# List of top-scoring protein chains for T0578.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.soe.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 2ip2A 334 5.30e-01 3hveB 256 1.71e+00 3hveA 256 2.89e+00 2ox7A 155 3.03e+00 b.172.1.1 149054 3h92A 92 4.19e+00 1nhpA 447 8.16e+00 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1npxA 447 8.17e+00 c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 1nhrA 447 8.20e+00 c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1nhqA 447 8.22e+00 c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 1nhsA 447 8.27e+00 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 2zmeB 238 1.22e+01 1f8wA 447 1.38e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30561,30562,40202 2uxtA 451 1.40e+01 3cuqB 218 1.40e+01 1ukrA 184 1.49e+01 1axkA b.29.1.11 24336 1t6gC 184 1.55e+01 b.29.1.11 106569 2qz2A 184 1.55e+01 2pmuA 110 1.67e+01 2p5zX 491 1.74e+01 b.40.8.1,b.106.1.1,b.106.1.1 149263,149264,149265 3bkyH 226 2.08e+01 b.1.1.1,b.1.1.2 155372,155373 3hurA 395 2.08e+01 1y2tA 142 2.08e+01 b.97.1.2 116407 1vzaA 316 2.55e+01 d.117.1.1 41017 2nvmA 126 2.72e+01 d.326.1.1 138631 1yixA 265 2.97e+01 c.1.9.12 123371 3d37A 381 3.00e+01 b.106.1.1,b.106.1.1 157269,157270 1yzhA 214 3.51e+01 c.66.1.53 124277 2fjfB 227 3.63e+01 b.1.1.1,b.1.1.2 133579,133580 1kv9A 668 3.67e+01 a.3.1.6,b.70.1.1 73056,73057 3dxuA 337 3.80e+01 3dxtA 354 3.86e+01 1rblI 109 4.25e+01 d.73.1.1 118599 2h1tA 188 4.29e+01 b.178.1.1 147215 2qt1A 207 4.44e+01 1rscI 111 4.59e+01 d.73.1.1 118620 2gdqA 382 4.68e+01 c.1.11.2,d.54.1.1 135020,135021 2auqA 146 4.69e+01 1x10A 208 4.72e+01 1z8tA 208 4.72e+01 1ioiA 208 4.74e+01 1a2zA c.56.4.1 62629 2eo8A 208 4.74e+01 1z8xA 208 4.75e+01 1x12A 208 4.75e+01 1z8wA 208 4.75e+01 1ukxA 137 4.85e+01 d.20.1.3 107919 1z97A 266 4.96e+01 2aamA 309 5.00e+01 c.1.8.15 126489 3hm7A 448 5.06e+01 1m5hA 297 5.07e+01 d.58.33.1,d.58.33.1 74493,74494 3eo9H 219 5.10e+01 3eoaB 220 5.11e+01 1iofA 208 5.22e+01 1a2zA c.56.4.1 62625 2wwjA 348 5.24e+01 2gp5A 349 5.26e+01 2p5bA 352 5.27e+01 3d7nA 193 5.30e+01 2df5A 213 5.31e+01 3gwfA 540 5.33e+01 2av0A 146 5.38e+01 a.1.1.2 127347 2ox0A 381 5.45e+01 2hfxA 260 5.45e+01 2hfwA 260 5.47e+01 1h0hB 214 5.49e+01 d.58.1.5 76437 1z93A 266 5.51e+01 2hfyA 260 5.59e+01 1sbpA 310 5.61e+01 c.94.1.1 35760 3bt3A 148 5.64e+01 1cveA 259 5.71e+01 b.74.1.1 27915 3e8tA 220 5.76e+01 2qg6A 199 5.85e+01 1cnhA 259 5.97e+01 b.74.1.1 27880 1pu6A 218 6.03e+01 a.96.1.5 95123 2j04A 588 6.11e+01 3ie2A 431 6.20e+01 3f6uL 98 6.23e+01 1wtjA 343 6.33e+01 1caiA 259 6.36e+01 b.74.1.1 27830 1bo7A 316 6.37e+01 1bkpA d.117.1.1 40997 1tswA 316 6.37e+01 d.117.1.1 40991 1bpjA 316 6.39e+01 1bkpA d.117.1.1 40996 1tdbA 315 6.39e+01 d.117.1.1 41025 2g8dA 316 6.40e+01 2g89A 316 6.40e+01 1bo8A 316 6.42e+01 1bkpA d.117.1.1 40994 2g8aA 316 6.43e+01 1njeA 316 6.43e+01 d.117.1.1 41001 3h5lA 419 6.45e+01 2g86A 316 6.45e+01 2nwyA 260 6.45e+01 1jmfA 316 6.47e+01 d.117.1.1 41007 1jmiA 316 6.48e+01 d.117.1.1 41006 1jmgA 316 6.49e+01 d.117.1.1 41008 1tsyA 316 6.53e+01 d.117.1.1 40990 1tsxA 316 6.54e+01 d.117.1.1 41002 1njdA 316 6.60e+01 d.117.1.1 41004 2i2rA 144 6.63e+01 2do0A 114 6.64e+01 2nz0B 140 6.65e+01 1tvvA 316 6.66e+01 d.117.1.1 40998 1s1gA 124 6.69e+01 d.42.1.2 98346 1bp6A 316 6.70e+01 1bkpA d.117.1.1 41000 1cazA 259 6.73e+01 b.74.1.1 27859 1bp0A 316 6.76e+01 1bkpA d.117.1.1 40993 1jmhA 316 6.85e+01 d.117.1.1 41009 2pxjA 347 6.87e+01 1jasA 152 6.90e+01 d.20.1.1 90882 1autL 114 6.92e+01 1hcgB g.3.11.1,g.3.11.1 44244,44245 4hbiA 146 6.97e+01 3sdhA a.1.1.2 14990 1x8lA 351 7.02e+01 3h2bA 203 7.09e+01 1mblA 256 7.25e+01 1btl e.3.1.1 42723 1ugeA 258 7.27e+01 b.74.1.1 27865 1fmjA 351 7.36e+01 c.37.1.5 59879 1zscA 259 7.39e+01 b.74.1.1 27845 1ugaA 258 7.42e+01 b.74.1.1 27862 1cngA 259 7.47e+01 b.74.1.1 27869 2h4nA 259 7.50e+01 b.74.1.1 27867 4blmA 265 7.54e+01 1btl e.3.1.1 42721 1fr7A 260 7.57e+01 2cba b.74.1.1 27828 1cvcA 259 7.59e+01 b.74.1.1 27927 1zh9A 259 7.63e+01 1h9nA 259 7.72e+01 b.74.1.1 27840 2nwoA 260 7.83e+01 3ie0A 431 7.89e+01 1cvfA 259 7.92e+01 b.74.1.1 27917 1cniA 259 7.98e+01 b.74.1.1 27839