# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1pj5A 830 4.22e-42 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1nrkA 328 1.78e-23 unknown_sccs -4071 unknown_sccs -10176 1a7tA 232 7.41e-01 1a7tA d.157.1.1 42041 1g7tA 594 1.04e+00 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1bxsA 501 1.10e+00 1bpwA c.82.1.1 35357 1g7rA 594 1.16e+00 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1jcfA 344 1.36e+00 c.55.1.1 62878 c.55.1.1 62879 1jceA 344 1.37e+00 c.55.1.1 62876 c.55.1.1 62877 1g7sA 594 1.94e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1m98A 317 2.06e+00 a.175.1.1 78866 d.17.4.6 78867 1ecxA 384 2.31e+00 1ecxA c.67.1.3 34431 1eysH 259 2.45e+00 6prcH b.41.1.1 25484 f.23.10.1 43517 1jjeA 222 3.22e+00 1a7tA d.157.1.1 63117 1r3eA 309 3.26e+00 b.122.1.1 -5118 unknown_sccs -10146 1hrhA 136 3.27e+00 1rthA c.55.3.1 33577 1eg5A 384 3.52e+00 1ecxA c.67.1.3 34429 1dgsA 667 4.18e+00 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1efcA 393 4.55e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1ev7A 317 4.85e+00 1ev7B c.52.1.9 33315 1j7nB 776 4.85e+00 d.92.1.14 66412 d.92.1.14 66413 d.166.1.1 66414 1ho1A 242 5.06e+00 1ho1A c.1.24.1 61097 1d2eA 397 5.47e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1tdj 514 6.81e+00 1tdj c.79.1.1 35297 d.58.18.2 39356 d.58.18.2 39357 1j7nA 776 6.92e+00 d.92.1.14 66409 d.92.1.14 66410 d.166.1.1 66411 1tuhA 156 7.65e+00 1jjtA 228 7.83e+00 1a7tA d.157.1.1 63139 1dd6A 228 8.11e+00 1a7tA d.157.1.1 42054 1rz1A 161 8.86e+00 b.45.1.2 -4088 1ko3A 230 8.90e+00 d.157.1.1 -11454 1nbwA 607 9.01e+00 c.8.6.1 80393 c.55.1.6 80394 c.55.1.6 80395 1ea2A 131 9.19e+00 d.17.4.3 64860 1g5aA 628 9.87e+00 b.71.1.1 65152 c.1.8.1 65153 1opy 131 9.98e+00 1opy d.17.4.3 38113 1eypA 222 1.02e+01 1eypA d.36.1.1 38536 1rfmA 344 1.06e+01 c.122.1.1 -8032 1inlA 296 1.10e+01 c.66.1.17 66220 1eucA 311 1.14e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1dun 134 1.21e+01 1dun b.85.4.1 28371 1jw3A 140 1.21e+01 d.208.1.1 67373 1g61A 228 1.22e+01 1g61A d.126.1.1 41126 1giqA 413 1.22e+01 d.166.1.1 76224 d.166.1.1 76225 2phh 394 1.23e+01 1pbe c.3.1.2 30353 d.16.1.2 37884 1obbA 480 1.23e+01 c.2.1.5 86760 d.162.1.2 86761 1jepA 222 1.24e+01 d.36.1.1 66612 1io1A 398 1.26e+01 1io1A e.32.1.1 62611 1v04A 355 1.27e+01 unknown_sccs -4592 1mat 264 1.29e+01 1c24A d.127.1.1 41152 1ivyA 452 1.29e+01 1ivyA c.69.1.5 34654 1tux 301 1.37e+01 1taxA c.1.8.3 28907 1dmmA 131 1.37e+01 1opy d.17.4.3 38114 1eudA 311 1.38e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1eyqA 222 1.41e+01 1eypA d.36.1.1 38534 2fcr 173 1.42e+01 1rcf c.23.5.1 31151 2matA 264 1.43e+01 1c24A d.127.1.1 41146 1uw4A 91 1.59e+01 unknown_sccs -10038 1m2xA 223 1.60e+01 d.157.1.1 84764 1h6oA 204 1.67e+01 a.146.1.1 60689 1vjeA 166 1.68e+01 d.185.1.2 -10261 1l8aA 886 1.71e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1innA 166 1.71e+01 1j98A d.185.1.2 62608 4matA 278 1.71e+01 1c24A d.127.1.1 41150 1qniA 581 1.72e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1iy8A 267 1.77e+01 c.2.1.2 83774 1smrA 335 1.77e+01 1smrA b.50.1.2 26878 1scuA 288 1.78e+01 2scuA c.2.1.8 30307 c.23.4.1 31135 1c24A 263 1.91e+01 1c24A d.127.1.1 41148 1j6wA 175 1.92e+01 1j98A d.185.1.2 62663 1nhs 447 1.94e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1bgj 394 1.95e+01 1pbe c.3.1.2 30352 d.16.1.2 37883 1aop 497 1.96e+01 2aop d.58.36.1 39501 d.58.36.1 39502 d.134.1.1 41425 d.134.1.1 41426 1fthA 122 1.98e+01 d.150.1.2 60028 1dxrH 258 1.98e+01 6prcH b.41.1.1 25456 f.23.10.1 43433 6prcH 258 1.98e+01 6prcH b.41.1.1 25457 f.23.10.1 43436 1pbe 394 1.99e+01 1pbe c.3.1.2 30338 d.16.1.2 37869 1kv8A 216 2.00e+01 c.1.2.3 73054 1q6oA 216 2.00e+01 c.1.2.3 -5162 1ky3A 182 2.08e+01 c.37.1.8 73193 1jl3A 139 2.09e+01 c.44.1.1 66826 1gpwB 201 2.09e+01 c.23.16.1 65461 1rlw 126 2.10e+01 1rlw b.7.1.1 23177 1m5wA 243 2.13e+01 c.1.24.1 84836 1ev7B 317 2.18e+01 1ev7B c.52.1.9 33316 1o5zA 442 2.24e+01 c.59.1.2 -7939 c.72.2.2 -8418 1fvuA 133 2.25e+01 1ixxB d.169.1.1 42345 1itwA 741 2.26e+01 c.77.1.2 76793 1c4zA 358 2.26e+01 1c4zA d.148.1.1 41766 1p3jA 217 2.29e+01 c.37.1.1 -6996 g.41.2.1 -12769 1iwmA 186 2.29e+01 b.125.1.2 83758 1ispA 181 2.33e+01 c.69.1.18 76778 1dkgD 383 2.35e+01 1ba1 c.55.1.1 33427 c.55.1.1 33428 1qh8B 519 2.37e+01 1qguB c.92.2.3 35634 1bq3B 246 2.43e+01 1qhfA c.60.1.1 33979 1id0A 152 2.46e+01 d.122.1.3 66111 2napA 723 2.48e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1mpgA 282 2.56e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1pz1A 333 2.58e+01 c.1.7.1 -5255 1i6wA 181 2.59e+01 1i6wA c.69.1.18 61859 1pbtA 244 2.59e+01 unknown_sccs -6866 2scuA 288 2.62e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1b5fA 239 2.65e+01 1smrA b.50.1.2 26836 1ul7A 102 2.65e+01 unknown_sccs -11020 1iq4A 179 2.68e+01 1iq4A d.77.1.1 62641 1m2vB 926 2.69e+01 a.71.2.1 78497 b.2.8.1 78498 c.62.1.2 78499 d.109.2.1 78500 g.41.10.1 78501 1devC 196 2.72e+01 1ygs b.26.1.1 23915 1nhp 447 2.73e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1k68A 140 2.78e+01 c.23.1.1 -6403 1jnyA 435 2.80e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ky9A 448 2.84e+01 b.36.1.4 73198 b.47.1.1 73199 1mp9A 198 2.87e+01 a.74.1.2 -1127 a.74.1.2 -1128 1k0iA 394 2.88e+01 c.3.1.2 67942 d.16.1.2 67943 1ru8A 232 2.89e+01 c.26.2.1 -6635 1iso 416 2.93e+01 1iso c.77.1.1 35065 1fzqA 181 3.06e+01 1hurA c.37.1.8 32060 1gokA 303 3.10e+01 c.1.8.3 65420 1k6aA 303 3.14e+01 c.1.8.3 72081 1chmA 401 3.17e+01 1chmA c.55.2.1 33545 d.127.1.1 41142 1fxmA 302 3.19e+01 1taxA 1qhfA 240 3.31e+01 1qhfA c.60.1.1 33960 1jeoA 180 3.34e+01 c.80.1.3 66611 1bob 320 3.34e+01 1bob d.108.1.1 40816 1inp 400 3.35e+01 1inp e.7.1.1 42972 1qhdA 398 3.36e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 2fx2 147 3.39e+01 1rcf c.23.5.1 31158 1k8kE 178 3.41e+01 a.148.1.1 68311 1ybvA 283 3.42e+01 1ybvA c.2.1.2 29948 1gcoA 261 3.47e+01 1ybvA c.2.1.2 29884 1geeA 261 3.47e+01 c.2.1.2 -5814 1eagA 342 3.48e+01 1eagA b.50.1.2 26826 1cj3A 392 3.49e+01 1pbe c.3.1.2 30347 d.16.1.2 37878 1agdA 276 3.49e+01 1agdA b.1.1.2 20741 d.19.1.1 38260 1joa 447 3.50e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1qguB 519 3.50e+01 1qguB c.92.2.3 35626 1havA 217 3.51e+01 1havA b.47.1.4 26423 1dbqA 289 3.61e+01 1qpzA c.93.1.1 35666 1k9vF 201 3.63e+01 c.23.16.1 68365 1pdo 135 3.74e+01 1pdo c.54.1.1 33376 1i1wA 303 3.74e+01 c.1.8.3 76732 1xgsA 295 3.81e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1k07A 263 3.81e+01 d.157.1.1 77218 1hv8A 367 3.88e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1cnuA 137 3.89e+01 1cof d.109.1.2 40862 1hr6A 475 3.94e+01 1hr6A d.185.1.1 61164 d.185.1.1 61165