# 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 1hzdA 272 9.88e-03 c.14.1.3 65969 1ef8A 261 1.19e-02 1ef8A c.14.1.3 30921 1dciA 275 3.14e-02 1dciA c.14.1.3 30918 1rpxA 230 5.91e-02 1rpxA c.1.2.2 28536 1hnuA 280 7.65e-02 1hnoA c.14.1.3 61096 1cleA 534 9.88e-02 1thg c.69.1.17 34771 1ceo 343 9.95e-02 1ceo c.1.8.3 28808 1j9yA 385 1.20e-01 1j9yA c.1.8.3 62791 1bw0A 416 1.59e-01 1bw0A c.67.1.1 34385 1cec 343 1.66e-01 1ceo c.1.8.3 28809 1pmi 440 2.20e-01 1pmi b.82.1.3 28114 1hnoA 280 2.20e-01 1hnoA c.14.1.3 61095 1mil 104 2.38e-01 1d4tA d.93.1.1 40496 3pnp 289 2.39e-01 1b8oA c.56.2.1 33763 1igwA 434 3.26e-01 c.1.12.6 62370 2napA 723 3.79e-01 2napA b.52.2.2 26926 c.81.1.1 35334 1hzgA 295 4.19e-01 1hzgA d.194.1.1 61436 1ecpA 238 4.98e-01 1ecpA c.56.2.1 33775 1g0cA 364 5.68e-01 7a3hA c.1.8.3 60165 1crl 534 5.72e-01 1thg c.69.1.17 34765 1lylA 504 5.95e-01 1lylA b.40.4.1 25261 d.104.1.1 40717 1e1oA 504 6.14e-01 1lylA b.40.4.1 25258 d.104.1.1 40714 1hq0A 295 6.89e-01 1hzgA d.194.1.1 61122 1b57A 358 6.92e-01 1dosA c.1.10.2 29177 1b8oA 284 6.99e-01 1b8oA c.56.2.1 33762 1dosA 358 7.08e-01 1dosA c.1.10.2 29175 1k9sA 237 7.11e-01 c.56.2.1 68359 1lap 488 7.18e-01 1lam c.50.1.1 33171 c.56.5.3 33834 1lam 484 7.25e-01 1lam c.50.1.1 33166 c.56.5.3 33829 1f2tB 148 7.96e-01 1f2tB 1pbn 289 8.23e-01 1b8oA c.56.2.1 33771 1fuiA 591 8.29e-01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1ecxA 384 1.00e+00 1ecxA c.67.1.3 34431 1a0cA 438 1.02e+00 1a0cA c.1.15.3 29529 1qe3A 489 1.05e+00 2bce c.69.1.1 34630 1cjsA 219 1.08e+00 1cjsA e.24.1.1 43354 1eg5A 384 1.13e+00 1ecxA c.67.1.3 34429 1eudB 396 1.19e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1efcA 393 1.31e+00 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1ax4A 467 1.35e+00 1ax4A c.67.1.2 34391 1j5eB 256 1.41e+00 1k2yX 463 1.54e+00 c.84.1.1 68063 c.84.1.1 68064 c.84.1.1 68065 c.84.1.1 68066 1cs0B 382 1.54e+00 1c3oB c.8.3.1 30740 c.23.16.1 31417 1h61A 364 1.59e+00 1oyc c.1.4.1 60657 1a9xB 379 1.76e+00 1c3oB c.8.3.1 30732 c.23.16.1 31409 1eiwA 111 1.90e+00 1eiwA c.23.3.1 31130 1bmtA 246 1.97e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 1poxA 585 1.97e+00 1poxA c.31.1.3 31731 c.36.1.1 31793 c.36.1.1 31794 1c3oB 382 2.10e+00 1c3oB c.8.3.1 30744 c.23.16.1 31421 1fts 295 2.12e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 7odcA 424 2.22e+00 7odcA b.49.2.1 26488 c.1.6.1 28650 1fjgB 256 2.24e+00 1fjfB c.23.15.1 31400 1aqzA 149 2.39e+00 1aqzA d.1.1.1 36238 1cr1A 296 2.64e+00 1cr1A c.37.1.11 32286 1jp3A 253 2.67e+00 1f75A c.101.1.1 63221 1lucA 355 2.78e+00 1lucA c.1.16.1 29547 1d2nA 272 2.98e+00 1d2nA c.37.1.13 32428 1xypA 190 3.16e+00 1axkA b.29.1.11 24327 5p21 166 3.22e+00 1ctqA c.37.1.8 31966 1poiA 317 3.22e+00 1poiA c.63.1.1 34153 1aqzB 149 3.41e+00 1aqzA d.1.1.1 36239 1i3kA 348 3.48e+00 1xel c.2.1.2 61595 1k3fA 253 3.48e+00 c.56.2.1 68105 1exmA 405 3.57e+00 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131 1a3h 300 3.73e+00 7a3hA c.1.8.3 28819 1ha3A 405 3.82e+00 1efcA b.43.3.1 60869 b.44.1.1 60870 c.37.1.8 60871 1ek6A 348 4.02e+00 1xel c.2.1.2 29800 1lx7A 253 4.09e+00 1nsf 273 4.12e+00 1d2nA c.37.1.13 32429 7a3hA 303 4.44e+00 7a3hA c.1.8.3 28817 1ctqA 166 4.63e+00 1ctqA c.37.1.8 31965 1bo4A 168 4.73e+00 1bo4A d.108.1.1 40798 1cr0A 296 4.78e+00 1cr1A c.37.1.11 32287 1ii7A 333 4.80e+00 1ii7A d.159.1.4 62415 1ekjA 221 4.82e+00 1ekjB c.53.2.1 33364 1g7rA 594 5.20e+00 1g7rA b.43.3.1 25716 b.43.3.1 25717 c.20.1.1 31034 c.37.1.8 32149 1j8mF 297 5.27e+00 1ng1 a.24.13.1 62742 c.37.1.10 62743 1cfzA 162 5.49e+00 1cfzA c.56.1.1 33754 9ldtA 332 5.52e+00 3ldh c.2.1.5 30154 d.162.1.1 42121 2scuB 388 5.57e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 1etu 394 5.57e+00 1efcA c.37.1.8 64737 1bi5A 389 5.71e+00 1bi5A c.95.1.2 35985 c.95.1.2 35986 1avk 638 5.76e+00 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1brlB 324 6.48e+00 1lucA c.1.16.1 29554 1zpdA 568 6.82e+00 1zpdA c.31.1.3 31741 c.36.1.1 31785 c.36.1.1 31786 1esmA 316 6.91e+00 1esmA c.37.1.6 31953 1ekjB 221 7.45e+00 1ekjB c.53.2.1 33365 1hqkA 154 7.56e+00 c.16.1.1 65902 1g7tA 594 7.57e+00 1g7rA b.43.3.1 25714 b.43.3.1 25715 c.20.1.1 31033 c.37.1.8 32148 1pea 385 7.57e+00 1pea c.93.1.1 35662 2tpsA 227 7.85e+00 2tpsA c.1.3.1 28591 1ir3A 306 7.91e+00 1fmk d.144.1.2 41702 1lucB 324 8.13e+00 1lucA c.1.16.1 29548 1ekqA 272 8.20e+00 1c3qA c.72.1.2 34941 1cseE 274 8.34e+00 1gci c.41.1.1 32481 1nbaA 264 8.38e+00 1nbaA c.33.1.1 31753 1dkuA 317 8.53e+00 1dkuA c.61.1.2 34118 c.61.1.2 34119 1edg 380 8.76e+00 1edg c.1.8.3 28807 1jy1A 464 8.97e+00 d.136.1.3 67438 d.136.1.3 67439 1e55A 512 8.99e+00 1e70M c.1.8.4 28934 1g7sA 594 9.05e+00 1g7rA b.43.3.1 25712 b.43.3.1 25713 c.20.1.1 31032 c.37.1.8 32147 1bqcA 302 9.20e+00 1bqcA c.1.8.3 28831 2dubE 261 9.24e+00 1nzyA c.14.1.3 30916 1dkrA 317 9.26e+00 1dkuA c.61.1.2 34114 c.61.1.2 34115 1fm0E 150 9.69e+00 1fmaE d.41.5.1 38629 1e7uA 961 9.76e+00 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1eudA 311 9.77e+00 2scuA c.2.1.8 30312 c.23.4.1 31140 1thg 544 9.93e+00 1thg c.69.1.17 34763 1ribA 375 1.04e+01 1xikA a.25.1.2 16788 1xikA 375 1.04e+01 1xikA a.25.1.2 16784 1jqcA 375 1.04e+01 1xikA a.25.1.2 63229 1fmaE 150 1.07e+01 1fmaE d.41.5.1 38630 1a6l 106 1.08e+01 1a6l d.58.1.2 38966 1dl5A 317 1.09e+01 1dl5A c.66.1.7 64720 d.197.1.1 64721 1jeqA 609 1.11e+01 1jeqA a.140.2.1 64748 e.31.1.1 64749 1fiqC 763 1.13e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1jilA 420 1.13e+01 c.26.1.1 66745 3pbgA 468 1.18e+01 1e70M c.1.8.4 28951 1di0A 158 1.18e+01 1di0A c.16.1.1 30957 1bo4B 168 1.19e+01 1bo4A d.108.1.1 40799 1fd2 106 1.20e+01 1a6l d.58.1.2 38962 1dymA 402 1.20e+01 1celA b.29.1.10 24304 3grs 478 1.28e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1irk 306 1.28e+01 1fmk d.144.1.2 41703 1fnoA 417 1.30e+01 1tml 286 1.31e+01 1tml c.6.1.1 30656 1gpmA 525 1.38e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 2dri 271 1.41e+01 2dri c.93.1.1 35637 1c3qA 272 1.43e+01 1c3qA c.72.1.2 34948 4gr1 478 1.46e+01 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1qmuA 380 1.47e+01 1qmuA b.3.2.1 22534 c.56.5.1 33827 1csbB 205 1.50e+01 1theB 1qumA 285 1.53e+01 1qumA c.1.15.1 29393 1a31A 538 1.58e+01 1a36A d.163.1.2 42170 e.15.1.1 43263 1gewA 356 1.59e+01 1gewA c.67.1.1 60470 1g0oA 283 1.59e+01 1ybvA c.2.1.2 60181 2cy3 118 1.63e+01 3cyr a.138.1.1 19649 1ybvA 283 1.64e+01 1ybvA c.2.1.2 29948 1jjfA 268 1.65e+01 c.69.1.2 66765 3pmgA 561 1.65e+01 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1pyiA 96 1.65e+01 1pyiA g.38.1.1 45079 h.1.3.1 45512 1btkB 169 1.66e+01 1btkA b.55.1.1 26960 1theB 260 1.69e+01 1theB d.3.1.1 37057 1dgjA 907 1.69e+01 1alo a.56.1.1 17909 d.15.4.2 37694 d.41.1.1 38585 d.133.1.1 41415 1et0A 269 1.72e+01 1et0A e.17.1.1 43289 1gs5A 258 1.73e+01 1b1a 137 1.73e+01 1be1 c.23.6.1 31242 1qtwA 285 1.76e+01 1qumA c.1.15.1 29392 1ehiA 377 1.77e+01 1iow c.30.1.2 31716 d.142.1.1 41484 1d7kA 421 1.79e+01 7odcA b.49.2.1 26486 c.1.6.1 28648 2shpA 525 1.82e+01 2shpA c.45.1.2 32683 d.93.1.1 40533 d.93.1.1 40534 1fg7A 356 1.87e+01 1gewA c.67.1.1 59819 1bn6A 294 1.93e+01 1bn6A c.69.1.8 34678 1oaa 259 1.95e+01 1oaa c.2.1.2 29829 1btkA 169 2.04e+01 1btkA b.55.1.1 26959 1i9sA 210 2.10e+01 1i9sA c.45.1.1 62099 1fcdA 401 2.14e+01 1fcdA c.3.1.5 30593 c.3.1.5 30594 d.87.1.1 40218 1gr8A 412 2.15e+01 1be1 137 2.17e+01 1be1 c.23.6.1 31237 1i88A 389 2.18e+01 c.95.1.2 66070 c.95.1.2 66071 1theA 260 2.20e+01 1theB d.3.1.1 37056 1i86A 389 2.22e+01 c.95.1.2 66068 c.95.1.2 66069 1a05A 358 2.23e+01 1cnzA c.77.1.1 35059 1dmuA 299 2.27e+01 1dmuA c.52.1.4 33294 1c2pA 576 2.33e+01 1quvA e.8.1.4 43117 2mbr 340 2.33e+01 2mbr d.145.1.2 41749 d.146.1.1 41762 1g4uS 383 2.35e+01 1g4uS a.24.11.1 16643 c.45.1.2 32691 1i6iA 366 2.43e+01 1bg2 c.37.1.9 61844 1ltsA 185 2.45e+01 1lt3A d.166.1.1 42229 1gt91 357 2.50e+01 1jx4A 352 2.51e+01 e.8.1.5 67405 1brlA 355 2.57e+01 1lucA c.1.16.1 29553 1mpp 361 2.57e+01 2rmpA b.50.1.2 26856 1uxy 340 2.58e+01 2mbr d.145.1.2 41748 d.146.1.1 41761 1i8tA 367 2.68e+01 c.4.1.3 66094 d.16.1.7 66095 1i6wA 181 2.69e+01 1i6wA c.69.1.18 61859 1aipE 405 2.71e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ejjA 511 2.71e+01 1ejjA c.105.1.1 59422 c.76.1.3 59423 1fdd 106 2.74e+01 1a6l d.58.1.2 38960 7fd1A 106 2.79e+01 1a6l d.58.1.2 38953 1tpg 91 2.81e+01 1tpg g.3.11.1 44325 g.27.1.1 44955 1eq2A 310 2.81e+01 1eq2A c.2.1.2 29814 1tplA 426 2.81e+01 1ax4A c.67.1.2 34387 1sur 215 2.83e+01 1sur c.26.2.2 31620 1qhbA 596 2.85e+01 1qhbA a.111.1.2 19055 1kid 203 2.86e+01 1derA c.8.5.1 30771 1ep3B 262 2.89e+01 1ep2B b.43.4.2 25664 c.25.1.3 31554 1j96A 323 2.90e+01 6ldh 330 2.96e+01 3ldh c.2.1.5 30161 d.162.1.1 42128 1afwA 393 3.00e+01 1afwA c.95.1.1 35900 c.95.1.1 35901 1cqwA 295 3.02e+01 1b6g c.69.1.8 34679 1jj2F 119 3.04e+01 1ffkE d.79.3.1 63091 1ji8A 111 3.05e+01 d.203.1.1 66733 1pxtB 390 3.08e+01 1afwA c.95.1.1 35906 c.95.1.1 35907 2bce 581 3.09e+01 2bce c.69.1.1 34625 1cz1A 394 3.13e+01 1cz1A c.1.8.3 28839 1c4kA 730 3.14e+01 1ordA c.23.7.1 31273 c.67.1.5 34502 d.125.1.1 41123 1byrA 155 3.14e+01 1byrA d.136.1.1 41450 1gtmA 419 3.15e+01 1hwyA c.2.1.7 30223 c.58.1.1 33871 1uroA 367 3.18e+01 1uroA c.1.22.1 29675 1eg7A 557 3.20e+01 1eg7A c.37.1.10 32241 1eqjA 511 3.22e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1eqcA 394 3.22e+01 1cz1A c.1.8.3 28811 1sup 275 3.24e+01 1gci c.41.1.1 32510 1mh1 186 3.25e+01 1eesA c.37.1.8 32002 1bn7A 294 3.25e+01 1bn6A c.69.1.8 34677 1qcwA 410 3.30e+01 1gox c.1.4.1 28622 1ffkE 119 3.35e+01 1ffkE d.79.3.1 39812 1je0A 236 3.37e+01 c.56.2.1 66581 1erw 105 3.44e+01 1erv c.47.1.1 32745 1rvv1 154 3.45e+01 1rvv1 1rvvA 154 3.45e+01 1rvv1 c.16.1.1 30927 1ea7A 310 3.49e+01 1jpzA 473 3.51e+01 a.104.1.1 67069 1hv9A 456 3.52e+01 1fwyA b.81.1.4 28060 c.68.1.5 34518 1qciA 262 3.56e+01 1qi7A d.165.1.1 42201 4pgaA 337 3.57e+01 4pgaA c.88.1.1 35565 1d6aB 262 3.60e+01 1qi7A d.165.1.1 42198 1ji1A 637 3.64e+01 1fb6A 105 3.65e+01 1thx c.47.1.1 32739 1ccwB 483 3.70e+01 1cb7B c.1.19.2 29646 1cliA 345 3.71e+01 1cliA d.79.4.1 39816 d.139.1.1 41459 1jevA 517 3.73e+01 1jevA c.94.1.1 35720 1l0wA 580 3.73e+01 1e8gA 560 3.74e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1lh0A 213 3.74e+01 1qfeA 252 3.77e+01 1qfeA c.1.10.1 29167 1jetA 517 3.81e+01 1jevA c.94.1.1 35718 1kq3A 376 3.81e+01 e.22.1.2 68790 1d3yA 301 3.83e+01 1d3yA e.12.1.1 43252 1b0pA 1231 3.84e+01 c.36.1.4 31831 c.36.1.4 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1bu7A 455 3.89e+01 1bu7A a.104.1.1 18937 2olbA 517 3.94e+01 1jevA c.94.1.1 35721 1bjwA 382 3.94e+01 1bjwA c.67.1.1 34349 1aq0A 306 3.96e+01 1aq0A c.1.8.3 28842 1f6yA 262 4.00e+01 1f6yA c.1.21.2 29673