# List of top-scoring protein chains for T0406.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 2qe9A 178 4.81e-19 2f22A 144 8.61e-13 a.213.1.2 132795 2qnlA 162 1.53e-11 2p1aA 154 5.75e-11 2ou6A 190 3.50e-10 2hkvA 149 5.51e-10 1rxqA 178 2.99e-04 a.213.1.1 105118 2yqyA 169 3.44e-04 1c28A 135 6.57e-01 1c28A b.22.1.1 23857 1c3hA 137 6.64e-01 b.22.1.1 90405 2rd9A 193 1.05e+00 3c4hA 357 1.47e+00 2qzjA 136 3.17e+00 2pbkA 228 3.82e+00 1fl1A 230 3.95e+00 1at3A b.57.1.1 27023 3c4zA 543 3.97e+00 1u3eM 174 4.37e+00 d.4.1.3,d.285.1.1 107640,107641 2vktA 289 4.45e+00 2p57A 144 4.45e+00 2izoA 346 4.52e+00 1j5sA 463 4.63e+00 c.1.9.8 71580 1ydoA 307 5.34e+00 2ew3A 68 5.48e+00 1xb7A 247 5.59e+00 a.123.1.1 109537 2oqmA 192 7.06e+00 1f0cA 305 7.41e+00 1c8oA e.1.1.1 42676 1b5eA 246 8.61e+00 1b5eA d.117.1.1 41056 1n2tA 386 1.05e+01 c.67.1.3 79858 1eluA 390 1.06e+01 1elqA c.67.1.3 34434 2p8eA 307 1.16e+01 1p68A 102 1.31e+01 k.8.1.1 94158 1ej6B 1275 1.35e+01 i.7.1.1 45968 2coiA 386 1.36e+01 1xbfA 140 1.45e+01 d.273.1.1 109538 2jbrA 422 1.54e+01 2qgiA 248 1.63e+01 2nxvA 249 1.66e+01 1ab2A 109 1.76e+01 d.93.1.1 40506 2pjlA 247 1.82e+01 1h8lA 380 1.93e+01 b.3.2.1,c.56.5.1 65737,65738 2ejqA 130 1.95e+01 2yw8A 82 2.00e+01 2yqmA 89 2.09e+01 1yxbA 98 2.13e+01 a.204.1.4 124175 2owlA 303 2.21e+01 2i7gA 376 2.26e+01 2nsmA 439 2.40e+01 2abjA 366 2.44e+01 1te4A 131 2.47e+01 a.118.1.16 106794 3bb9A 148 2.54e+01 1gmuA 143 2.68e+01 b.107.1.1,d.58.38.1 65335,65336 3bx3A 335 2.77e+01 1b43A 340 2.90e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1assA 159 3.00e+01 c.8.5.2 30818 1bhdA 118 3.00e+01 1bkrA a.40.1.1 17398 3byvA 377 3.01e+01 2jfpA 293 3.01e+01 1gmwD 143 3.01e+01 b.107.1.1,d.58.38.1 65353,65354 2hqrA 223 3.04e+01 2dr1A 386 3.10e+01 3bwtA 333 3.21e+01 3bx2A 335 3.23e+01 1rypI 222 3.26e+01 d.153.1.4 41877 1rfeA 162 3.27e+01 b.45.1.1 111796 1ad5A 438 3.29e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24505,40491,41681 1k2yX 463 3.36e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68063,68064,68065,68066 1qcfA 454 3.36e+01 1fmk b.34.2.1,d.93.1.1,d.144.1.7 24498,40490,41680 2fkfA 462 3.39e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 133653,133654,133655,133656 1p5dX 463 3.39e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 94138,94139,94140,94141 2h5aX 463 3.40e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 136141,136142,136143,136144 2gswA 182 3.50e+01 c.23.5.4 135595 3bdmH 232 3.50e+01 2ablA 163 3.52e+01 b.34.2.1,d.93.1.1 24481,40525 2fkmX 462 3.52e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 133660,133661,133662,133663 2o1rA 81 3.58e+01 2dbqA 334 3.64e+01 2fo0A 495 3.71e+01 b.34.2.1,d.93.1.1,d.144.1.7 133862,133863,133864 1oplA 537 3.76e+01 b.34.2.1,d.93.1.1,d.144.1.7 87235,87236,87237 2qi2A 347 3.77e+01 1mvfD 82 3.79e+01 b.129.1.1 85143 1opkA 495 3.82e+01 b.34.2.1,d.93.1.1,d.144.1.7 87232,87233,87234 1ub4C 85 3.90e+01 b.129.1.1 88401 1bwpA 233 3.91e+01 c.23.10.3 31342 1xtqA 177 4.06e+01 c.37.1.8 122297 1yocA 147 4.10e+01 d.38.1.5 123778 1bwrA 233 4.31e+01 c.23.10.3 31344 1wabA 232 4.34e+01 c.23.10.3 31341 1we5A 772 4.39e+01 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 120941,120942,120943,120944 2f2hA 773 4.39e+01 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 132818,132819,132820,132821 1xsjA 778 4.42e+01 b.150.1.1,b.30.5.11,b.71.1.4,c.1.8.13 115951,115952,115953,115954 1es9A 232 4.43e+01 1wab c.23.10.3 31340 1gmvA 143 4.62e+01 b.107.1.1,d.58.38.1 65343,65344 1i1qB 192 4.96e+01 1qdlB c.23.16.1 61544 2dldA 337 5.05e+01 1dxy c.2.1.4,c.23.12.1 30099,31359 1qhhD 169 5.06e+01 1pjr 2gshA 414 5.39e+01 3boxA 415 5.40e+01 1h9dA 134 5.45e+01 1cmoA b.2.5.6 60821 2iakA 224 5.46e+01 2hhfA 365 5.63e+01 e.17.1.1 136474 2nsaA 170 5.70e+01 2hdkA 365 5.77e+01 2c0hA 353 5.81e+01 c.1.8.3 129594 2hgxA 365 5.81e+01 2iboA 104 5.90e+01 d.58.48.1 137197 2hgwA 365 5.92e+01 2qagB 427 6.00e+01 2q22A 139 6.00e+01 2a1hA 365 6.15e+01 e.17.1.1 125997 2is8A 164 6.20e+01 1gdhA 320 6.21e+01 1gdhA c.2.1.4,c.23.12.1 30095,31355 1bwqA 233 6.22e+01 c.23.10.3 31343 1m39A 89 6.37e+01 a.39.1.5 84782 2pq0A 258 6.43e+01 1m4yA 171 6.52e+01 d.153.1.4 84802 1ljmA 131 6.57e+01 b.2.5.6 78051 1qh5A 260 6.70e+01 1qh5A d.157.1.2 42057 2c53A 244 6.85e+01 2obhA 143 6.95e+01 1psuA 140 7.02e+01 d.38.1.5 88285 1wcuA 153 7.05e+01 1z8dA 842 7.07e+01 1nni1 174 7.17e+01 2j6aA 141 7.35e+01 1r75A 141 7.50e+01 b.134.1.1 97189 1piwA 360 7.71e+01 b.35.1.2,c.2.1.1 104156,104157 2jt1A 77 7.74e+01 1js3A 486 7.88e+01 c.67.1.6 67215