# List of top-scoring protein chains for T0235.t04-w0.5 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 1nb8A 353 5.58e-30 d.3.1.9 80385 1v5tA 90 4.52e-02 1v86A 95 9.14e-02 1ud7A 76 1.33e-01 1ubi d.15.1.1 37593 1j8cA 125 2.32e-01 d.15.1.1 71601 1c3tA 76 2.80e-01 1ubi d.15.1.1 37594 1p3qU 76 4.06e-01 d.15.1.1 87750 1cmxB 75 4.14e-01 1ubi d.15.1.1 37595 1otrB 76 9.25e-01 d.15.1.1 87414 1hbxG 157 2.13e+00 1awcA a.4.5.21 60934 1omiA 248 3.09e+00 a.4.5.4 87079 b.82.3.3 87080 1r9oA 477 3.25e+00 1qmyA 167 3.62e+00 1qmyA d.3.1.2 37094 1bt0A 76 3.68e+00 1ubi d.15.1.1 37607 1qolA 173 4.05e+00 1qmyA d.3.1.2 37097 1q9cA 191 4.43e+00 a.22.1.3 -567 1og5A 475 4.86e+00 a.104.1.1 86982 1uelA 95 5.70e+00 d.15.1.1 -9137 1ogwA 74 6.35e+00 d.15.1.1 87001 1iyfA 81 6.77e+00 d.15.1.1 83789 1gm5A 780 8.74e+00 unknown_sccs 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1gjzA 53 8.83e+00 d.15.1.1 65223 1hkfA 122 9.48e+00 b.1.1.1 83553 1s24A 87 1.01e+01 g.41.5.1 -12783 1f3cA 89 1.05e+01 1cmiA d.39.1.1 38557 1duwA 292 1.11e+01 19hcA a.138.1.1 59138 1cmiA 85 1.11e+01 1cmiA d.39.1.1 38551 1fbvA 388 1.12e+01 2cblA a.39.1.7 17384 a.48.1.1 17778 d.93.1.1 40532 g.44.1.1 45321 1ae7 119 1.14e+01 1poa a.133.1.2 19553 1g55A 343 1.17e+01 1g55A c.66.1.26 34247 1nddA 76 1.26e+01 1ubi d.15.1.1 37599 1rhwA 89 1.30e+01 d.39.1.1 -9709 1ldkB 366 1.32e+01 a.4.5.34 73852 e.40.1.1 73853 1pwjA 89 1.45e+01 d.39.1.1 -9707 1hlgA 371 1.47e+01 1hlgA c.69.1.6 34656 1t9kA 347 1.48e+01 1re6A 94 1.49e+01 d.39.1.1 -9712 1i4eA 300 1.61e+01 1p35A b.28.1.1 61685 1ko7A 314 1.69e+01 c.98.2.1 72797 c.91.1.2 72798 16vpA 366 1.73e+01 16vpA d.180.1.1 42601 1bgeA 175 1.93e+01 1bgc a.26.1.1 16823 1k0eA 453 2.04e+01 d.161.1.1 67938 1i3pA 298 2.08e+01 b.28.1.1 66020 1bi8B 166 2.21e+01 1bd8 d.211.1.1 19158 1s1i9 91 2.25e+01 1gveA 327 2.29e+01 c.1.7.1 70597 1p35A 299 2.33e+01 1p35A b.28.1.1 23925 1v5oA 102 2.39e+01 1ap7 168 2.40e+01 1bd8 d.211.1.1 19170 1neeA 138 2.45e+01 unknown_sccs -9002 g.59.1.1 -12824 1gveB 327 2.48e+01 c.1.7.1 70598 1foeA 377 2.52e+01 1foeA a.87.1.1 18517 b.55.1.1 26969 1i3sA 298 2.59e+01 b.28.1.1 66021 1ul5A 88 2.62e+01 unknown_sccs -12762 1blxB 166 2.67e+01 1bd8 d.211.1.1 19160 1bc9 200 2.68e+01 1pbv a.118.3.1 19180 1rdg 53 2.79e+01 1rb9 g.41.5.1 45221 1nj1A 501 2.84e+01 c.51.1.1 85755 d.68.5.1 85756 d.104.1.1 85757 1lm8B 118 2.95e+01 d.15.1.1 74033 1qxfA 66 3.06e+01 g.41.8.4 -12822 1e8jA 52 3.06e+01 g.41.5.1 64796 1meyC 87 3.25e+01 2gliA k.12.1.1 46430 1o54A 277 3.25e+01 c.66.1.13 -8095 1q6xA 644 3.44e+01