# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 7.61e-33 1ehiA 377 1.18e-01 1iow c.30.1.2 31716 d.142.1.1 41484 1f8yA 157 3.83e-01 1f8xA c.23.14.1 31395 1ltlA 279 5.04e-01 b.40.4.11 84701 1f8xA 157 6.80e-01 1f8xA c.23.14.1 31397 1oxxK 353 8.64e-01 b.40.6.3 -3969 c.37.1.12 -7187 1omzA 293 8.80e-01 c.68.1.15 87093 1k2yX 463 9.46e-01 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 d.129.2.1 68066 1oxsC 353 1.10e+00 b.40.6.3 87519 c.37.1.12 87520 1p5dX 463 1.27e+00 c.84.1.1 -8554 c.84.1.1 -8555 c.84.1.1 -8556 d.129.2.1 -11029 1f5mA 180 1.41e+00 1f5mB d.110.2.1 40895 2lbp 346 1.93e+00 2liv c.93.1.1 35709 1f5mB 180 2.02e+00 1f5mB d.110.2.1 40896 1sep 261 2.26e+00 1oaa c.2.1.2 29830 1bdmB 327 2.50e+00 1bmdA c.2.1.5 30138 d.162.1.1 42105 1usgA 346 2.52e+00 c.93.1.1 -8635 1l2tA 235 2.55e+00 c.37.1.12 73514 1to6A 371 2.59e+00 1bdmA 327 2.75e+00 1bmdA c.2.1.5 30137 d.162.1.1 42104 1kcfA 258 2.76e+00 a.140.2.1 68434 c.55.3.7 68435 1bmdA 327 2.80e+00 1bmdA c.2.1.5 30139 d.162.1.1 42106 1ixkA 315 2.86e+00 unknown_sccs -8099 1oaa 259 2.92e+00 1oaa c.2.1.2 29829 1korA 400 3.28e+00 c.26.2.1 72824 d.210.1.1 72825 1v84A 253 3.54e+00 1fggA 261 3.86e+00 1fggA c.68.1.7 34576 1jeyB 565 4.17e+00 1jeqB unknown_sccs -4431 unknown_sccs -7995 1poiA 317 4.36e+00 1poiA unknown_sccs 34153 1dy2A 180 4.38e+00 1koe d.169.1.5 42451 1w2wB 191 4.55e+00 1gteA 1025 4.61e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1guzA 310 4.76e+00 c.2.1.5 65586 d.162.1.1 65587 2gbp 309 4.81e+00 1gca c.93.1.1 35657 1dqwA 267 4.99e+00 1dqwA c.1.2.3 28551 1q7zA 566 5.00e+00 c.1.21.2 -5638 c.1.26.1 -5666 1gt8C 1025 5.09e+00 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1fzaB 328 5.12e+00 3fib d.171.1.1 42480 h.1.8.1 45621 1b0uA 262 5.14e+00 1b0uA c.37.1.12 32370 1cf9A 753 5.23e+00 1cf9A c.23.16.3 31441 e.5.1.1 42815 1gt8A 1025 5.32e+00 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1uetA 437 5.60e+00 unknown_sccs -1144 unknown_sccs -9798 unknown_sccs -10058 1p3wA 404 5.79e+00 c.67.1.3 87752 1h7wA 1025 5.88e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 2liv 344 5.97e+00 2liv c.93.1.1 35708 1m32A 366 6.16e+00 c.67.1.3 78508 1ecxA 384 6.19e+00 1ecxA c.67.1.3 34431 1sg1X 161 6.41e+00 1h7xA 1025 6.54e+00 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 1eg5A 384 6.78e+00 1ecxA c.67.1.3 34429 1mpyA 307 6.80e+00 1mpyA d.32.1.3 38508 d.32.1.3 38509 1h7wB 1025 6.84e+00 a.1.2.2 15684 c.1.4.1 28629 c.3.1.1 30325 c.4.1.1 30610 d.58.1.5 39008 1oakA 196 7.06e+00 1auq c.62.1.1 34138 1kwsA 261 7.07e+00 c.68.1.7 73083 1uuhA 159 7.23e+00 d.169.1.4 -11651 1eesA 178 7.41e+00 1eesA c.37.1.8 32073 1mixA 206 7.48e+00 a.11.2.1 79166 b.55.1.5 79167 1gteD 1025 7.49e+00 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1gthA 1025 7.59e+00 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1gthC 1025 7.68e+00 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1gthD 1025 7.71e+00 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 1h7wD 1025 7.82e+00 a.1.2.2 15686 c.1.4.1 28631 c.3.1.1 30327 c.4.1.1 30612 d.58.1.5 39010 1hgxA 183 8.03e+00 1tc1A c.61.1.1 34027 1rtqA 299 8.07e+00 c.56.5.4 -7864 1hyhA 309 8.11e+00 1hyhA c.2.1.5 30150 d.162.1.1 42117 1h7xB 1025 8.29e+00 a.1.2.2 15688 c.1.4.1 28633 c.3.1.1 30329 c.4.1.1 30614 d.58.1.5 39012 1nulA 152 8.34e+00 1nulA c.61.1.1 34011 1h7xD 1025 8.35e+00 a.1.2.2 15690 c.1.4.1 28635 c.3.1.1 30331 c.4.1.1 30616 d.58.1.5 39014 1ecfA 504 8.42e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1pzgA 331 8.44e+00 c.2.1.5 -5931 d.162.1.1 -11498 1rtwA 220 8.61e+00 unknown_sccs -1904 1oasA 322 8.68e+00 1oasA c.79.1.1 35293 1fmcA 255 8.70e+00 1cydA c.2.1.2 29856 1gt6A 269 8.72e+00 c.69.1.17 76342 1p80A 753 8.81e+00 c.23.16.3 -6547 e.5.1.1 -11840 1gthB 1025 8.88e+00 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 1tib 269 8.97e+00 3tgl c.69.1.17 34738 1qunB 279 9.00e+00 b.2.3.2 22411 b.2.3.2 22412 1gca 309 9.09e+00 1gca c.93.1.1 35659 1hr6A 475 9.26e+00 1hr6A d.185.1.1 61164 d.185.1.1 61165 1lokA 291 9.31e+00 c.56.5.4 78122 1amp 291 9.69e+00 1amp c.56.5.4 33837 1iukA 140 9.69e+00 c.2.1.8 83712 1h7xC 1025 9.98e+00 a.1.2.2 15689 c.1.4.1 28634 c.3.1.1 30330 c.4.1.1 30615 d.58.1.5 39013 1dzlA 505 1.00e+01 1dzlA b.121.6.1 23586 1uteA 313 1.00e+01 1uteA d.159.1.1 42078 1gt8D 1025 1.04e+01 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 1rf6A 427 1.12e+01 d.68.2.2 -10314 1koe 172 1.13e+01 1koe d.169.1.5 42448 1tc1A 220 1.13e+01 1tc1A c.61.1.1 34083 1pinA 163 1.13e+01 1pinA b.72.1.1 27802 d.26.1.1 38431 1c0nA 406 1.14e+01 1c0nA c.67.1.3 34433 1gt8B 1025 1.14e+01 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1nhp 447 1.16e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1j4aA 333 1.17e+01 c.2.1.4 71502 c.23.12.1 71503 1gcoA 261 1.19e+01 1ybvA c.2.1.2 29884 1geeA 261 1.19e+01 c.2.1.2 -5814 1jeqB 565 1.20e+01 1jeqB unknown_sccs -4432 unknown_sccs -7996 1i1nA 226 1.21e+01 c.66.1.7 71102 1cfr 285 1.28e+01 1cfr c.52.1.7 33312 1dozA 309 1.29e+01 1ak1 c.92.1.1 35592 1ak1 310 1.29e+01 1ak1 c.92.1.1 35594 1spgB 147 1.30e+01 1cg5B a.1.1.2 15588 1kr5A 226 1.31e+01 c.66.1.7 68847 1kuxA 207 1.34e+01 d.108.1.1 73021 1jf9A 408 1.35e+01 1c0nA c.67.1.3 62931 1bp1 456 1.37e+01 1bp1 d.83.1.1 40026 d.83.1.1 40027 1v9fA 325 1.37e+01 2rmcA 182 1.38e+01 2cpl b.62.1.1 27491 1fnsA 196 1.39e+01 1auq c.62.1.1 34136 1fcjA 322 1.40e+01 1oasA c.79.1.1 35289 3chy 128 1.41e+01 3chy c.23.1.1 31038 1lm4A 194 1.43e+01 d.167.1.1 84626 1b64 91 1.47e+01 1b64 d.58.12.1 39306 1ja9A 274 1.48e+01 c.2.1.2 62817 1e3dB 542 1.53e+01 1h2rL e.18.1.1 59189 1lqwA 183 1.54e+01 d.167.1.1 74210 1f8aB 167 1.55e+01 1pinA b.72.1.1 27803 d.26.1.1 38432 1delA 241 1.55e+01 1dekA c.37.1.1 31844 1e6mA 128 1.58e+01 3chy c.23.1.1 31039 1b4cA 92 1.64e+01 1b4cA a.39.1.2 17169 1jbeA 128 1.64e+01 3chy c.23.1.1 62845 7aatA 401 1.65e+01 1ajsA c.67.1.1 34250 1oy1A 228 1.69e+01 c.23.16.2 87548 1c7sA 858 1.71e+01 1qba b.1.18.2 21812 b.2.2.3 22408 c.1.8.6 29011 d.92.2.1 40410 1qba 858 1.75e+01 1qba b.1.18.2 21810 b.2.2.3 22406 c.1.8.6 29009 d.92.2.1 40408 1dekA 241 1.79e+01 1dekA c.37.1.1 31842 1u08A 386 2.01e+01 1fviA 297 2.07e+01 1fviA b.40.4.6 25364 d.142.2.1 41578 1edoA 244 2.12e+01 1ybvA c.2.1.2 29896 1dmhA 311 2.18e+01 1dmhA b.3.6.1 22633 1lmhA 184 2.21e+01 d.167.1.1 74036 1jq5A 370 2.23e+01 e.22.1.2 67084 1f6bA 198 2.26e+01 c.37.1.8 64986 1k3rA 268 2.29e+01 b.40.4.10 72018 c.116.1.2 72019 1qfcA 306 2.34e+01 1uteA d.159.1.1 42077 1jnrB 150 2.36e+01 d.58.1.5 66969 1jpnA 296 2.37e+01 a.24.13.1 67039 c.37.1.10 67040 1cye 129 2.40e+01 3chy c.23.1.1 31077 1jqaA 370 2.42e+01 e.22.1.2 67085 1dhkB 223 2.42e+01 1led b.29.1.1 24157 1g2iA 166 2.43e+01 1g2iA c.23.16.2 31438 1nox 205 2.46e+01 1nox d.90.1.1 40242 1hl2A 297 2.46e+01 c.1.10.1 83581 1l3kA 196 2.47e+01 d.58.7.1 73539 d.58.7.1 73540 1tlfA 301 2.48e+01 1tlfA c.93.1.1 35687 1d4fA 431 2.50e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1vi6A 208 2.67e+01 c.23.15.1 -6489 1dmgA 225 2.69e+01 1dmgA c.22.1.1 31036 1iw7C 1119 2.70e+01 e.29.1.1 71474 1ecfB 504 2.71e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1iugA 352 2.71e+01 c.67.1.3 -8176 1egzA 291 2.73e+01 7a3hA c.1.8.3 28828 1i50F 155 2.75e+01 d.78.1.2 61760 2u1a 88 2.77e+01 2u1a d.58.7.1 39164 1gskA 513 2.79e+01 b.6.1.3 83314 b.6.1.3 83315 b.6.1.3 83316 1fxjA 331 2.81e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1ls1A 295 2.84e+01 a.24.13.1 78170 c.37.1.10 78171 1vhtA 218 2.95e+01 c.37.1.1 -7004 1ha1 184 2.98e+01 1ha1 d.58.7.1 39147 d.58.7.1 39148 1fdyA 297 3.04e+01 1nal3 c.1.10.1 29071 1viwB 198 3.06e+01 1led b.29.1.1 24170 1v4xB 146 3.06e+01 1r13A 148 3.08e+01 d.169.1.1 -11646 h.1.1.1 -12895 9apiA 347 3.10e+01 1ovaA e.1.1.1 42630 1ng1 294 3.12e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1mho 88 3.13e+01 1b4cA a.39.1.2 17171 1nhs 447 3.14e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1p1mA 406 3.17e+01 b.92.1.4 87696 c.1.9.9 87697 1ijbA 202 3.27e+01 c.62.1.1 71229 1vjnA 220 3.27e+01 unknown_sccs -11458 1nal1 297 3.28e+01 1nal3 1pwbA 177 3.30e+01 d.169.1.1 -11641 h.1.1.1 -12890 1a81A 254 3.32e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1np6A 174 3.33e+01 c.37.1.10 85954 1b9hA 388 3.36e+01 1b9hA c.67.1.4 34488 1dqtA 117 3.37e+01 1ah1 b.1.1.1 20653 1iu9A 111 3.49e+01 c.78.2.1 -8500 1iioA 84 3.50e+01 a.39.4.1 66150 1lgyA 269 3.51e+01 3tgl c.69.1.17 34758 1gdeA 389 3.52e+01 c.67.1.1 60456 1pvc3 238 3.58e+01 1aym3 1oihA 301 3.62e+01 b.82.2.5 -4899 1vhqA 232 3.65e+01 c.23.16.2 -6514 1joa 447 3.66e+01 1nhp c.3.1.5 30563 c.3.1.5 30564 d.87.1.1 40203 1kiuB 279 3.66e+01 b.2.3.2 72525 b.2.3.2 72526 1mk4A 157 3.66e+01 d.108.1.1 84979 1li4A 432 3.67e+01 c.2.1.4 84616 c.23.12.3 84617 1th8A 145 3.72e+01 1b3rA 431 3.75e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 2pcfB 250 3.77e+01 1hcz i.4.1.1 45911 1ngvA 534 3.80e+01 c.111.1.2 85698 1dljA 402 3.86e+01 1dliA a.100.1.4 18808 c.2.1.6 30212 c.26.3.1 31621 1j6pA 418 3.88e+01 b.92.1.4 77089 c.1.9.9 77090 1oz2A 331 3.93e+01 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1auq 208 3.94e+01 1auq c.62.1.1 34137 1aje 194 3.96e+01 1ctqA c.37.1.8 32071