# 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 1nf2A 268 3.23e-01 c.108.1.10 -6842 1gmxA 108 7.85e-01 c.46.1.3 65355 1lfpA 249 8.03e-01 e.39.1.1 73885 1ju5A 109 8.51e-01 d.93.1.1 77173 1okrA 123 1.04e+00 unknown_sccs -235 1mrzA 293 1.11e+00 b.43.5.1 -4048 c.26.1.3 -6616 2prgA 271 1.40e+00 2prgA a.123.1.1 19311 1ab9C 97 1.46e+00 5ptp 1gg6C 97 1.50e+00 5ptp 1fm9D 272 1.65e+00 2prgA a.123.1.1 19313 1mtnC 97 1.73e+00 5ptp 1prgA 270 1.81e+00 2prgA a.123.1.1 19314 1m2dA 110 2.01e+00 c.47.1.11 78476 1m2aA 110 2.03e+00 c.47.1.11 78472 1gn0A 108 2.06e+00 c.46.1.3 65358 1m2bA 110 2.09e+00 c.47.1.11 78474 1dbtA 239 2.74e+00 1dbtA c.1.2.3 28539 1qv9A 283 2.81e+00 unknown_sccs -6888 1rvgA 305 2.95e+00 c.1.10.2 -5500 1i8xA 30 3.04e+00 g.3.16.1 71132 1qapA 296 3.12e+00 1qpoA c.1.17.1 29559 d.41.2.1 38595 1k2i1 245 3.12e+00 2cgaA 245 3.54e+00 5ptp b.47.1.2 26028 1ekbB 235 3.93e+00 5ptp b.47.1.2 26282 1m6jA 261 3.94e+00 c.1.1.1 78693 1xyzA 347 4.45e+00 1taxA c.1.8.3 28804 1oi7A 288 4.91e+00 c.2.1.8 87049 c.23.4.1 87050 1qpsA 261 5.37e+00 1ckqA c.52.1.1 33234 1qgmA 30 5.41e+00 g.3.16.1 44380 1f37A 110 5.55e+00 1f37A c.47.1.11 33088 1fiqB 350 5.66e+00 1fiqB d.87.2.1 40229 d.145.1.3 41760 1bj4A 470 6.09e+00 1bj4A c.67.1.4 34479 7reqB 637 6.10e+00 1reqB c.1.19.1 29617 c.23.6.1 31244 1tqnA 486 6.12e+00 1lg7A 182 6.27e+00 d.213.1.1 73888 1p42A 270 6.29e+00 d.14.1.7 87754 d.14.1.7 87755 1akeA 214 6.90e+00 1zin c.37.1.1 31905 g.41.2.1 45185 1f3uB 171 6.98e+00 1f3uB b.65.1.1 27525 1l6oA 95 7.17e+00 b.36.1.1 84534 1jj7A 260 7.27e+00 c.37.1.12 63114 1cc8A 73 7.69e+00 1cc8A d.58.17.1 39343 1ng2A 193 8.14e+00 b.34.2.1 85660 b.34.2.1 85661 1liiA 363 8.25e+00 c.72.1.1 73921 1mo2A 294 8.66e+00 c.69.1.22 79331 1qavA 90 9.09e+00 1qauA b.36.1.1 24777 1ro0A 216 9.13e+00 unknown_sccs -11390 1fzrA 138 9.14e+00 1fzrA c.52.1.17 33336 1fd8A 73 9.36e+00 1cc8A d.58.17.1 59770 1im5A 180 9.44e+00 unknown_sccs 66211 2wsyA 268 9.53e+00 2tysA c.1.2.4 28588 1gh2A 107 9.60e+00 1erv c.47.1.1 60515 1jakA 512 9.78e+00 c.1.8.6 66472 d.92.2.1 66473 1dgmA 363 9.87e+00 1bx4A c.72.1.1 34936 1hp4A 512 9.87e+00 1hp4A c.1.8.6 61111 d.92.2.1 61112 1psuA 140 9.89e+00 d.38.1.5 88285 1hp5A 512 9.91e+00 1hp4A c.1.8.6 61113 d.92.2.1 61114 1ov3A 138 1.01e+01 b.34.2.1 87451 b.34.2.1 87452 1jj2W 91 1.03e+01 1ffkU d.29.1.1 63108 1eblB 317 1.04e+01 1hn9A c.95.1.1 35975 c.95.1.1 35976 1hn9A 317 1.05e+01 1hn9A c.95.1.1 35977 c.95.1.1 35978 1s72X 92 1.06e+01 1qumA 285 1.07e+01 1qumA c.1.15.1 29393 1se0A 116 1.08e+01 g.52.1.1 -12841 1hnjA 317 1.09e+01 1hn9A c.95.1.1 35969 c.95.1.1 35970 1reqB 637 1.09e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1k7jA 206 1.10e+01 d.115.1.1 72103 1qpbA 563 1.11e+01 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 5croA 66 1.16e+01 1orc a.35.1.2 17044 1geqA 248 1.18e+01 2tysA c.1.2.4 28589 1qhhA 167 1.19e+01 1pjr c.37.1.19 32393 2occB 227 1.21e+01 2occB b.6.1.2 23027 f.17.2.1 43519 1ejdA 419 1.27e+01 1uae d.68.2.2 39576 1eblA 317 1.28e+01 1hn9A c.95.1.1 35973 c.95.1.1 35974 1j1yA 136 1.30e+01 d.38.1.5 -9671 1m7sA 484 1.31e+01 e.5.1.1 74574 1lo7A 141 1.32e+01 d.38.1.1 74144 1anf 370 1.35e+01 4mbp c.94.1.1 35776 1jroB 777 1.39e+01 d.41.1.1 67141 d.133.1.1 67142 1pkn 530 1.42e+01 1a49A b.58.1.1 27042 c.1.12.1 29271 c.49.1.1 33125 1pvdA 537 1.45e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1i60A 278 1.48e+01 c.1.15.4 71118 1jscA 630 1.49e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226 1ro2A 216 1.49e+01 unknown_sccs -11391 1qopA 268 1.50e+01 2tysA c.1.2.4 28570 1pydA 556 1.51e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1etc 110 1.52e+01 1awcA a.4.5.21 16162 1bvqA 141 1.55e+01 1bvqA d.38.1.1 38542 1omhA 293 1.57e+01 unknown_sccs -10527 1kk9A 221 1.58e+01 d.115.1.1 77432 1qgdA 662 1.58e+01 c.36.1.6 88367 c.36.1.10 88368 c.48.1.1 88369 1copD 66 1.59e+01 1orc a.35.1.2 17058 1kq3A 376 1.60e+01 e.22.1.2 68790 1i1qB 192 1.60e+01 1qdlB c.23.16.1 61544 1f83A 425 1.61e+01 1f82A d.92.1.7 40306 2tysA 268 1.61e+01 2tysA c.1.2.4 28572 1reqD 637 1.63e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1ygs 234 1.64e+01 1ygs b.26.1.1 23907 1b7bA 310 1.66e+01 1b7bA c.73.1.1 34963 1m0dA 138 1.69e+01 c.52.1.17 74354 1vjqA 79 1.73e+01 unknown_sccs -13478 1pht 85 1.74e+01 1ckaA b.34.2.1 24483 1f82A 424 1.78e+01 1f82A d.92.1.7 40307 1iv8A 720 1.79e+01 b.71.1.1 76842 c.1.8.1 76843 1hylA 230 1.81e+01 5ptp b.47.1.2 26076 1qa7A 217 1.81e+01 1havA b.47.1.4 26425 1itzA 675 1.82e+01 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1devB 41 1.84e+01 1devB j.64.1.1 46354 1vizA 240 1.85e+01 c.1.4.1 -5212 1odkA 235 1.87e+01 c.56.2.1 86863 1hnoA 280 1.88e+01 1hnoA c.14.1.3 61095 1bksA 268 1.89e+01 2tysA c.1.2.4 28585 1dgsA 667 1.90e+01 1dgsA a.60.2.2 17963 b.40.4.6 25365 d.142.2.2 41581 1orc 71 2.00e+01 1orc a.35.1.2 17054 1qtwA 285 2.01e+01 1qumA c.1.15.1 29392 1ae7 119 2.01e+01 1poa a.133.1.2 19553 1hnuA 280 2.07e+01 1hnoA c.14.1.3 61096 1ica 40 2.09e+01 1ica g.3.7.4 44173 1ko7A 314 2.11e+01 c.98.2.1 72797 c.91.1.2 72798 1qrzA 246 2.13e+01 5ptp b.47.1.2 26366 1rf6A 427 2.24e+01 d.68.2.2 -10314 1l5zA 155 2.24e+01 c.23.1.1 77722 2aaiB 262 2.28e+01 1abrB b.42.2.1 25561 b.42.2.1 25562 1t5hX 504 2.28e+01 1v97A 1332 2.31e+01 2napA 723 2.32e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1pjhA 280 2.34e+01 c.14.1.3 -6229 1dv1A 449 2.35e+01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1qwgA 251 2.39e+01 unknown_sccs -5678 1rxwA 336 2.46e+01 a.60.7.1 -1041 c.120.1.2 -6680 1jj2Y 73 2.48e+01 1ffkW g.41.8.1 63110 1aboA 62 2.52e+01 1bbzA b.34.2.1 24474 1ipwA 175 2.56e+01 2prd b.40.5.1 25427 1bbzA 58 2.56e+01 1bbzA b.34.2.1 24477 1iezA 217 2.64e+01 d.115.1.2 66129 1jo0A 98 2.64e+01 d.68.4.1 77140 1f8fA 371 2.66e+01 b.35.1.2 83246 c.2.1.1 83247 1bh5A 183 2.67e+01 1qipA d.32.1.1 38476 1eljA 381 2.67e+01 4mbp c.94.1.1 35791 1cb0A 283 2.68e+01 1cb0A c.56.2.1 33790 1fxkA 107 2.70e+01 1fxkA a.2.5.1 15703 1fo4A 1332 2.73e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1fxkB 109 2.74e+01 1fxkA a.2.5.1 15704 1qkkA 155 2.74e+01 1dbwA c.23.1.1 31104 1o4uA 285 2.74e+01 c.1.17.1 86624 d.41.2.1 86625 1kyaA 499 2.79e+01 b.6.1.3 73203 b.6.1.3 73204 b.6.1.3 73205 1bbzE 58 2.80e+01 1bbzA b.34.2.1 24479 1ni4B 341 2.87e+01 c.36.1.7 85729 c.48.1.2 85730 1ee8A 266 2.87e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 1v95A 130 2.90e+01 1rv3A 483 2.91e+01 2tmdA 729 2.98e+01 2tmdA c.1.4.1 28616 c.3.1.1 30317 c.4.1.1 30602 1djnA 729 2.99e+01 2tmdA c.1.4.1 28612 c.3.1.1 30313 c.4.1.1 30598 1o94A 729 3.00e+01 c.1.4.1 81200 c.3.1.1 81201 c.4.1.1 81202 1v2dA 381 3.01e+01 1fjhB 257 3.01e+01 1fjhB c.2.1.2 29871 1e4yA 214 3.02e+01 1zin c.37.1.1 31901 g.41.2.1 45181 1nbaA 264 3.04e+01 1nbaA unknown_sccs 31753 1yacA 208 3.07e+01 1yacA unknown_sccs 31757 1v54B 227 3.07e+01 b.6.1.2 -2946 f.17.2.1 -12243 1b43A 340 3.11e+01 1a76 a.60.7.1 18092 c.120.1.2 33362 2irfG 113 3.14e+01 2irfG a.4.5.23 16185 1ltoA 245 3.15e+01 b.47.1.2 84707 1glv 303 3.19e+01 1gsa c.30.1.3 31721 d.142.1.1 41480 1gsa 316 3.22e+01 1gsa c.30.1.3 31718 d.142.1.1 41477 2liv 344 3.23e+01 2liv c.93.1.1 35708 1g6sA 427 3.27e+01 1eps d.68.2.2 39584 1upaA 573 3.28e+01 c.31.1.3 -6745 c.36.1.5 -6903 c.36.1.9 -6943 1avaA 403 3.33e+01 1jdc b.71.1.1 27797 c.1.8.1 28784 1ji0A 240 3.34e+01 c.37.1.12 71665 1sd4A 126 3.38e+01 1b7gO 340 3.43e+01 1b7gO c.2.1.3 29992 d.81.1.1 39907 1rlzA 369 3.43e+01 1qdeA 224 3.46e+01 1qvaA c.37.1.19 32410 1s4qA 228 3.47e+01 c.37.1.1 -6975 1jd1A 129 3.50e+01 1qu9A d.79.1.1 62890 1e0tA 470 3.51e+01 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1fftB 315 3.54e+01 1cyx b.6.1.2 23025 f.17.2.1 43628 1iz7A 295 3.54e+01 c.69.1.8 76982 1qamA 244 3.61e+01 2ercA c.66.1.24 34220 1cv2A 296 3.64e+01 1bn6A c.69.1.8 34680 1t9kA 347 3.64e+01 1ti6A 875 3.68e+01 1a49A 530 3.71e+01 1a49A b.58.1.1 27026 c.1.12.1 29255 c.49.1.1 33109 1umuA 116 3.74e+01 1umuA b.87.1.1 28382 1uae 419 3.82e+01 1uae d.68.2.2 39574 1iyxA 432 3.84e+01 c.1.11.1 83815 d.54.1.1 83816 1jsrA 327 3.87e+01 c.88.1.1 67237 1jhjA 171 3.87e+01 b.18.1.9 66714 1o7jA 327 3.88e+01 c.88.1.1 81140 1epuA 591 3.89e+01 1dn1A e.25.1.1 43358 1bi0 226 3.90e+01 1bi0 a.4.5.24 16202 a.76.1.1 18408 b.34.1.2 24453 1g2iA 166 3.97e+01 1g2iA c.23.16.2 31438 1h9sA 140 3.97e+01 1b9mA b.40.6.2 60843 b.40.6.2 60844