# List of top-scoring protein chains for t2k-100-30-alpha-scores 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 1rz3A 201 6.37e-01 c.37.1.6 -7048 1dxgA 36 8.70e-01 1dxgA g.41.5.2 45247 1taq 832 1.29e+00 1taq a.60.7.1 18082 c.120.1.2 33352 c.55.3.5 33698 e.8.1.1 42991 1h3gA 601 1.33e+00 b.1.18.2 -2725 b.71.1.1 -4653 c.1.8.1 -5277 1hsbA 270 2.49e+00 1agdA b.1.1.2 20736 d.19.1.1 38257 1s48A 609 2.52e+00 e.8.1.4 -11955 1fc2C 58 2.57e+00 1fc2C a.8.1.1 16345 1uc2A 481 2.59e+00 unknown_sccs -11725 1mexL 213 2.67e+00 b.1.1.1 -2124 b.1.1.2 -2352 1na3A 91 2.83e+00 k.38.1.1 85481 1jwyB 315 2.96e+00 c.37.1.8 67401 1dgnA 89 3.13e+00 1dgnA a.77.1.3 18436 1ovaA 386 3.19e+00 1ovaA e.1.1.1 42619 12e8L 214 3.38e+00 8fabA b.1.1.1 20268 b.1.1.2 21268 1fwxA 595 3.46e+00 b.6.1.4 60069 b.69.3.1 60070 1rybA 212 3.51e+00 c.56.3.1 -7858 1kqfB 294 3.60e+00 d.58.1.5 75900 f.23.22.1 75901 1uvqB 198 3.63e+00 b.1.1.2 -2659 d.19.1.1 -9348 1bvzA 585 4.11e+00 1bvzA b.1.18.2 21856 b.71.1.1 27783 c.1.8.1 28770 1yge 839 4.15e+00 1yge a.119.1.1 19234 b.12.1.1 23634 1d5mB 192 4.21e+00 1iakB b.1.1.2 21618 d.19.1.1 38192 1upaA 573 4.30e+00 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1ji2A 585 4.44e+00 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1dkzA 219 4.55e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1rurL 217 4.62e+00 b.1.1.1 -2094 b.1.1.2 -2389 1dkxA 219 4.64e+00 1dkzA unknown_sccs -446 unknown_sccs -3061 1forL 210 4.74e+00 8fabA b.1.1.1 19988 b.1.1.2 21044 1a3lL 217 4.76e+00 8fabA b.1.1.1 20240 b.1.1.2 21252 1ggrA 168 4.86e+00 1gpr b.84.3.1 28279 2fbjL 213 5.05e+00 8fabA b.1.1.1 19850 b.1.1.2 20954 1pcfA 66 5.10e+00 1pcfA d.18.1.1 38142 1f8nA 839 5.16e+00 1yge a.119.1.1 59703 b.12.1.1 59704 1rhfA 182 5.40e+00 b.1.1.1 -2335 b.1.1.4 -2684 1mlbA 214 5.68e+00 8fabA b.1.1.1 20050 b.1.1.2 21092 1c0pA 363 5.69e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1mjuL 219 5.70e+00 b.1.1.1 -2083 b.1.1.2 -2360 1f5nA 592 6.14e+00 1dg3A a.114.1.1 19077 c.37.1.8 32152 1dqqA 214 6.25e+00 8fabA b.1.1.1 20420 b.1.1.2 21390 1e6oL 212 6.39e+00 32c2A b.1.1.1 20494 b.1.1.2 21452 1tetL 216 6.48e+00 32c2A b.1.1.1 19902 b.1.1.2 20996 1au1A 166 6.48e+00 1ifa a.26.1.3 16889 1aohA 147 6.91e+00 1aohA b.2.2.2 22401 1jx2B 315 7.14e+00 c.37.1.8 67404 1uhgA 385 7.17e+00 e.1.1.1 88491 1qauA 112 7.19e+00 1qauA b.36.1.1 24779 1fgqA 839 7.39e+00 1yge a.119.1.1 59826 b.12.1.1 59827 1q9rA 219 7.62e+00 b.1.1.1 -2109 b.1.1.2 -2375 1dg3A 592 7.83e+00 1dg3A a.114.1.1 19078 c.37.1.8 32153 1cqwA 295 8.02e+00 1b6g c.69.1.8 34679 1e9xA 455 8.04e+00 1ea1A a.104.1.1 18969 1uypA 432 8.19e+00 unknown_sccs -3480 unknown_sccs -4554 1ospL 214 8.67e+00 32c2A b.1.1.1 20116 b.1.1.2 21146 1q72L 218 8.68e+00 b.1.1.1 -2071 b.1.1.2 -2347 1hyxL 216 8.92e+00 8fabA b.1.1.1 20166 b.1.1.2 21190 1h5zA 455 8.93e+00 a.104.1.1 -1456 1oe9A 795 9.08e+00 b.34.3.1 -3581 c.37.1.9 -7103 1gehA 444 9.32e+00 c.1.14.1 65181 d.58.9.1 65182 1qavB 115 9.40e+00 1qauA b.36.1.1 24780 1eca 136 9.57e+00 1flp a.1.1.2 15209 1eco 136 9.62e+00 1flp a.1.1.2 15208 1aye 401 9.67e+00 1aye c.56.5.1 33824 d.58.3.1 39065 1bn6A 294 9.90e+00 1bn6A c.69.1.8 34678 1sacA 204 1.02e+01 1sacA b.29.1.5 24237 1d8hA 311 1.03e+01 1d8iA d.63.1.1 39544 1ecd 136 1.05e+01 1flp a.1.1.2 15211 1utwA 432 1.05e+01 1m42A 102 1.05e+01 b.1.18.17 78597 2sxl 88 1.05e+01 1b7fA d.58.7.1 39179 1sfcE 96 1.05e+01 1sfcE h.1.15.1 45647 1f3z 161 1.07e+01 1gpr b.84.3.1 28273 1b4uA 139 1.07e+01 1bouA a.88.1.1 18523 1bpoA 494 1.09e+01 1bpoA a.118.1.4 19143 b.69.6.1 27670 1pdgC 109 1.10e+01 1pdgA g.17.1.1 44750 1kobA 387 1.14e+01 1tkiA d.144.1.7 41640 1thg 544 1.17e+01 1thg c.69.1.17 34763 1flrL 219 1.17e+01 8fabA b.1.1.1 19904 b.1.1.2 20998 1eta1 127 1.18e+01 1etb1 1etb1 127 1.20e+01 1etb1 1ju3A 583 1.20e+01 b.18.1.13 67300 c.69.1.21 67301 7catA 506 1.21e+01 1cf9A e.5.1.1 42781 1deeG 54 1.24e+01 1fc2C a.8.1.1 16343 1ihgA 370 1.24e+01 2cpl a.118.8.1 62380 b.62.1.1 62381 1qniA 581 1.26e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1em2A 229 1.26e+01 1em2A d.129.3.2 41321 1mr7A 209 1.28e+01 b.81.1.3 -4798 1rypE 242 1.30e+01 1rypE d.153.1.4 41936 1dp0A 1023 1.30e+01 b.1.4.1 22073 b.1.4.1 22074 b.18.1.5 23722 b.30.5.1 24346 c.1.8.3 28845 1fs7A 485 1.32e+01 1qdbA a.138.1.3 19691 1nlbL 220 1.34e+01 b.1.1.1 80623 b.1.1.2 80624 32c2A 217 1.34e+01 32c2A b.1.1.1 20438 b.1.1.2 21404 1ea1A 455 1.35e+01 1ea1A a.104.1.1 18970 1lnh 857 1.37e+01 1yge a.119.1.1 19237 b.12.1.1 23637 1ttbA 127 1.40e+01 1etb1 b.3.4.1 22543 1bouA 139 1.41e+01 1bouA a.88.1.1 18521 1mcpL 220 1.41e+01 8fabA b.1.1.1 19858 b.1.1.2 20958 1dbqA 289 1.42e+01 1qpzA c.93.1.1 35666 1r6lA 239 1.43e+01 d.14.1.4 -9057 d.101.1.1 -10747 1soxA 466 1.45e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1jhnA 424 1.46e+01 b.29.1.12 70060 b.104.1.1 66722 1vjnA 220 1.48e+01 unknown_sccs -11458 1nsf 273 1.50e+01 1d2nA c.37.1.20 32429 1sfcA 96 1.51e+01 1sfcA h.1.15.1 45643 1bglA 1023 1.53e+01 1bglA b.1.4.1 22097 b.1.4.1 22098 b.18.1.5 23734 b.30.5.1 24358 c.1.8.3 28857 1tmcA 175 1.56e+01 1agdA d.19.1.1 38258 1jz8A 1023 1.59e+01 b.1.4.1 67830 b.1.4.1 67831 b.18.1.5 67832 b.30.5.1 67833 c.1.8.3 67834 1o54A 277 1.63e+01 c.66.1.13 -8095 1rovA 857 1.65e+01 a.119.1.1 -1656 b.12.1.1 -3034 1f41A 127 1.65e+01 1etb1 b.3.4.1 22539 1qdbA 473 1.67e+01 1qdbA a.138.1.3 19688 1a6q 382 1.71e+01 1a6q a.159.1.1 75801 d.219.1.1 75802 1omwA 689 1.71e+01 a.91.1.1 87086 b.55.1.1 87087 d.144.1.7 87088 1pytA 94 1.73e+01 1pytA d.58.3.1 39064 1fp5A 222 1.76e+01 1f6aB b.1.1.2 21530 b.1.1.2 21531 1d2nA 272 1.79e+01 1d2nA c.37.1.20 32428 2thiA 379 1.80e+01 2thiA c.94.1.1 35794 1a8q 274 1.82e+01 1brt c.69.1.12 34702 1bn7A 294 1.82e+01 1bn6A c.69.1.8 34677 2pabA 127 1.94e+01 1etb1 b.3.4.1 22597 1f56A 91 1.97e+01 2cbp b.6.1.1 22896 1o0pA 104 2.01e+01 d.58.7.1 86535 1cfyA 143 2.01e+01 1cof d.109.1.2 40858 1oz2A 331 2.04e+01 b.34.9.3 -3597 b.34.9.3 -3598 b.34.9.3 -3599 1f86A 115 2.04e+01 1etb1 b.3.4.1 59689 1budA 197 2.05e+01 1atlA d.92.1.9 40328 1udsA 255 2.13e+01 d.14.1.4 -9055 d.101.1.1 -10745 1fqtA 112 2.14e+01 1fqtA b.33.1.1 24441 1iw7C 1119 2.17e+01 e.29.1.1 71474 1n1mA 728 2.18e+01 b.70.3.1 79815 c.69.1.24 79816 1ibjA 464 2.19e+01 1ibjA c.67.1.3 62162 1j2zA 270 2.20e+01 b.81.1.1 -4797 1glaF 168 2.23e+01 1gpr b.84.3.1 28274 1jysA 242 2.25e+01 c.56.2.1 77216 1gweA 503 2.25e+01 e.5.1.1 70667 1fchA 368 2.28e+01 1fchA a.118.8.1 19212 1ew4A 106 2.28e+01 1ew4A d.82.2.1 40023 1b43A 340 2.30e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 3thiA 371 2.31e+01 2thiA c.94.1.1 35792 1uqtA 482 2.31e+01 c.87.1.6 -8593 1lk9A 448 2.32e+01 c.67.1.1 78057 1mwyA 73 2.33e+01 d.58.17.1 79616 1d8iA 311 2.36e+01 1d8iA d.63.1.1 39541 1q8yA 373 2.40e+01 d.144.1.7 -11319 1qwlA 505 2.42e+01 e.5.1.1 -11823 1pdgA 109 2.46e+01 1pdgA g.17.1.1 44748 1a7tA 232 2.47e+01 1a7tA d.157.1.1 42041 1jnrA 643 2.48e+01 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1moq 368 2.51e+01 1moq c.80.1.1 35302 1h8eA 510 2.52e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1bvp1 349 2.53e+01 1bvp1 1ab4 477 2.55e+01 1ab4 e.11.1.1 43251 1keeE 1073 2.59e+01 a.92.1.1 68508 c.24.1.1 68509 c.30.1.1 68510 c.30.1.1 68511 d.142.1.2 68512 d.142.1.2 68513 1b64 91 2.59e+01 1b64 d.58.12.1 39306 1obbA 480 2.60e+01 c.2.1.5 86760 d.162.1.2 86761 1aohB 147 2.67e+01 1aohA b.2.2.2 22402 1ncwL 219 2.69e+01 b.1.1.1 85557 b.1.1.2 85558 1pzgA 331 2.70e+01 c.2.1.5 -5931 d.162.1.1 -11498 1khbA 625 2.71e+01 c.91.1.1 68606 c.109.1.1 68607 1hs6A 611 2.71e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1g0uE 234 2.73e+01 d.153.1.4 41950 1bmfA 510 2.73e+01 1skyB a.69.1.1 18281 b.49.1.1 26446 c.37.1.11 32326 1cauA 181 2.75e+01 1dgwA b.82.1.2 28102 1q5dA 419 2.77e+01 a.104.1.1 -1454 1emvB 134 2.80e+01 1bxiB d.4.1.1 37135 1b8qA 127 2.80e+01 1qauA b.36.1.1 24781 1kk6A 209 2.83e+01 b.81.1.3 68657 1q8iA 783 2.85e+01 c.55.3.5 -7635 e.8.1.1 -11885 2iadB 205 2.89e+01 1iakB b.1.1.2 21640 d.19.1.1 38214 1hbzA 498 2.91e+01 1cf9A e.5.1.1 60937 1c3oA 1073 2.93e+01 1c3oA a.92.1.1 18562 c.24.1.1 31491 c.30.1.1 31681 c.30.1.1 31682 d.142.1.2 41526 d.142.1.2 41527 1np3A 338 2.97e+01 a.100.1.2 85946 c.2.1.6 85947 1bteA 97 2.99e+01 1bteA g.7.1.3 44463 1fr2B 134 3.02e+01 d.4.1.1 83257 1zmeC 70 3.06e+01 1zmeC g.38.1.1 45081 h.1.3.1 45514 1uquA 482 3.11e+01 c.87.1.6 -8591 1q38A 89 3.14e+01 b.1.2.1 -2765 1n8vA 112 3.15e+01 unknown_sccs 85457 1dq3A 454 3.16e+01 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1ux5A 411 3.17e+01 unknown_sccs -1768 4ts1A 319 3.18e+01 2ts1 c.26.1.1 31565 1dghB 498 3.20e+01 1cf9A e.5.1.1 42791 1jmuB 666 3.22e+01 1n40A 396 3.24e+01 a.104.1.1 79977 1aoeA 192 3.27e+01 1aoeA c.71.1.1 34923 1ks2A 219 3.27e+01 unknown_sccs 72908 d.58.40.1 72909 1e79A 510 3.28e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1art 396 3.30e+01 1ajsA c.67.1.1 34285 1bxiB 134 3.32e+01 1bxiB d.4.1.1 37136 1cs0C 1073 3.35e+01 a.92.1.1 18559 c.24.1.1 31488 c.30.1.1 31675 c.30.1.1 31676 d.142.1.2 41520 d.142.1.2 41521 1gqpA 221 3.38e+01 b.18.1.9 70372 1dgwA 178 3.40e+01 1dgwA b.82.1.2 28090 1r7aA 504 3.42e+01 b.71.1.1 -4664 c.1.8.1 -5283 1p5sA 203 3.42e+01 a.40.1.1 -900 2mllB 255 3.45e+01 1abrB b.42.2.1 25567 b.42.2.1 25568 1m6kA 251 3.45e+01 e.3.1.1 78695 1c3oC 1073 3.46e+01 a.92.1.1 18563 c.24.1.1 31492 c.30.1.1 31683 c.30.1.1 31684 d.142.1.2 41528 d.142.1.2 41529 1bdc 60 3.49e+01 1fc2C a.8.1.1 16350 1ep3A 311 3.50e+01 2dorA c.1.4.1 28597 1cof 143 3.50e+01 1cof d.109.1.2 40860 1utcA 363 3.52e+01 a.118.1.4 -1568 b.69.6.1 -4612 1itkA 731 3.55e+01 a.93.1.3 71417 a.93.1.3 71418 1bfeA 119 3.55e+01 1pdr b.36.1.1 24775 1keeC 1073 3.58e+01 a.92.1.1 68500 c.24.1.1 68501 c.30.1.1 68502 c.30.1.1 68503 d.142.1.2 68504 d.142.1.2 68505 1hl8A 449 3.60e+01 unknown_sccs -4690 unknown_sccs -5361 1olrA 224 3.66e+01 b.29.1.11 -3489 1qd6C 240 3.66e+01 1qd5A 2cavA 445 3.68e+01 1dgwA b.82.1.2 28094 b.82.1.2 28095 1c3oE 1073 3.69e+01 a.92.1.1 18564 c.24.1.1 31493 c.30.1.1 31685 c.30.1.1 31686 d.142.1.2 41530 d.142.1.2 41531 1rypF 233 3.69e+01 1rypF d.153.1.4 41937 1elwA 118 3.72e+01 1a17 a.118.8.1 19207 1hkhA 279 3.78e+01 c.69.1.12 -8342 1m2tB 263 3.78e+01 b.42.2.1 84762 b.42.2.1 84763 1jdbB 1073 3.80e+01 a.92.1.1 18574 c.24.1.1 31503 c.30.1.1 31705 c.30.1.1 31706 d.142.1.2 41550 d.142.1.2 41551 1a36A 592 3.80e+01 1a36A a.2.8.1 15715 d.163.1.2 42173 e.15.1.1 43266 1ii6A 368 3.84e+01 1bg2 c.37.1.9 62413 1edoA 244 3.87e+01 1ybvA c.2.1.2 29896 1js3A 486 3.89e+01 c.67.1.6 67215 1jtaA 361 3.97e+01 b.80.1.1 71859 1oe8A 211 3.97e+01 a.45.1.1 86905 c.47.1.5 86906 1be9A 119 3.97e+01 1pdr b.36.1.1 24774 1pe9A 361 3.99e+01 b.80.1.1 -4765