# List of top-scoring protein chains for T0578.t2k-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 3.99e-01 3hveB 256 1.89e+00 3hveA 256 3.04e+00 3h92A 92 3.20e+00 2ox7A 155 4.01e+00 b.172.1.1 149054 2zmeB 238 1.21e+01 1nhpA 447 1.36e+01 c.3.1.5,c.3.1.5,d.87.1.1 30549,30550,40196 1nhqA 447 1.36e+01 c.3.1.5,c.3.1.5,d.87.1.1 30551,30552,40197 1npxA 447 1.36e+01 c.3.1.5,c.3.1.5,d.87.1.1 30557,30558,40200 1nhrA 447 1.37e+01 c.3.1.5,c.3.1.5,d.87.1.1 30553,30554,40198 1nhsA 447 1.37e+01 c.3.1.5,c.3.1.5,d.87.1.1 30555,30556,40199 3cuqB 218 1.41e+01 2uxtA 451 1.79e+01 1vzaA 316 1.81e+01 d.117.1.1 41017 2pmuA 110 1.91e+01 2p5zX 491 1.94e+01 b.40.8.1,b.106.1.1,b.106.1.1 149263,149264,149265 3hurA 395 2.04e+01 1f8wA 447 2.16e+01 1nhp c.3.1.5,c.3.1.5,d.87.1.1 30561,30562,40202 2nvmA 126 2.56e+01 d.326.1.1 138631 3gwfA 540 3.00e+01 1ukrA 184 3.33e+01 1axkA b.29.1.11 24336 1yixA 265 3.51e+01 c.1.9.12 123371 2h1tA 188 3.51e+01 b.178.1.1 147215 1t6gC 184 3.56e+01 b.29.1.11 106569 2qz2A 184 3.56e+01 1yzhA 214 4.02e+01 c.66.1.53 124277 1bo7A 316 4.42e+01 1bkpA d.117.1.1 40997 1tswA 316 4.42e+01 d.117.1.1 40991 3d37A 381 4.42e+01 b.106.1.1,b.106.1.1 157269,157270 1bpjA 316 4.42e+01 1bkpA d.117.1.1 40996 2g89A 316 4.43e+01 2g8dA 316 4.44e+01 1bo8A 316 4.44e+01 1bkpA d.117.1.1 40994 2g8aA 316 4.44e+01 1tdbA 315 4.45e+01 d.117.1.1 41025 1njeA 316 4.45e+01 d.117.1.1 41001 2g86A 316 4.46e+01 1tsxA 316 4.46e+01 d.117.1.1 41002 1jmfA 316 4.48e+01 d.117.1.1 41007 1y2tA 142 4.48e+01 b.97.1.2 116407 1jmiA 316 4.49e+01 d.117.1.1 41006 1jmgA 316 4.49e+01 d.117.1.1 41008 1tsyA 316 4.50e+01 d.117.1.1 40990 1njdA 316 4.53e+01 d.117.1.1 41004 1tvvA 316 4.59e+01 d.117.1.1 40998 1bp6A 316 4.66e+01 1bkpA d.117.1.1 41000 1bp0A 316 4.70e+01 1bkpA d.117.1.1 40993 1jmhA 316 4.72e+01 d.117.1.1 41009 2gdqA 382 4.75e+01 c.1.11.2,d.54.1.1 135020,135021 2fjfB 227 4.93e+01 b.1.1.1,b.1.1.2 133579,133580 1w01A 131 4.96e+01 d.17.4.3 108979 1w00A 131 5.05e+01 d.17.4.3 120554 3dxuA 337 5.07e+01 1vzzA 131 5.10e+01 d.17.4.3 108977 1ukxA 137 5.11e+01 d.20.1.3 107919 1sbpA 310 5.14e+01 c.94.1.1 35760 3dxtA 354 5.19e+01 1x8lA 351 5.36e+01 3h5lA 419 5.41e+01 1w02A 131 5.41e+01 d.17.4.3 108981 1fmjA 351 5.45e+01 c.37.1.5 59879 3e8tA 220 5.52e+01 3bt3A 148 5.52e+01 2z2rA 292 5.59e+01 d.305.1.1 153949 1wd8A 670 5.87e+01 b.2.9.1,b.6.1.6,d.126.1.5 109237,109238,109239 1wdaA 670 5.87e+01 b.2.9.1,b.6.1.6,d.126.1.5 109243,109244,109245 1vzeA 316 5.88e+01 d.117.1.1 41003 2dexX 671 5.90e+01 b.2.9.1,b.6.1.6,d.126.1.5 131436,131437,131438 2dw5A 671 5.90e+01 b.2.9.1,b.6.1.6,d.126.1.5 131805,131806,131807 1rblI 109 5.99e+01 d.73.1.1 118599 1z97A 266 6.03e+01 3f6uL 98 6.06e+01 1kv9A 668 6.11e+01 a.3.1.6,b.70.1.1 73056,73057 1wg5A 104 6.26e+01 d.58.7.1 114602 2i4rA 102 6.32e+01 c.149.1.1 147501 3eo9H 219 6.51e+01 3eoaB 220 6.52e+01 1cvdA 255 6.55e+01 b.74.1.1 27918 1rscI 111 6.56e+01 d.73.1.1 118620 1m5hA 297 6.56e+01 d.58.33.1,d.58.33.1 74493,74494 1autL 114 6.66e+01 1hcgB g.3.11.1,g.3.11.1 44244,44245 3ie2A 431 6.69e+01 2auqA 146 6.73e+01 3hm7A 448 6.74e+01 3d7nA 193 6.85e+01 1cnhA 259 6.89e+01 b.74.1.1 27880 2hfxA 260 6.90e+01 2hfwA 260 6.91e+01 2nwyA 260 6.92e+01 1z93A 266 6.95e+01 2hfyA 260 6.98e+01 1caiA 259 7.00e+01 b.74.1.1 27830 3d2cA 181 7.20e+01 4hbiA 146 7.26e+01 3sdhA a.1.1.2 14990 2av0A 146 7.32e+01 a.1.1.2 127347 1xdpA 687 7.37e+01 a.7.15.1,d.322.1.2,d.136.1.4,d.136.1.4 121896,121897,121898,121899 1cazA 259 7.47e+01 b.74.1.1 27859 1h0hB 214 7.50e+01 d.58.1.5 76437 1fr7A 260 7.57e+01 2cba b.74.1.1 27828 1ugeA 258 7.72e+01 b.74.1.1 27865 1nstA 325 7.75e+01 1nstA c.37.1.5 31951 2ayuA 417 7.75e+01 d.305.1.1 127571 1ugaA 258 7.77e+01 b.74.1.1 27862 3hjnA 197 7.77e+01 1cveA 259 7.86e+01 b.74.1.1 27915 2nwoA 260 7.90e+01 1x10A 208 7.92e+01 1z8tA 208 7.93e+01 1ioiA 208 7.93e+01 1a2zA c.56.4.1 62629 1cngA 259 7.94e+01 b.74.1.1 27869 1z8xA 208 7.94e+01 1x12A 208 7.95e+01 1z8wA 208 7.95e+01 2eo8A 208 7.96e+01 2h4nA 259 7.97e+01 b.74.1.1 27867