# 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 2pgi 445 7.65e-01 2pgi c.80.1.2 35308 1c7qA 445 7.90e-01 2pgi c.80.1.2 35307 1bouB 302 7.98e-01 1bouB c.56.6.1 33859 1jeoA 180 9.73e-01 c.80.1.3 66611 1xxbA 78 1.04e+00 1xxaA d.74.2.1 39706 1rlr 761 1.87e+00 1rlr a.98.1.1 18753 c.7.1.2 30679 1xxcA 78 2.61e+00 1xxaA d.74.2.1 39712 1pdo 135 2.82e+00 1pdo c.54.1.1 33376 1inlA 296 3.05e+00 c.66.1.17 66220 1kl7A 514 4.00e+00 1jqeA 292 4.34e+00 1chuA 540 4.45e+00 1chuA a.7.3.1 16325 c.3.1.4 30424 d.168.1.1 42307 1fohA 664 4.94e+00 1fohA c.3.1.2 30381 c.47.1.10 33078 d.16.1.2 37900 1lk5A 229 5.54e+00 1jq3A 296 5.55e+00 c.66.1.17 67079 1gt8A 1025 5.99e+00 1h7xC 1025 6.09e+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 1gt8B 1025 6.19e+00 1h7wA 1025 6.41e+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 1h7wD 1025 6.47e+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 1h7wB 1025 6.50e+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 1h7xA 1025 6.84e+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 1ek0A 170 6.96e+00 1ctqA c.37.1.8 32076 1qhhA 167 7.02e+00 1pjr c.37.1.13 32393 1gt8D 1025 7.57e+00 1h7xB 1025 7.61e+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 1lgyA 269 7.73e+00 3tgl c.69.1.17 34758 1gthD 1025 7.86e+00 1hkcA 917 8.34e+00 1qhaA c.55.1.3 33475 c.55.1.3 33476 c.55.1.3 33477 c.55.1.3 33478 1go4A 205 9.06e+00 1onrA 316 9.18e+00 1onrA c.1.10.1 29169 1gteA 1025 9.46e+00 1jgtA 513 9.65e+00 c.26.2.1 66684 d.153.1.1 66685 1fsz 372 9.77e+00 1fsz c.32.1.1 31750 d.79.2.1 39802 1qq7A 253 1.00e+01 1qq5A c.108.1.1 43329 1qq5A 253 1.02e+01 1qq5A c.108.1.1 43327 1gthB 1025 1.04e+01 1aq6A 253 1.06e+01 1qq5A c.108.1.1 43331 1l3lA 234 1.07e+01 1gthA 1025 1.07e+01 1gthC 1025 1.10e+01 1gt8C 1025 1.12e+01 3ladA 476 1.13e+01 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1jilA 420 1.26e+01 c.26.1.1 66745 1h7xD 1025 1.33e+01 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 1h8eD 482 1.34e+01 1skyE a.69.1.1 60747 b.49.1.1 60748 c.37.1.11 60749 1kaeA 434 1.37e+01 1httA 423 1.41e+01 1adjA c.51.1.1 33178 d.104.1.1 40727 1pprM 312 1.42e+01 1pprM a.131.1.1 19502 a.131.1.1 19503 1c7nA 399 1.43e+01 1d2fA c.67.1.3 34413 1kmmA 424 1.52e+01 1adjA c.51.1.1 33174 d.104.1.1 40723 1e79D 482 1.54e+01 1skyE a.69.1.1 18272 b.49.1.1 26437 c.37.1.11 32317 1hrdA 449 1.55e+01 1k89 c.2.1.7 30219 c.58.1.1 33867 1hkbA 917 1.57e+01 1qhaA c.55.1.3 33479 c.55.1.3 33480 c.55.1.3 33481 c.55.1.3 33482 1i6wA 181 1.57e+01 1i6wA c.69.1.18 61859 1i50K 120 1.57e+01 d.74.3.2 61765 1bgvA 449 1.57e+01 1k89 c.2.1.7 30217 c.58.1.1 33865 1dn1A 594 1.59e+01 1dn1A e.25.1.1 43357 1an9A 340 1.60e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1k75A 434 1.62e+01 c.82.1.2 68253 1qhaA 917 1.65e+01 1qhaA c.55.1.3 33467 c.55.1.3 33468 c.55.1.3 33469 c.55.1.3 33470 1c1dA 355 1.67e+01 1bw9A c.2.1.7 30270 c.58.1.1 33918 1hnnA 282 1.68e+01 c.66.1.15 65895 1c8bA 371 1.71e+01 1c8bA c.56.1.2 59082 1ypcI 64 1.76e+01 2sniI d.40.1.1 38570 1czaN 917 1.80e+01 1qhaA c.55.1.3 33463 c.55.1.3 33464 c.55.1.3 33465 c.55.1.3 33466 9ldtA 332 1.81e+01 3ldh c.2.1.5 30154 d.162.1.1 42121 1aa8A 347 1.84e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1bw9A 356 1.89e+01 1bw9A c.2.1.7 30274 c.58.1.1 33922 1lqtA 456 1.90e+01 1dgkN 917 1.92e+01 1qhaA c.55.1.3 33487 c.55.1.3 33488 c.55.1.3 33489 c.55.1.3 33490 1a4uA 254 1.93e+01 1b16A c.2.1.2 29878 1qmgA 524 1.95e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1yasA 257 1.95e+01 1qj4A c.69.1.20 34801 1ecfA 504 1.98e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1f5sA 211 2.04e+01 1f5sA c.108.1.4 59656 1j97A 211 2.04e+01 1f5sA c.108.1.4 62753 1fd9A 213 2.05e+01 1fd9A d.26.1.1 59771 1g9mG 321 2.05e+01 1gc1G d.172.1.1 42492 1fj2A 232 2.06e+01 1auoA c.69.1.14 34720 1qr6A 584 2.09e+01 1qr6A c.2.1.7 30293 c.58.1.3 33941 3tgl 269 2.11e+01 3tgl c.69.1.17 34733 1l7mA 211 2.15e+01 1dujA 187 2.18e+01 1dujA d.135.1.1 41449 1dixA 208 2.18e+01 1bk7A d.124.1.1 41122 1ecfB 504 2.19e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1gpjA 404 2.22e+01 a.151.1.1 65451 c.2.1.10 65452 d.58.39.1 65453 1ec7A 446 2.32e+01 1bqg c.1.11.2 29218 d.54.1.1 38862 1gteD 1025 2.33e+01 1yveJ 524 2.35e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 1dcfA 136 2.36e+01 1dcfA c.23.1.2 31124 1b16A 254 2.43e+01 1b16A c.2.1.2 29875 1jjyA 636 2.44e+01 1jjyA e.26.1.2 63141 1k89 449 2.44e+01 1k89 c.2.1.7 30218 c.58.1.1 33866 1be3B 439 2.46e+01 1be3B d.185.1.1 58952 d.185.1.1 58953 1trb 320 2.53e+01 1trb c.3.1.5 30529 c.3.1.5 30530 1eudA 311 2.53e+01 2scuA c.2.1.8 30312 c.23.4.1 31140 1dptA 117 2.54e+01 1dptA d.80.1.3 39862 1xxaA 78 2.63e+01 1xxaA d.74.2.1 39700 1qj4A 257 2.67e+01 1qj4A c.69.1.20 34796 1ehyA 294 2.75e+01 1ehyA c.69.1.11 34693 1l9fA 389 2.78e+01 1f3lA 321 2.85e+01 1g6q2 c.66.1.6 59630 1ca9A 192 2.87e+01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1cjcA 460 2.91e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1ek6A 348 2.95e+01 1xel c.2.1.2 29800 1dd3A 128 2.97e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1yveI 524 3.00e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 4ts1A 319 3.01e+01 2ts1 c.26.1.1 31565 1bd3A 243 3.01e+01 1bd3A c.61.1.1 34098 1agx 331 3.16e+01 4pgaA c.88.1.1 35564 1ebbA 202 3.24e+01 c.60.1.1 64900 1nulA 152 3.31e+01 1nulA c.61.1.1 34011 1ktgA 138 3.35e+01 3grs 478 3.38e+01 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1fg7A 356 3.39e+01 1gewA c.67.1.1 59819 2chsA 127 3.39e+01 2chsA d.79.1.2 39764 4gr1 478 3.40e+01 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1fl2A 310 3.42e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1f4kA 122 3.54e+01 1bm9A a.4.5.7 59646 1i3kA 348 3.54e+01 1xel c.2.1.2 61595 1kq3A 376 3.59e+01 e.22.1.2 68790 1ndh 272 3.61e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1khbA 625 3.70e+01 c.91.1.1 68606 c.109.1.1 68607 1d9tA 289 3.73e+01 1deaA c.35.1.1 31767 1kt9A 138 3.74e+01 1el5A 389 3.78e+01 1b3mA c.3.1.2 30369 d.16.1.3 37937 2ts1 419 3.81e+01 2ts1 c.26.1.1 31564 1lkzA 219 3.82e+01 1bksB 397 3.87e+01 2tysB c.79.1.1 35285 1bjoA 360 3.88e+01 1bjnA c.67.1.4 34471 1e58A 249 3.89e+01 1qhfA c.60.1.1 59262 1f6dA 376 3.95e+01 1f6dA c.87.1.3 35467