# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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.cse.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 1top 162 7.18e-03 1ncx a.39.1.5 17223 1ncx 162 1.31e-02 1ncx a.39.1.5 17222 1s29A 92 2.13e-01 unknown_sccs -315 1gd0A 122 5.86e-01 1dptA d.80.1.3 39834 1ggzA 148 6.43e-01 a.39.1.5 70176 1dmaA 214 7.33e-01 1aerA d.166.1.1 42251 1aerA 205 9.01e-01 1aerA d.166.1.1 42249 1kl9A 182 9.63e-01 b.40.4.5 72681 1mfiA 114 1.04e+00 1dptA d.80.1.3 39856 1nf2A 268 1.41e+00 c.108.1.10 -6842 3cln 148 1.54e+00 1cll a.39.1.5 17286 1nmeA 146 1.59e+00 c.17.1.1 85874 1iqpA 327 1.81e+00 a.80.1.1 62649 c.37.1.20 62650 3ladA 476 1.95e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1cp3A 277 2.43e+00 1pauA c.17.1.1 30992 1kgdA 180 2.45e+00 c.37.1.1 68582 1sedA 117 2.64e+00 1g4yR 148 3.01e+00 1cll a.39.1.5 60252 1s96A 219 3.02e+00 c.37.1.1 -6972 1i8dA 213 3.32e+00 b.43.4.3 61953 b.43.4.3 61954 1on2A 142 3.41e+00 a.4.5.24 87103 a.76.1.1 87104 1cll 148 3.95e+00 1cll a.39.1.5 17263 1lf6A 684 4.41e+00 a.102.1.5 77918 b.30.5.5 77919 1ig5A 75 4.57e+00 4icb a.39.1.1 62363 1a26 361 5.03e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1geqA 248 5.30e+00 2tysA c.1.2.4 28589 1pauA 147 5.44e+00 1pauA c.17.1.1 30994 3icb 75 5.47e+00 4icb a.39.1.1 17147 1osa 148 5.62e+00 1cll a.39.1.5 17300 1k4iA 233 5.93e+00 d.115.1.2 72056 1s3jA 155 6.11e+00 a.4.5.28 -227 1n25A 368 6.70e+00 c.37.1.20 85264 1avsA 90 6.90e+00 1cll a.39.1.5 17226 1a98A 152 6.99e+00 1nulA c.61.1.1 34021 1eq9A 222 7.30e+00 5ptp b.47.1.2 26068 1efyA 350 7.52e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 4icb 76 7.56e+00 4icb a.39.1.1 17145 1e8aA 91 7.58e+00 1b4cA a.39.1.2 17188 2hnp 321 7.93e+00 1pty c.45.1.2 32678 1nt4A 391 8.18e+00 c.60.1.2 -7942 1nuuA 252 8.23e+00 c.26.1.3 86209 1upiA 225 8.30e+00 b.82.1.1 -4823 1exrA 148 8.50e+00 1cll a.39.1.5 17299 1uzpA 162 8.64e+00 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 4gr1 478 8.99e+00 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1a4yA 460 9.20e+00 1a4yA c.10.1.1 30852 1fybA 111 9.50e+00 4sgbI unknown_sccs 44726 unknown_sccs 44727 1qjtA 99 9.59e+00 1eh2 a.39.1.6 17335 1zac 90 1.04e+01 1ncx a.39.1.5 17236 1kn1A 160 1.06e+01 a.1.1.3 77455 3grs 478 1.07e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1mu5A 471 1.10e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 5pal 109 1.20e+01 1a75A a.39.1.4 17215 1auiB 169 1.23e+01 1auiB a.39.1.5 17325 1bo4A 168 1.24e+01 1bo4A d.108.1.1 40798 1fzqA 181 1.31e+01 1hurA c.37.1.8 32060 5ptp 223 1.31e+01 5ptp b.47.1.2 25831 1bo4B 168 1.44e+01 1bo4A d.108.1.1 40799 1b31A 302 1.56e+01 1taxA c.1.8.3 28892 1bawA 105 1.63e+01 1plc b.6.1.1 22868 1ltqA 301 1.66e+01 c.108.1.9 78208 c.37.1.1 78209 1f7cA 231 1.68e+01 1f7cA a.116.1.1 19107 1rvkA 382 1.69e+01 c.1.11.2 -5568 d.54.1.1 -9826 1pvaA 110 1.70e+01 1a75A a.39.1.4 17207 1vjpA 394 1.74e+01 c.2.1.3 -5897 d.81.1.3 -10480 1bg4 302 1.76e+01 1taxA c.1.8.3 28806 1ap7 168 1.79e+01 1bd8 d.211.1.1 19170 1gesA 450 1.79e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1jksA 294 1.91e+01 d.144.1.7 71710 1dqeA 137 1.98e+01 1dqeA a.39.2.1 17388 1allA 160 2.00e+01 1qgwC a.1.1.3 15647 1hj9A 226 2.02e+01 b.47.1.2 65845 1nhkL 144 2.05e+01 1npk d.58.6.1 39142 1f47B 144 2.09e+01 1f46A d.129.4.1 59645 1hp5A 512 2.13e+01 1hp4A c.1.8.6 61113 d.92.2.1 61114 1f46A 140 2.14e+01 1f46A d.129.4.1 59643 1i60A 278 2.16e+01 c.1.15.4 71118 1dy2A 180 2.18e+01 1koe d.169.1.5 42451 1k94A 165 2.20e+01 a.39.1.8 68333 1rwyA 109 2.22e+01 a.39.1.4 -825 1j55A 95 2.25e+01 a.39.1.2 77078 1kqfA 1015 2.25e+01 b.52.2.2 72871 c.81.1.1 72872 1wdcC 156 2.26e+01 1wdcC a.39.1.5 17317 1f4qA 165 2.30e+01 1alvA a.39.1.8 17360 1bgp 309 2.36e+01 1bgp a.93.1.1 18690 1n67A 359 2.39e+01 b.2.3.4 85354 b.2.3.4 85355 1ju5A 109 2.43e+01 d.93.1.1 77173 1qx2A 76 2.44e+01 1ecxA 384 2.51e+01 1ecxA c.67.1.3 34431 1veaA 148 2.53e+01 1ik9A 213 2.55e+01 b.59.1.1 66176 h.1.11.1 66177 1jakA 512 2.55e+01 c.1.8.6 66472 d.92.2.1 66473 2shpA 525 2.64e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1ct5A 256 2.65e+01 1ct5A c.1.6.2 28663 1howA 373 2.65e+01 1hcl d.144.1.7 41679 1ev7A 317 2.67e+01 1ev7B c.52.1.9 33315 2liv 344 2.68e+01 2liv c.93.1.1 35708 1g8mA 593 2.69e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1k0sA 151 2.74e+01 b.40.7.1 67969 1vk8A 106 2.76e+01 1j0mA 752 2.78e+01 a.102.3.2 83910 b.24.1.1 83911 b.30.5.2 83912 1f0lA 535 2.84e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1rfzA 168 2.87e+01 unknown_sccs -1206 1ctaA 36 2.90e+01 1ctdA a.39.1.5 17232 1uesA 191 2.91e+01 1pixA 587 2.94e+01 c.14.1.4 -6282 1jsqA 582 3.02e+01 i.13.1.1 63270 1copD 66 3.03e+01 1orc a.35.1.2 17058 1ecfA 504 3.08e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1m9nA 613 3.09e+01 c.24.1.3 78870 c.97.2.1 78871 2sas 185 3.16e+01 2sas a.39.1.5 17258 1ev7B 317 3.17e+01 1ev7B c.52.1.9 33316 1to6A 371 3.21e+01 1ecfB 504 3.22e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1mfqC 129 3.24e+01 a.36.1.1 79046 1gx3A 284 3.27e+01 d.3.1.5 70678 1gky 187 3.33e+01 1gky c.37.1.1 31839 1hp4A 512 3.46e+01 1hp4A c.1.8.6 61111 d.92.2.1 61112 1j6pA 418 3.55e+01 b.92.1.4 77089 c.1.9.9 77090 1c5a 73 3.64e+01 1kjs a.50.1.1 17794 1rxxA 421 3.65e+01 unknown_sccs -10982 1qgoA 264 3.70e+01 1qgoA c.92.1.2 35596 1eg5A 384 3.73e+01 1ecxA c.67.1.3 34429 1g57A 217 3.79e+01 1g57A d.115.1.2 60253 1awcB 153 3.83e+01 1bd8 d.211.1.1 19156 1jhfA 202 3.84e+01 a.4.5.2 63057 b.87.1.1 63058 4pep 326 3.84e+01 1smrA b.50.1.2 26843 1r6lA 239 3.87e+01 d.14.1.4 -9057 d.101.1.1 -10747 1gdhA 320 3.98e+01 1gdhA c.2.1.4 30095 c.23.12.1 31355 1i1nA 226 4.00e+01 c.66.1.7 71102