# List of top-scoring protein chains for 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 2.33e-33 a.132.1.4 97299 2qzcA 214 6.43e-25 3mvuA 226 2.30e-22 2gm8A 221 2.15e-19 a.132.1.3 135368 3ibxA 221 7.12e-19 2rd3A 223 7.44e-19 1uddA 226 1.61e-17 a.132.1.3 107776 1yakA 263 1.50e-16 a.132.1.3 122833 1to9A 260 1.50e-16 a.132.1.3 107172 1tyhA 248 1.66e-16 a.132.1.3 107458 2qcxA 263 3.04e-16 1rtwA 220 9.53e-16 a.132.1.3 97823 2q4xA 221 8.50e-10 a.132.1.3 139880 2f2gA 221 8.50e-10 a.132.1.3 132816 1z72A 225 2.05e-09 a.132.1.3 124583 2a6bA 234 2.11e-09 a.132.1.3 126235 3ddeA 239 1.26e-08 3hmlA 258 1.11e-04 3hlxA 258 3.44e-04 3hnhA 258 3.65e-04 1otwA 255 4.79e-04 a.132.1.4 93528 1otvA 259 4.82e-04 a.132.1.4 93526 1wwmA 190 3.28e-02 a.132.1.3 121363 1j30A 144 1.06e-01 a.25.1.1 90806 2aniA 346 4.38e-01 2a2mA 258 4.89e-01 a.132.1.3 126039 1syyA 346 9.73e-01 a.25.1.2 106126 1sq9A 397 1.03e+00 b.69.4.1 105889 1s4uX 407 1.05e+00 b.69.4.1 112027 3f2vA 192 1.65e+00 2ja9A 175 1.82e+00 b.40.4.5 147950 d.51.1.1 147951 3ebrA 159 1.99e+00 3ag3E 109 2.25e+00 1v54E 109 2.25e+00 a.118.11.1 100326 2occE 109 2.25e+00 2occE a.118.11.1 19224 3hy0A 441 2.53e+00 3hxwA 441 2.64e+00 2glfA 450 2.72e+00 1yadA 221 2.79e+00 2plyA 258 2.99e+00 a.4.5.35 149651 a.4.5.35 149652 a.4.5.35 149653 a.4.5.35 149654 3iam3 783 3.30e+00 2v3cC 432 3.36e+00 3lyfA 245 3.53e+00 1zl9A 207 3.92e+00 3dc6A 198 4.59e+00 2wtbA 725 4.65e+00 3ha2A 177 5.37e+00 2qaiA 111 5.40e+00 2ou3A 161 5.53e+00 a.287.1.1 149018 1xn9A 101 5.80e+00 d.12.1.3 115578 3hn6A 289 6.23e+00 3dtnA 234 6.42e+00 1knqA 175 7.40e+00 c.37.1.17 72786 3llkA 261 7.67e+00 2dq6A 870 7.71e+00 1pi7A 36 7.72e+00 j.35.1.1 94704 3b34A 891 7.72e+00 2gofA 35 8.40e+00 1vqoW 154 9.06e+00 d.59.1.1 120384 1ffkT 154 9.06e+00 1ffkT d.59.1.1 39527 2ptzA 432 9.17e+00 c.1.11.1 149844 d.54.1.1 149845 1oepA 432 9.63e+00 c.1.11.1 86918 d.54.1.1 86919 3kjrA 511 9.72e+00 3i3rA 511 9.72e+00 3adnA 294 9.78e+00 2izoA 346 1.01e+01 2g3vA 208 1.02e+01 2v0eA 55 1.03e+01 d.76.2.1 152363 1tqhA 247 1.05e+01 c.69.1.29 107225 2ckcA 80 1.09e+01 d.76.2.1 146408 1g8iA 190 1.12e+01 1rec a.39.1.5 60363 2ihcA 124 1.15e+01 1r1dA 247 1.17e+01 c.69.1.29 96813 3cirA 602 1.22e+01 a.7.3.1 156679 c.3.1.4 156680 d.168.1.1 156681 1s3qA 173 1.25e+01 a.25.1.1 118848 3n2oA 648 1.27e+01 3fp3A 537 1.29e+01 3mmzA 176 1.29e+01 1tizA 67 1.35e+01 a.39.1.5 107014 2avxA 171 1.36e+01 3fusA 316 1.48e+01 1vpqA 273 1.52e+01 c.1.32.1 113974 1ixdA 104 1.57e+01 b.34.10.1 76907 1ef7A 242 1.60e+01 1theB d.3.1.1 37087 1ayrA 368 1.61e+01 1cf1A b.1.18.11 21915 b.1.18.11 21916 2d5rA 252 1.69e+01 c.55.3.9 146466 1zq7A 207 1.69e+01 d.309.1.1 125501 1lvaA 258 1.71e+01 a.4.5.35 74276 a.4.5.35 74277 a.4.5.35 74278 a.4.5.35 74279 2dafA 118 1.73e+01 2jpxA 35 1.77e+01 2hi0A 240 1.78e+01 1oefA 24 1.82e+01 j.39.1.1 46299 1cf1A 404 1.84e+01 1cf1A b.1.18.11 21907 b.1.18.11 21908 2f7wA 177 1.86e+01 c.57.1.1 133106 3bjdA 332 1.86e+01 3k6aA 180 1.90e+01 2ekjA 105 1.96e+01 1deuA 277 2.00e+01 1theB d.3.1.1 37085 1dinA 237 2.03e+01 c.69.1.9 34682 1h8pA 109 2.03e+01 g.14.1.2 70916 g.14.1.2 70917 1bjfA 193 2.04e+01 1rec a.39.1.5 17331 1a3yA 149 2.07e+01 1obpA b.60.1.1 27110 1tlkA 154 2.12e+01 b.1.1.4 21707 1dzfA 215 2.13e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 2ev1A 222 2.13e+01 2pocA 367 2.16e+01 3cqyA 370 2.17e+01 1z4aA 164 2.18e+01 1dzkA 157 2.23e+01 1obpA b.60.1.1 27096 2dkvA 309 2.27e+01 2cx6A 90 2.32e+01 c.9.1.1 130981 1zw8A 64 2.35e+01 3c75A 132 2.40e+01 1y8oA 419 2.45e+01 a.29.5.1 144603 d.122.1.4 144604 3f3fC 570 2.46e+01 2jntA 108 2.46e+01 2vxqH 216 2.50e+01 2uw2A 332 2.52e+01 a.25.1.2 152205 2cztA 167 2.59e+01 3ikmB 427 2.64e+01 2iksA 293 2.66e+01 2g4cA 474 2.72e+01 c.51.1.1 134582 d.104.1.1 134583 1zinA 217 2.75e+01 c.37.1.1 31915 g.41.2.1 45178 1pu1A 94 2.76e+01 d.266.1.1 104307 1qd7I 89 2.77e+01 1rip i.1.1.3 45872 1iu1A 146 2.79e+01 b.1.10.2 71428 2h4tA 626 2.82e+01 1vlgA 176 2.83e+01 a.25.1.1 108816 2rdcA 153 2.91e+01 1eg0G 93 2.92e+01 1rip i.1.1.1 45813 1x3dA 118 2.93e+01 b.1.2.1 121661 3eweB 564 2.94e+01 1xk1A 233 3.03e+01 a.132.1.1 122053 2g7hA 167 3.11e+01 2debA 653 3.16e+01 2o1zA 311 3.20e+01 1ykkB 238 3.21e+01 b.3.6.1 144654 3i9tA 263 3.22e+01 1j02A 267 3.23e+01 a.132.1.1 90732 2b76A 602 3.23e+01 a.7.3.1 128009 c.3.1.4 128010 d.168.1.1 128011 2yubA 118 3.27e+01 1kf6A 602 3.28e+01 a.7.3.1 72394 c.3.1.4 72395 d.168.1.1 72396 2i6xA 211 3.31e+01 1gesA 450 3.37e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 3cedA 98 3.43e+01 d.58.18.13 156521 2fm8A 135 3.46e+01 d.198.1.1 133767 1ykpB 238 3.49e+01 b.3.6.1 144684 2hf0A 316 3.52e+01 2p51A 333 3.57e+01 2gx8A 397 3.57e+01 c.135.1.1 135825 1yknB 238 3.58e+01 b.3.6.1 144672 1izmA 184 3.61e+01 a.199.1.1 90725 1xk3A 233 3.62e+01 a.132.1.1 115400 2vxiA 158 3.68e+01 1bcfA 158 3.68e+01 1bcfA a.25.1.1 16648 2q32A 264 3.80e+01 3e2cA 158 3.81e+01 1ohcA 348 3.83e+01 c.45.1.1 87009 c.45.1.1 87010 3llwA 311 3.83e+01 1w2yA 229 3.86e+01 a.204.1.1 109140 3fcdA 134 3.88e+01 3e1qA 158 3.88e+01 2hetA 189 3.89e+01 a.39.1.5 136356 1b43A 340 3.92e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 3pcgM 238 3.95e+01 3pchM b.3.6.1 22742 3mr1A 252 3.98e+01