# 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 1hzdA 272 2.45e-02 c.14.1.3 65969 1nzyA 269 2.45e-02 1nzyA c.14.1.3 30903 1eudA 311 2.47e-02 2scuA c.2.1.8 30312 c.23.4.1 31140 1b57A 358 3.96e-02 1dosA c.1.10.2 29177 1dosA 358 5.69e-02 1dosA c.1.10.2 29175 1ef8A 261 5.89e-02 1ef8A c.14.1.3 30921 1dciA 275 6.46e-02 1dciA c.14.1.3 30918 1jx2B 315 7.60e-02 c.37.1.8 67404 2scuB 388 1.51e-01 2scuB c.23.4.1 31141 d.142.1.4 41562 7odcA 424 2.60e-01 7odcA b.49.2.1 26488 c.1.6.1 28650 1qo7A 394 3.15e-01 1qo7A c.69.1.11 34697 1pmi 440 3.90e-01 1pmi b.82.1.3 28114 1d7kA 421 3.92e-01 7odcA b.49.2.1 26486 c.1.6.1 28648 1lvl 458 4.39e-01 1lvl c.3.1.5 30567 c.3.1.5 30568 d.87.1.1 40205 1cqzA 554 4.83e-01 1cr6B c.108.1.2 43339 c.69.1.11 34689 1tyfA 193 4.99e-01 1tyfA c.14.1.1 30885 1qpzA 340 5.91e-01 1qpzA a.35.1.5 17097 c.93.1.1 35673 1wetA 340 8.24e-01 1qpzA a.35.1.5 17093 c.93.1.1 35670 2dubE 261 8.43e-01 1nzyA c.14.1.3 30916 1e5xA 486 8.60e-01 c.79.1.1 59283 1exmA 405 8.73e-01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1j9yA 385 8.85e-01 1j9yA c.1.8.3 62791 1ecpA 238 1.10e+00 1ecpA c.56.2.1 33775 1etu 394 1.15e+00 1efcA c.37.1.8 64737 1aipE 405 1.27e+00 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1hnoA 280 1.27e+00 1hnoA c.14.1.3 61095 1nsf 273 1.31e+00 1d2nA c.37.1.13 32429 1gjwA 637 1.37e+00 b.71.1.1 60582 c.1.8.1 60583 1qtwA 285 1.43e+00 1qumA c.1.15.1 29392 1k9sA 237 1.46e+00 c.56.2.1 68359 1hnuA 280 1.49e+00 1hnoA c.14.1.3 61096 1d2nA 272 1.57e+00 1d2nA c.37.1.13 32428 1zpdA 568 1.72e+00 1zpdA c.31.1.3 31741 c.36.1.1 31785 c.36.1.1 31786 1dbqA 289 1.75e+00 1qpzA c.93.1.1 35666 1ekqA 272 1.89e+00 1c3qA c.72.1.2 34941 1gjuA 637 1.90e+00 b.71.1.1 60580 c.1.8.1 60581 1c3qA 272 1.93e+00 1c3qA c.72.1.2 34948 1cl2A 395 2.03e+00 1cl2A c.67.1.3 34397 1j79A 347 2.04e+00 1j79A c.1.9.4 62675 1efcA 393 2.06e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1qumA 285 2.07e+00 1qumA c.1.15.1 29393 1eg7A 557 2.79e+00 1eg7A c.37.1.10 32241 1hq0A 295 3.03e+00 1hzgA d.194.1.1 61122 1qhfA 240 3.04e+00 1qhfA c.60.1.1 33960 1cl1A 395 3.27e+00 1cl2A c.67.1.3 34395 1qe3A 489 3.32e+00 2bce c.69.1.1 34630 1fg7A 356 3.33e+00 1gewA c.67.1.1 59819 1j8mF 297 3.54e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1gewA 356 3.57e+00 1gewA c.67.1.1 60470 1scuA 288 3.63e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1crzA 403 3.64e+00 1crzA b.68.4.1 27629 c.51.2.1 33211 3mhtA 327 3.81e+00 6mhtA c.66.1.10 34234 1bq3B 246 4.00e+00 1qhfA c.60.1.1 33979 1ivyA 452 4.19e+00 1ivyA c.69.1.5 34654 1eudB 396 4.19e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1hzgA 295 4.20e+00 1hzgA d.194.1.1 61436 1ha3A 405 4.82e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1brlB 324 4.84e+00 1lucA c.1.16.1 29554 2scuA 288 5.53e+00 2scuA c.2.1.8 30303 c.23.4.1 31131 1ig8A 486 5.70e+00 2yhx c.55.1.3 64746 c.55.1.3 64747 1cr6B 554 5.76e+00 1cr6B c.108.1.2 43338 c.69.1.11 34688 1am2 199 6.18e+00 1am2 b.86.1.2 28381 1rpxA 230 6.38e+00 1rpxA c.1.2.2 28536 1brlA 355 6.52e+00 1lucA c.1.16.1 29553 1i1qB 192 6.56e+00 1qdlB c.23.16.1 61544 1ekjA 221 6.72e+00 1ekjB c.53.2.1 33364 1k3fA 253 6.77e+00 c.56.2.1 68105 1fm0E 150 6.78e+00 1fmaE d.41.5.1 38629 1ekjB 221 6.81e+00 1ekjB c.53.2.1 33365 1eqjA 511 6.84e+00 1ejjA c.105.1.1 59495 c.76.1.3 59496 6mhtA 327 7.04e+00 6mhtA c.66.1.10 34226 1imdA 277 7.14e+00 1imbA e.7.1.1 42968 1cbg 490 7.30e+00 1e70M c.1.8.4 28933 1tib 269 7.43e+00 3tgl c.69.1.17 34738 1ejjA 511 7.47e+00 1ejjA c.105.1.1 59422 c.76.1.3 59423 1lx7A 253 7.61e+00 1vxrA 537 7.65e+00 2bce c.69.1.1 34595 1fts 295 7.82e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1ek1A 554 7.96e+00 1cr6B c.108.1.2 43335 c.69.1.11 34685 1fmaE 150 8.19e+00 1fmaE d.41.5.1 38630 1qczA 169 8.36e+00 1qczA c.23.8.1 31276 1gvfA 286 8.40e+00 1id0A 152 8.53e+00 d.122.1.3 66111 1b8oA 284 8.74e+00 1b8oA c.56.2.1 33762 1dxtB 147 8.80e+00 1abwA a.1.1.2 15450 1babB 146 8.81e+00 1abwA a.1.1.2 15414 1dqwA 267 9.06e+00 1dqwA c.1.2.3 28551 1kq3A 376 9.27e+00 e.22.1.2 68790 1qi9A 556 9.33e+00 1qhbA a.111.1.2 19053 1poxA 585 9.39e+00 1poxA c.31.1.3 31731 c.36.1.1 31793 c.36.1.1 31794 1d2eA 397 9.45e+00 1efcA b.43.3.1 25701 b.44.1.1 25741 c.37.1.8 32136 1gs5A 258 1.01e+01 1qj4A 257 1.02e+01 1qj4A c.69.1.20 34796 1ea5A 537 1.02e+01 2bce c.69.1.1 34592 1yasA 257 1.08e+01 1qj4A c.69.1.20 34801 1qidA 537 1.10e+01 2bce c.69.1.1 34593 3pnp 289 1.11e+01 1b8oA c.56.2.1 33763 1lap 488 1.16e+01 1lam c.50.1.1 33171 c.56.5.3 33834 1gw5B 591 1.16e+01 1fxjA 331 1.18e+01 1fwyA b.81.1.4 28062 c.68.1.5 34520 1k30A 368 1.18e+01 c.112.1.1 68067 1mpp 361 1.19e+01 2rmpA b.50.1.2 26856 1lucB 324 1.19e+01 1lucA c.1.16.1 29548 1i7qB 193 1.28e+01 1qdlB c.23.16.1 61902 1i3dA 146 1.29e+01 a.1.1.2 61587 1f2dA 341 1.30e+01 1f2dA c.79.1.1 35298 1g4uS 383 1.30e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 1pbn 289 1.32e+01 1b8oA c.56.2.1 33771 1hmy 327 1.35e+01 6mhtA c.66.1.10 34229 1hqz9 141 1.35e+01 6ldh 330 1.40e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1cr1A 296 1.42e+01 1cr1A c.37.1.11 32286 1iibA 106 1.43e+01 1iibA c.44.2.1 32648 1hqz1 141 1.43e+01 8pchA 220 1.43e+01 1cs8A d.3.1.1 37084 1a5j 110 1.45e+01 1a5j a.4.1.3 16043 a.4.1.3 16044 1theB 260 1.51e+01 1theB d.3.1.1 37057 1imbA 277 1.52e+01 1imbA e.7.1.1 42957 2hhmA 276 1.53e+01 1imbA e.7.1.1 42955 1hv9A 456 1.53e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1a8h 500 1.56e+01 1a8h a.27.1.1 16922 c.26.1.1 31589 1eypA 222 1.58e+01 1eypA d.36.1.1 38536 1lam 484 1.59e+01 1lam c.50.1.1 33166 c.56.5.3 33829 1jmkC 230 1.60e+01 1fs7A 485 1.61e+01 1qdbA a.138.1.3 19691 1theA 260 1.62e+01 1theB d.3.1.1 37056 1f8gA 384 1.65e+01 1sayA c.2.1.4 59695 c.23.12.2 59696 1eg5A 384 1.66e+01 1ecxA c.67.1.3 34429 1ehaA 558 1.67e+01 1ehaA b.1.1.5 21859 b.71.1.1 27786 c.1.8.1 28773 1i88A 389 1.70e+01 c.95.1.2 66070 c.95.1.2 66071 1cec 343 1.73e+01 1ceo c.1.8.3 28809 1eyqA 222 1.74e+01 1eypA d.36.1.1 38534 1dguA 183 1.75e+01 1dguA a.39.1.5 17333 1ecxA 384 1.75e+01 1ecxA c.67.1.3 34431 1jepA 222 1.77e+01 d.36.1.1 66612 1qlaA 656 1.79e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1fwyA 331 1.87e+01 1fwyA b.81.1.4 28064 c.68.1.5 34522 2sli 679 1.90e+01 2sli b.29.1.9 24274 b.68.1.1 27611 4sli 679 1.90e+01 2sli b.29.1.9 24275 b.68.1.1 27612 1e0tA 470 1.91e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1csbB 205 1.91e+01 1theB 1kamA 194 1.94e+01 1chd 203 1.97e+01 1chd c.40.1.1 32478 1dar 691 2.00e+01 1dar b.43.3.1 25707 c.37.1.8 32142 d.14.1.1 37547 d.58.11.1 39300 1jk0A 419 2.03e+01 a.25.1.2 63142 1ceo 343 2.04e+01 1ceo c.1.8.3 28808 1kgnA 329 2.08e+01 a.25.1.2 68584 1a3h 300 2.11e+01 7a3hA c.1.8.3 28819 1cr0A 296 2.14e+01 1cr1A c.37.1.11 32287 1augA 215 2.15e+01 1a2zA c.56.4.1 33798 7a3hA 303 2.16e+01 7a3hA c.1.8.3 28817 1j7lA 264 2.20e+01 d.144.1.6 62697 1inlA 296 2.21e+01 c.66.1.17 66220 1sup 275 2.23e+01 1gci c.41.1.1 32510 1tgoA 773 2.26e+01 1tgoA c.55.3.5 33721 e.8.1.1 43010 1bn8A 420 2.26e+01 1pcl b.80.1.1 28022 1g65K 211 2.29e+01 d.153.1.4 41907 1rypL 212 2.32e+01 d.153.1.4 41880 5bcaA 516 2.35e+01 1b9zA b.3.1.1 22529 c.1.8.2 28799 1qhtA 775 2.36e+01 1tgoA c.55.3.5 33722 e.8.1.1 43011 1pamA 686 2.36e+01 1cxlA b.1.1.5 21846 b.3.1.1 22515 b.71.1.1 27753 c.1.8.1 28740 1bw0A 416 2.38e+01 1bw0A c.67.1.1 34385 1b25A 619 2.40e+01 1b25A a.110.1.1 19044 d.152.1.1 41796 1jjfA 268 2.40e+01 c.69.1.2 66765 1e1oA 504 2.41e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1hu3A 260 2.41e+01 1hu3A a.118.1.2 19137 1pvdA 537 2.43e+01 1zpdA c.31.1.3 31737 c.36.1.1 31777 c.36.1.1 31778 1j5eB 256 2.44e+01 1e1aA 314 2.47e+01 1e1aA b.68.6.1 59155 3ldh 330 2.47e+01 3ldh i.12.1.1 46015 1tig 94 2.50e+01 1tig d.68.1.1 39566 1ik6A 369 2.51e+01 c.36.1.3 66174 c.48.1.2 66175 1gtxA 472 2.52e+01 1gtxA c.67.1.4 34464 1tml 286 2.62e+01 1tml c.6.1.1 30656 1b9zA 516 2.63e+01 1b9zA b.3.1.1 22528 c.1.8.2 28798 1ii7A 333 2.65e+01 1ii7A d.159.1.4 62415 1jb9A 316 2.69e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1tfr 305 2.71e+01 1tfr a.60.7.1 18081 c.53.1.2 33351 2tpsA 227 2.83e+01 2tpsA c.1.3.1 28591 1e39A 571 2.85e+01 1qjdA a.138.1.3 19694 c.3.1.4 30431 d.168.1.1 42314 1d02A 202 2.85e+01 1d02A c.52.1.8 33313 1skyB 502 2.86e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 1ccwB 483 2.88e+01 1cb7B c.1.19.2 29646 1et0A 269 2.90e+01 1et0A e.17.1.1 43289 1qjdA 571 2.94e+01 1qjdA a.138.1.3 19695 c.3.1.4 30432 d.168.1.1 42315 1mil 104 3.03e+01 1d4tA d.93.1.1 40496 3fruA 269 3.09e+01 1agdA b.1.1.2 20657 d.19.1.1 38150 1crl 534 3.10e+01 1thg c.69.1.17 34765 1ryp2 233 3.12e+01 1ryp2 1cb7B 483 3.16e+01 1cb7B c.1.19.2 29648 2cy3 118 3.18e+01 3cyr a.138.1.1 19649 1fbaA 361 3.19e+01 1fbaA c.1.10.1 29120 1jj7A 260 3.28e+01 c.37.1.12 63114 1ayyA 151 3.29e+01 1apyA d.153.1.5 42016 1tplA 426 3.45e+01 1ax4A c.67.1.2 34387 1kte 105 3.46e+01 1kte c.47.1.1 32771 1f5mB 180 3.47e+01 1f5mB d.110.2.1 40896 1d3gA 367 3.47e+01 1d3gA c.1.4.1 28600 1lgyA 269 3.50e+01 3tgl c.69.1.17 34758 1f5mA 180 3.50e+01 1f5mB d.110.2.1 40895 1bs0A 384 3.54e+01 1bs0A c.67.1.4 34490 1eriA 276 3.55e+01 1ckqA c.52.1.1 33231 9ldtA 332 3.55e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1g4wR 383 3.57e+01 1g4uS a.24.11.1 16644 c.45.1.2 32692 1jq3A 296 3.57e+01 c.66.1.17 67079 1hdiA 413 3.58e+01 16pk c.86.1.1 60964 1bfd 528 3.60e+01 1bfd c.31.1.3 31745 c.36.1.1 31801 c.36.1.1 31802 1jkfA 533 3.60e+01 1dt6A 473 3.61e+01 1dt6A a.104.1.1 18977 1cjsA 219 3.66e+01 1cjsA e.24.1.1 43354 1hqkA 154 3.66e+01 c.16.1.1 65902 1ckmA 330 3.67e+01 1ckmA b.40.4.6 25358 d.142.2.3 41585 1eq2A 310 3.68e+01 1eq2A c.2.1.2 29814 9gafA 295 3.76e+01 1apyA d.153.1.5 42008 1jykA 254 3.78e+01 c.68.1.13 67458 1d2fA 390 3.78e+01 1d2fA c.67.1.3 34411 1nfp 228 3.81e+01 1nfp c.1.16.2 29555 1f2tB 148 3.88e+01 1f2tB 1irdB 146 3.89e+01 a.1.1.2 66287 1cl8A 276 3.95e+01 1ckqA c.52.1.1 33230 1dnlA 199 3.97e+01 1ci0A b.45.1.1 25753 1broA 277 3.97e+01 1brt c.69.1.12 34700 1qpbA 563 3.98e+01 1zpdA c.31.1.3 31739 c.36.1.1 31781 c.36.1.1 31782