# List of top-scoring protein chains for T0627.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 1rcwA 231 1.14e-32 a.132.1.4 97299 2qzcA 214 2.67e-24 3mvuA 226 9.09e-22 2gm8A 221 8.02e-19 a.132.1.3 135368 3ibxA 221 2.64e-18 2rd3A 223 2.75e-18 1uddA 226 5.81e-17 a.132.1.3 107776 1yakA 263 5.32e-16 a.132.1.3 122833 1to9A 260 5.34e-16 a.132.1.3 107172 1tyhA 248 5.87e-16 a.132.1.3 107458 2qcxA 263 1.07e-15 1rtwA 220 3.33e-15 a.132.1.3 97823 2q4xA 221 2.68e-09 a.132.1.3 139880 1z72A 225 6.43e-09 a.132.1.3 124583 2a6bA 234 6.61e-09 a.132.1.3 126235 3ddeA 239 3.90e-08 3hmlA 258 3.21e-04 3hlxA 258 9.89e-04 3hnhA 258 1.05e-03 1otwA 255 1.37e-03 a.132.1.4 93528 1otvA 259 1.38e-03 a.132.1.4 93526 1wwmA 190 9.14e-02 a.132.1.3 121363 1j30A 144 2.93e-01 a.25.1.1 90806 2aniA 346 1.20e+00 2a2mA 258 1.34e+00 a.132.1.3 126039 1syyA 346 2.65e+00 a.25.1.2 106126 1sq9A 397 2.80e+00 b.69.4.1 105889 1s4uX 407 2.85e+00 b.69.4.1 112027 3f2vA 192 4.48e+00 2ja9A 175 4.95e+00 b.40.4.5,d.51.1.1 147950,147951 3ebrA 159 5.39e+00 3ag3E 109 6.10e+00 3hy0A 441 6.87e+00 3hxwA 441 7.16e+00 2glfA 450 7.38e+00 1yadA 221 7.57e+00 2plyA 258 8.09e+00 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 149651,149652,149653,149654 3iam3 783 8.93e+00 2v3cC 432 9.09e+00 3lyfA 245 9.54e+00 1zl9A 207 1.06e+01 3dc6A 198 1.24e+01 2wtbA 725 1.26e+01 3ha2A 177 1.45e+01 2qaiA 111 1.46e+01 2ou3A 161 1.49e+01 a.287.1.1 149018 1xn9A 101 1.56e+01 d.12.1.3 115578 3hn6A 289 1.68e+01 3dtnA 234 1.73e+01 1knqA 175 1.99e+01 c.37.1.17 72786 3llkA 261 2.07e+01 2dq6A 870 2.08e+01 1pi7A 36 2.08e+01 j.35.1.1 94704 3b34A 891 2.08e+01 2gofA 35 2.26e+01 1vqoW 154 2.44e+01 d.59.1.1 120384 2ptzA 432 2.47e+01 c.1.11.1,d.54.1.1 149844,149845 1oepA 432 2.59e+01 c.1.11.1,d.54.1.1 86918,86919 3kjrA 511 2.62e+01 3adnA 294 2.63e+01 2izoA 346 2.71e+01 2g3vA 208 2.73e+01 2v0eA 55 2.78e+01 d.76.2.1 152363 1tqhA 247 2.83e+01 c.69.1.29 107225 2ckcA 80 2.92e+01 d.76.2.1 146408 1g8iA 190 3.01e+01 1rec a.39.1.5 60363 2ihcA 124 3.09e+01 1r1dA 247 3.14e+01 c.69.1.29 96813 3cirA 602 3.28e+01 a.7.3.1,c.3.1.4,d.168.1.1 156679,156680,156681 1s3qA 173 3.35e+01 a.25.1.1 118848 3n2oA 648 3.40e+01 3fp3A 537 3.45e+01 3mmzA 176 3.48e+01 1tizA 67 3.61e+01 a.39.1.5 107014 2avxA 171 3.66e+01 3fusA 316 3.98e+01 1vpqA 273 4.07e+01 c.1.32.1 113974 1ixdA 104 4.20e+01 b.34.10.1 76907 1ef7A 242 4.30e+01 1theB d.3.1.1 37087 1ayrA 368 4.32e+01 1cf1A b.1.18.11,b.1.18.11 21915,21916 2d5rA 252 4.53e+01 c.55.3.9 146466 1zq7A 207 4.54e+01 d.309.1.1 125501 1lvaA 258 4.58e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 2dafA 118 4.65e+01 2jpxA 35 4.74e+01 2hi0A 240 4.78e+01 1oefA 24 4.87e+01 j.39.1.1 46299 1cf1A 404 4.92e+01 1cf1A b.1.18.11,b.1.18.11 21907,21908 2f7wA 177 4.97e+01 c.57.1.1 133106 3bjdA 332 4.98e+01 3k6aA 180 5.09e+01 2ekjA 105 5.25e+01 1deuA 277 5.37e+01 1theB d.3.1.1 37085 1dinA 237 5.44e+01 c.69.1.9 34682 1h8pA 109 5.44e+01 g.14.1.2,g.14.1.2 70916,70917 1bjfA 193 5.46e+01 1rec a.39.1.5 17331 1a3yA 149 5.55e+01 1obpA b.60.1.1 27110 1tlkA 154 5.68e+01 b.1.1.4 21707 1dzfA 215 5.69e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 2ev1A 222 5.71e+01 2pocA 367 5.78e+01 3cqyA 370 5.81e+01 1z4aA 164 5.85e+01 1dzkA 157 5.97e+01 1obpA b.60.1.1 27096 2dkvA 309 6.07e+01 2cx6A 90 6.20e+01 c.9.1.1 130981 1zw8A 64 6.29e+01 3c75A 132 6.41e+01 1y8oA 419 6.56e+01 a.29.5.1,d.122.1.4 144603,144604 3f3fC 570 6.58e+01 2jntA 108 6.59e+01 2vxqH 216 6.69e+01 2uw2A 332 6.74e+01 a.25.1.2 152205 2cztA 167 6.92e+01 3ikmB 427 7.07e+01 2iksA 293 7.12e+01 2g4cA 474 7.28e+01 c.51.1.1,d.104.1.1 134582,134583 1zinA 217 7.35e+01 c.37.1.1,g.41.2.1 31915,45178 1pu1A 94 7.36e+01 d.266.1.1 104307 1qd7I 89 7.41e+01 1rip i.1.1.3 45872 1iu1A 146 7.45e+01 b.1.10.2 71428 2h4tA 626 7.55e+01 1vlgA 176 7.57e+01 a.25.1.1 108816 2rdcA 153 7.77e+01 1eg0G 93 7.79e+01 1rip i.1.1.1 45813 1x3dA 118 7.82e+01 b.1.2.1 121661 3eweB 564 7.86e+01