# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1souA 194 5.90e-33 1ehiA 377 4.22e-02 1iow c.30.1.2 31716 d.142.1.1 41484 1w2wB 191 4.80e-01 1oxxK 353 7.12e-01 b.40.6.3 -3969 c.37.1.12 -7187 1omzA 293 7.41e-01 c.68.1.15 87093 1f8yA 157 8.72e-01 1f8xA c.23.14.1 31395 1oxsC 353 9.11e-01 b.40.6.3 87519 c.37.1.12 87520 1f8xA 157 1.27e+00 1f8xA c.23.14.1 31397 1poiA 317 1.88e+00 1poiA unknown_sccs 34153 1b0uA 262 2.18e+00 1b0uA c.37.1.12 32370 1l2tA 235 2.32e+00 c.37.1.12 73514 1qunB 279 2.37e+00 b.2.3.2 22411 b.2.3.2 22412 1pinA 163 2.37e+00 1pinA b.72.1.1 27802 d.26.1.1 38431 1korA 400 2.44e+00 c.26.2.1 72824 d.210.1.1 72825 1k2yX 463 2.70e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1p5dX 463 2.93e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1oaa 259 3.00e+00 1oaa c.2.1.2 29829 1f5mA 180 3.09e+00 1f5mB d.110.2.1 40895 1f5mB 180 3.21e+00 1f5mB d.110.2.1 40896 2lbp 346 3.56e+00 2liv c.93.1.1 35709 1f8aB 167 3.59e+00 1pinA b.72.1.1 27803 d.26.1.1 38432 1vhzA 198 3.74e+00 d.113.1.1 -10897 1jeyB 565 3.79e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1usgA 346 4.10e+00 c.93.1.1 -8635 1p3wA 404 4.13e+00 c.67.1.3 87752 1to6A 371 4.37e+00 1sep 261 4.79e+00 1oaa c.2.1.2 29830 1v84A 253 5.03e+00 1klfB 279 5.40e+00 b.2.3.2 72684 b.2.3.2 72685 1sg1X 161 5.60e+00 1ecfA 504 5.73e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1hr6A 475 5.98e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1ecfB 504 6.04e+00 1ecfB c.61.1.1 34054 d.153.1.1 41821 1kiuB 279 6.16e+00 b.2.3.2 72525 b.2.3.2 72526 1hyhA 309 6.47e+00 1hyhA c.2.1.5 30150 d.162.1.1 42117 1g2iA 166 6.56e+00 1g2iA c.23.16.2 31438 1eg5A 384 6.61e+00 1ecxA c.67.1.3 34429 1iukA 140 7.02e+00 c.2.1.8 83712 1vi6A 208 7.22e+00 c.23.15.1 -6489 1bllE 488 7.58e+00 1lam c.56.5.3 33833 c.50.1.1 33170 1dqwA 267 7.71e+00 1dqwA c.1.2.3 28551 1tplA 426 8.14e+00 1ax4A c.67.1.2 34387 1fmcA 255 8.18e+00 1cydA c.2.1.2 29856 1ecxA 384 8.33e+00 1ecxA c.67.1.3 34431 1ixkA 315 8.38e+00 unknown_sccs -8099 1f6bA 198 8.75e+00 c.37.1.8 64986 1rtwA 220 8.84e+00 unknown_sccs -1904 1pvc3 238 8.91e+00 1aym3 1k8kC 372 9.18e+00 b.69.4.1 68308 1v9fA 325 9.55e+00 1o75A 415 1.05e+01 b.1.20.1 81117 b.1.20.1 81118 b.120.1.1 81119 1lam 484 1.10e+01 1lam c.56.5.3 33829 c.50.1.1 33166 1fzaB 328 1.18e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1jeqB 565 1.23e+01 1jeqB unknown_sccs -4432 unknown_sccs -7996 1uuhA 159 1.23e+01 d.169.1.4 -11651 2rmcA 182 1.26e+01 2cpl b.62.1.1 27491 1mixA 206 1.27e+01 a.11.2.1 79166 b.55.1.5 79167 1hgxA 183 1.27e+01 1tc1A c.61.1.1 34027 1jr7A 311 1.37e+01 b.82.2.3 63255 1geeA 261 1.38e+01 c.2.1.2 -5814 1c5kA 439 1.41e+01 1crzA b.68.4.1 27630 c.51.2.1 33212 1lap 488 1.43e+01 1lam c.56.5.3 33834 c.50.1.1 33171 1kk1A 410 1.43e+01 b.43.3.1 72634 b.44.1.1 72635 c.37.1.8 72636 1jqaA 370 1.44e+01 e.22.1.2 67085 1gcoA 261 1.45e+01 1ybvA c.2.1.2 29884 1edoA 244 1.46e+01 1ybvA c.2.1.2 29896 1gt6A 269 1.48e+01 c.69.1.17 76342 1j4aA 333 1.50e+01 c.2.1.4 71502 c.23.12.1 71503 1tib 269 1.59e+01 3tgl c.69.1.17 34738 1ak1 310 1.65e+01 1ak1 c.92.1.1 35594 1kcfA 258 1.67e+01 a.140.2.1 68434 c.55.3.7 68435 1delA 241 1.70e+01 1dekA c.37.1.1 31844 1nx8A 273 1.78e+01 b.82.2.8 86374 1fxjA 331 1.80e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1jq5A 370 1.82e+01 e.22.1.2 67084 1qba 858 1.83e+01 1qba b.1.18.2 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 1dekA 241 1.83e+01 1dekA c.37.1.1 31842 1dy2A 180 1.84e+01 1koe d.169.1.5 42451 1b6sA 355 1.88e+01 1b6rA b.84.2.1 28242 c.30.1.1 31649 d.142.1.2 41494 1ijbA 202 1.91e+01 c.62.1.1 71229 1dtyA 429 1.97e+01 1dtyA c.67.1.4 34495 1dozA 309 1.98e+01 1ak1 c.92.1.1 35592 1nulA 152 2.00e+01 1nulA c.61.1.1 34011 1s2dA 167 2.05e+01 c.23.14.1 -6469 1q7zA 566 2.08e+01 c.1.21.2 -5638 c.1.26.1 -5666 1ejxC 567 2.09e+01 b.92.1.1 83184 c.1.9.2 83185 1fwyA 331 2.10e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 1ja9A 274 2.12e+01 c.2.1.2 62817 1ksiB 642 2.20e+01 1ksiB b.30.2.1 24409 d.17.2.1 38045 d.17.2.1 38046 1fggA 261 2.22e+01 1fggA c.68.1.7 34576 1kwsA 261 2.22e+01 c.68.1.7 73083 1htqA 477 2.25e+01 d.15.9.1 71035 d.128.1.1 71036 1vhtA 218 2.26e+01 c.37.1.1 -7004 1m32A 366 2.30e+01 c.67.1.3 78508 1ksiA 642 2.35e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1bbt3 220 2.38e+01 1qqp3 1rtqA 299 2.40e+01 c.56.5.4 -7864 1ncg 110 2.46e+01 1edhA b.1.6.1 22193 1h7xA 1025 2.48e+01 1h7wA a.1.2.2 15687 c.1.4.1 28632 c.3.1.1 30328 c.4.1.1 30613 d.58.1.5 39011 1egzA 291 2.62e+01 7a3hA c.1.8.3 28828 1amp 291 2.63e+01 1amp c.56.5.4 33837 1lokA 291 2.63e+01 c.56.5.4 78122 1ejrC 567 2.64e+01 1ubpC b.92.1.1 28420 c.1.9.2 29042 1fwcC 567 2.67e+01 1ubpC b.92.1.1 28410 c.1.9.2 29032 1tc1A 220 2.67e+01 1tc1A c.61.1.1 34083 1dzlA 505 2.67e+01 1dzlA b.121.6.1 23586 1np6A 174 2.75e+01 c.37.1.10 85954 1eziA 228 2.84e+01 1eyrA c.68.1.13 34512 1qqp3 220 2.85e+01 1qqp3 1seiA 130 2.87e+01 1seiA d.140.1.1 41463 1cfr 285 2.94e+01 1cfr c.52.1.7 33312 1td5A 202 2.95e+01 1b64 91 2.95e+01 1b64 d.58.12.1 39306 1i6uA 130 2.99e+01 d.140.1.1 61850 1jkgA 140 3.00e+01 d.17.4.2 66795 1jpnA 296 3.00e+01 a.24.13.1 67039 c.37.1.10 67040 1spgB 147 3.01e+01 1cg5B a.1.1.2 15588 1r13A 148 3.04e+01 d.169.1.1 -11646 h.1.1.1 -12895 1v4xB 146 3.06e+01 1eyrA 228 3.07e+01 1eyrA c.68.1.13 34514 1b9hA 388 3.09e+01 1b9hA c.67.1.4 34488 1ca1 370 3.09e+01 1ca1 a.124.1.1 19340 b.12.1.3 23648 1ast 200 3.12e+01 1iae d.92.1.8 40310 1iab 200 3.12e+01 1iae d.92.1.8 40312 1qj5A 429 3.17e+01 1dtyA c.67.1.4 34493 1gthB 1025 3.22e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1s0aA 429 3.26e+01 c.67.1.4 -8201 1g8fA 511 3.26e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1qgoA 264 3.30e+01 1qgoA c.92.1.2 35596 1ltlA 279 3.40e+01 b.40.4.11 84701 1oz2A 331 3.44e+01 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1l3kA 196 3.54e+01 d.58.7.1 73539 d.58.7.1 73540 1efdN 266 3.61e+01 1efdN c.92.2.1 35597 1koe 172 3.62e+01 1koe d.169.1.5 42448 2liv 344 3.69e+01 2liv c.93.1.1 35708 1o70A 324 3.70e+01 b.118.1.1 81115 b.118.1.1 81116 1c7sA 858 3.71e+01 1qba b.1.18.2 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1ewfA 456 3.72e+01 1bp1 d.83.1.1 40024 d.83.1.1 40025 1hl2A 297 3.74e+01 c.1.10.1 83581 1efvB 255 3.75e+01 1efvB c.26.2.3 31634 1o69A 394 3.76e+01 c.67.1.4 -8209 1d4fA 431 3.77e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 3chy 128 3.87e+01 3chy c.23.1.1 31038 1ha1 184 3.90e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1ex0A 731 3.94e+01 b.1.18.9 -2754 b.1.5.1 -2778 b.1.5.1 -2779 d.3.1.4 -8889 1amuA 563 3.95e+01 1amuA e.23.1.1 43351 1guzA 310 3.95e+01 c.2.1.5 65586 d.162.1.1 65587