy d.17.4.3 38102 1ldjA 760 4.78e+00 1i7qA 519 5.01e+00 1qdlA d.161.1.1 61901 1nbaA 264 5.09e+00 1nbaA c.33.1.1 31753 1ggzA 148 5.11e+00 1cex 214 5.36e+00 1cex c.23.9.1 31285 1hnoA 280 5.53e+00 1hnoA c.14.1.3 61095 1cus 200 5.57e+00 1cex c.23.9.1 31287 8cho 125 5.58e+00 1opy d.17.4.3 38108 1gkkA 297 5.85e+00 c.69.1.2 65248 1cyi 90 5.85e+00 1ctj a.3.1.1 15804 1cyj 90 5.88e+00 1ctj a.3.1.1 15805 1kkcA 221 6.07e+00 a.2.11.1 68660 d.44.1.1 68661 1bno 87 6.26e+00 1bpyA a.60.6.1 18079 1gklA 297 6.41e+00 c.69.1.2 65250 1g61A 228 6.63e+00 1g61A d.126.1.1 41126 1hw1A 239 6.88e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1tns 76 7.28e+00 1qpmA a.4.5.26 16228 1cpt 412 8.02e+00 1cpt a.104.1.1 18968 1fjgC 239 9.18e+00 1fjfC d.52.3.1 38831 d.53.1.1 38839 1chuA 540 9.82e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1hnuA 280 1.01e+01 1hnoA c.14.1.3 61096 1jj2A 239 1.02e+01 1rl2A b.34.5.3 63084 b.40.4.5 63085 1fpzA 212 1.04e+01 1fpzA c.45.1.1 59976 1i1qA 520 1.05e+01 1qdlA d.161.1.1 61543 1dtdB 61 1.06e+01 1dtvA g.30.1.1 44962 1e2xA 243 1.15e+01 1e2xA a.4.5.6 16113 a.78.1.1 18443 1hyeA 313 1.23e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1idm 343 1.32e+01 1cnzA c.77.1.1 35035 1ctj 89 1.41e+01 1ctj a.3.1.1 15798 1ipd 345 1.53e+01 1cnzA c.77.1.1 35038 1faoA 126 1.55e+01 1faoA b.55.1.1 26974 1hdhA 536 1.56e+01 c.76.1.2 65805 1fjgI 128 1.66e+01 1fjfI d.14.1.1 37559 1f28A 297 1.73e+01 1bkpA d.117.1.1 59608 1i60A 278 1.74e+01 1fmtA 314 1.85e+01 1fmtA b.46.1.1 25758 c.65.1.1 34174 1ndoA 449 1.90e+01 1ndoA b.33.1.2 24444 d.129.3.3 41323 1dtvA 67 1.93e+01 1dtvA g.30.1.1 44963 1j5eC 239 2.05e+01 1jy1A 464 2.06e+01 d.136.1.3 67438 d.136.1.3 67439 1swuA 127 2.09e+01 1swuA b.61.1.1 27230 1dr8B 344 2.09e+01 1cnzA c.77.1.1 35052 1eg9A 449 2.12e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1vasA 137 2.13e+01 2end a.18.1.1 16404 1awcB 153 2.14e+01 1bd8 a.118.2.1 19156 2end 138 2.25e+01 2end a.18.1.1 16400 2tpsA 227 2.36e+01 2tpsA c.1.3.1 28591 1fit 147 2.38e+01 1fit d.13.1.1 37499 1rypB 250 2.39e+01 1rypB d.153.1.4 41933 1bak 119 2.39e+01 1bak b.55.1.1 26973 1sek 378 2.50e+01 1sek e.1.1.1 42675 1apa 266 2.61e+01 1qi7A d.165.1.1 42205 1hw5A 210 2.63e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1kyqA 274 2.82e+01 1mai 131 2.96e+01 1mai b.55.1.1 26951 1dgrC 178 3.12e+01 1dgwA b.82.1.2 28100 1h6oA 204 3.13e+01 a.146.1.1 60689 1rypE 242 3.21e+01 1rypE d.153.1.4 41936 2masA 314 3.22e+01 2masA c.70.1.1 34810 2hsdA 253 3.26e+01 1e6wA c.2.1.2 29866 1dr9A 201 3.37e+01 1dr9A b.1.1.1 19762 b.1.1.3 21684 1g25A 65 3.46e+01 1g25A g.44.1.1 45325 1kepA 348 3.58e+01 c.2.1.2 68536 2izgB 123 3.58e+01 1swuA b.61.1.1 27236 1bmqB 88 3.68e+01 1pauB 1knt 58 3.72e+01 1bpi g.8.1.1 44538 2act 220 3.75e+01 1cs8A d.3.1.1 37002 1sriA 121 3.84e+01 1swuA b.61.1.1 27276 1clxA 347 3.88e+01 1taxA c.1.8.3 28899 2izhB 123 3.97e+01 1swuA b.61.1.1 27234 1krhA 338 3.98e+01