# 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 1cjwA 166 9.14e-05 1cjwA d.108.1.1 40818 1i12A 160 2.46e-04 1i21A d.108.1.1 61515 1i1dA 161 2.83e-04 1i21A d.108.1.1 61526 1i21A 159 3.98e-04 1i21A d.108.1.1 61549 1qsmA 152 5.06e-04 1qsmA d.108.1.1 40808 1qstA 160 2.75e-02 1yghA d.108.1.1 40804 1yghA 164 4.18e-02 1yghA d.108.1.1 40802 1nmtA 392 2.20e-01 1nmtA d.108.1.2 40823 d.108.1.2 40824 1bob 320 3.29e-01 1bob d.108.1.1 40816 1iicA 422 3.66e-01 1nmtA d.108.1.2 62422 d.108.1.2 62423 1pmaP 211 2.25e+00 1pmaP d.153.1.4 41863 1nar 290 2.46e+00 1nar c.1.8.5 28988 1ddzA 496 2.73e+00 1ddzA c.53.2.1 33372 c.53.2.1 33373 1fjgK 129 3.79e+00 1fjfK c.55.4.1 33733 1b87A 181 4.01e+00 1b87A d.108.1.1 40797 1bo4B 168 4.92e+00 1bo4A d.108.1.1 40799 1bo4A 168 7.79e+00 1bo4A d.108.1.1 40798 1cvrA 435 8.13e+00 1cvrA b.1.1.5 21949 c.17.1.2 31006 1i6pA 220 8.40e+00 1ddzA c.53.2.1 61848 2pleA 105 8.43e+00 1qadA d.93.1.1 40522 1lgyA 269 8.50e+00 3tgl c.69.1.17 34758 1gq2A 555 9.32e+00 1atg 231 9.53e+00 1atg c.94.1.1 35834 1bfi 112 9.71e+00 1qadA d.93.1.1 40499 1esmA 316 1.01e+01 1esmA c.37.1.6 31953 1g2qA 187 1.09e+01 c.61.1.1 65117 1dxeA 256 1.10e+01 1dxeA c.1.12.5 29310 1be1 137 1.37e+01 1be1 c.23.6.1 31237 1seiA 130 1.47e+01 1seiA d.140.1.1 41463 1c24A 263 1.60e+01 1c24A d.127.1.1 41148 2matA 264 1.60e+01 1c24A d.127.1.1 41146 2pldA 105 1.75e+01 1qadA d.93.1.1 40521 2at9 247 1.96e+01 1c3wA f.2.1.1 43427 1gpt 47 2.04e+01 1gpt g.3.7.5 44175 1dkgD 383 2.04e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 2dubE 261 2.07e+01 1nzyA c.14.1.3 30916 1ctt 294 2.12e+01 1ctt c.97.1.1 36022 c.97.1.1 36023 1qg3A 195 2.14e+01 1qg3A b.1.2.1 21993 b.1.2.1 21994 1thx 115 2.23e+01 1thx c.47.1.1 32732 1g1sA 162 2.43e+01 d.169.1.1 65100 g.3.11.1 65101 1b72B 87 2.46e+01 1akhA a.4.1.1 16001 1ew2A 513 2.46e+01 1b8jA c.76.1.1 59525 1opc 110 2.47e+01 1opc a.4.6.1 16231 1who 96 2.50e+01 1who b.7.3.1 23215 1qqqA 264 2.66e+01 1bkpA d.117.1.1 40931 1li5A 461 2.74e+01 2acr 315 2.75e+01 1frb c.1.7.1 28674 1ads 315 2.85e+01 1frb c.1.7.1 28671 2admA 421 2.88e+01 2admA c.66.1.10 34238 1bx2B 191 2.92e+01 1iakB b.1.1.2 21610 d.19.1.1 38184 1esl 162 2.99e+01 1esl d.169.1.1 42353 g.3.11.1 44225 2tscA 264 3.02e+01 1bkpA d.117.1.1 40952 1g1tA 157 3.04e+01 d.169.1.1 65104 g.3.11.1 65105 1agx 331 3.11e+01 4pgaA c.88.1.1 35564 2napA 723 3.12e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1rtfB 252 3.29e+01 5ptp 1zac 90 3.36e+01 1ncx a.39.1.5 17236 1drmA 131 3.39e+01 1drmA d.110.3.2 40908 1i06A 180 3.48e+01 1mup b.60.1.1 27131 1jv4A 162 3.48e+01 b.60.1.1 67343 1gps 47 3.50e+01 1gpt g.3.7.5 44176 1mup 166 3.50e+01 1mup b.60.1.1 27133 1gm6A 175 3.51e+01 1ig8A 486 3.57e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1g38A 393 3.57e+01 2admA c.66.1.10 60235 1drqA 131 3.58e+01 1drmA d.110.3.2 40910 1i05A 180 3.59e+01 1mup b.60.1.1 27130 1dpe 507 3.66e+01 1dpe c.94.1.1 35799 1kuh 132 3.67e+01 1kuh d.92.1.1 40258 1jbgA 109 3.74e+01 a.6.1.3 66480 1bqsA 209 3.76e+01 1bqsA b.1.1.4 21704 b.1.1.4 21705 1jj2D 176 3.83e+01 1ffkD d.77.1.1 63088