# List of top-scoring protein chains for t2k-100-30-str 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 1iwhB 146 1.13e-01 1iq0A 592 1.13e-01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 2olbA 517 2.11e-01 1jevA c.94.1.1 35721 1jevA 517 2.21e-01 1jevA c.94.1.1 35720 1jetA 517 2.75e-01 1jevA c.94.1.1 35718 1sig 339 3.05e-01 1sig a.112.1.1 19068 1ass 159 7.41e-01 1a6dA c.8.5.2 30818 1kl7A 514 1.20e+00 1g0u1 266 1.32e+00 1fliA 98 1.33e+00 1awcA a.4.5.21 16160 1asx 159 1.57e+00 1a6dA c.8.5.2 30821 1dxtB 147 2.24e+00 1abwA a.1.1.2 15450 1babB 146 2.26e+00 1abwA a.1.1.2 15414 1ryp2 233 2.54e+00 1ryp2 1fhjB 146 2.82e+00 1abwA a.1.1.2 59838 1eupA 403 2.89e+00 1rom a.104.1.1 18967 1irdB 146 3.61e+00 a.1.1.2 66287 1mgtA 174 5.81e+00 1mgtA a.4.2.1 16078 c.55.7.1 33753 1ib8A 164 6.16e+00 1spgB 147 6.87e+00 1cg5B a.1.1.2 15588 1yme 309 7.08e+00 1aye c.56.5.1 33804 1j5eC 239 7.41e+00 1fjgC 239 7.91e+00 1fjfC d.52.3.1 38831 d.53.1.1 38839 1oxa 403 8.33e+00 1f4tA a.104.1.1 18965 1cyo 93 8.48e+00 1cyo d.120.1.1 41065 2ctb 307 8.73e+00 1aye c.56.5.1 33803 1hu4A 288 9.69e+00 1hu4A c.2.1.2 61268 1hw5A 210 1.09e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1jenA 267 1.10e+01 1jenA 1im4A 221 1.16e+01 e.8.1.5 62581 1hcnA 92 1.16e+01 1hcnA g.17.1.4 44809 1cem 363 1.20e+01 1cem a.102.1.2 18826 1i3dA 146 1.23e+01 a.1.1.2 61587 1kwfA 363 1.24e+01 1j54A 186 1.24e+01 1jx4A 352 1.30e+01 e.8.1.5 67405 1a99A 344 1.33e+01 1pot c.94.1.1 35812 1ajsA 412 1.36e+01 1ajsA c.67.1.1 34276 1lucB 324 1.41e+01 1lucA c.1.16.1 29548 1im5A 180 1.46e+01 c.33.1.2 66211 1i0hA 205 1.52e+01 1avmA a.2.11.1 15760 d.44.1.1 38685 1gd5A 130 1.53e+01 1gd5A d.189.1.1 60439 1ci8A 392 1.59e+01 e.3.1.1 64765 2ctc 307 1.64e+01 1aye c.56.5.1 33802 1dz7A 92 1.65e+01 1hcnA g.17.1.4 44815 6cpa 307 1.70e+01 1aye c.56.5.1 33816 2cgpA 210 1.71e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1brlB 324 1.74e+01 1lucA c.1.16.1 29554 1ci9A 392 1.74e+01 e.3.1.1 64767 1in6A 334 1.85e+01 1hqcA a.4.5.11 62601 c.37.1.13 62602 1amk 251 1.86e+01 1amk c.1.1.1 28503 1fqvJ 149 1.91e+01 1fqvD a.122.1.1 19266 d.42.1.2 38670 1fqvD 149 2.02e+01 1fqvD a.122.1.1 19263 d.42.1.2 38667 1jl0A 334 2.12e+01 1jenA d.156.1.1 63155 1cot 129 2.18e+01 1ycc a.3.1.1 15899 1lqxA 82 2.29e+01 1ap6A 198 2.29e+01 1avmA a.2.11.1 15746 d.44.1.1 38705 1fjgR 88 2.33e+01 1fjfR a.4.8.1 16252 1k8kA 418 2.34e+01 c.55.1.1 68305 c.55.1.1 68306 1blu 82 2.37e+01 2fdn d.58.1.1 38948 1g7dA 106 2.40e+01 1g7dA a.71.1.1 18318 1aisB 200 2.43e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1lla 628 2.43e+01 1lla a.85.1.1 18485 a.86.1.1 18496 b.1.1.5 21861 1abmA 198 2.43e+01 1avmA a.2.11.1 15748 d.44.1.1 38707 1d5nA 205 2.58e+01 1avmA a.2.11.1 15762 d.44.1.1 38687 1jkiA 533 2.64e+01 1cojA 212 2.83e+01 1avmA a.2.11.1 15737 d.44.1.1 38734 1bob 320 2.84e+01 1bob d.108.1.1 40816 2spcA 107 2.85e+01 2spcA a.7.1.1 16311 1jipA 403 2.85e+01 a.104.1.1 66748 1sur 215 2.93e+01 1sur c.26.2.2 31620 1fqiA 147 2.95e+01 1agrE a.91.1.1 18542 1lfpA 249 3.12e+01 1g13A 162 3.22e+01 1g13A b.95.1.1 60194 1a6dA 545 3.26e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1lrzA 426 3.45e+01 1e5eA 404 3.52e+01 1ibjA c.67.1.3 59265 1udh 244 3.53e+01 3eugA c.18.1.1 31015 1tsm 316 3.57e+01 1bkpA d.117.1.1 41024 3pghA 587 3.68e+01 1cqeA a.93.1.2 18726 g.3.11.1 44269 1h5wA 309 3.69e+01 e.27.1.1 65635 1e9lA 377 3.70e+01 1e9lA c.1.8.5 59395 d.26.3.1 59396 7icd 416 3.83e+01 1iso c.77.1.1 35072 1udg 244 3.89e+01 3eugA c.18.1.1 31016 1csn 298 3.91e+01 1csn d.144.1.1 41664 1kewA 361 3.96e+01 c.2.1.2 68544