# 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 1rlhA 173 6.09e-29 unknown_sccs -10786 1vhmA 195 8.97e-01 d.110.2.1 -10828 1efvA 315 1.21e+00 1efvA c.26.2.3 31633 c.31.1.2 31728 1ttzA 87 1.88e+00 1qr7A 350 2.28e+00 1qr7A c.1.10.4 29191 1q52A 314 2.98e+00 c.14.1.3 -6246 1gp6A 356 3.17e+00 b.82.2.1 65441 1gp4A 356 3.19e+00 b.82.2.1 65439 1cjaA 342 4.39e+00 1cjaA d.144.1.3 41708 1m3uA 264 4.46e+00 c.1.12.8 84784 1rj9A 304 4.78e+00 a.24.13.1 -631 c.37.1.10 -7129 1gteD 1025 5.52e+00 a.1.2.2 70455 c.1.4.1 70456 c.3.1.1 70457 c.4.1.1 70458 d.58.1.5 70459 1jg1A 235 5.60e+00 c.66.1.7 66661 1sgoA 139 5.92e+00 unknown_sccs -10487 1h7wD 1025 6.15e+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 6.15e+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 1h7wA 1025 6.24e+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 1hyeA 313 6.42e+00 2cmd c.2.1.5 61400 d.162.1.1 61401 1hm9A 468 6.48e+00 b.81.1.4 65866 c.68.1.5 65867 1gteA 1025 6.56e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1p1xA 260 6.58e+00 1jclA 260 6.59e+00 c.1.10.1 66501 1jcjA 260 6.60e+00 c.1.10.1 66499 2cmd 312 6.80e+00 2cmd c.2.1.5 30135 d.162.1.1 42102 1m6yA 301 7.28e+00 a.60.13.1 78716 c.66.1.23 78717 1oeyJ 107 7.63e+00 d.15.2.2 -9168 1n8fA 350 7.74e+00 c.1.10.4 85397 1gg1A 350 7.75e+00 1qr7A c.1.10.4 29187 1gt8D 1025 7.85e+00 a.1.2.2 70433 c.1.4.1 70434 c.3.1.1 70435 c.4.1.1 70436 d.58.1.5 70437 1h7xC 1025 8.01e+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 1l9wA 252 8.06e+00 c.1.10.1 84570 1h7xD 1025 8.25e+00 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 1h7xB 1025 8.28e+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 1h7xA 1025 8.39e+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 1gthC 1025 8.46e+00 a.1.2.2 70493 c.1.4.1 70494 c.3.1.1 70495 c.4.1.1 70496 d.58.1.5 70497 1gthA 1025 8.48e+00 a.1.2.2 70483 c.1.4.1 70484 c.3.1.1 70485 c.4.1.1 70486 d.58.1.5 70487 1gt8C 1025 9.76e+00 a.1.2.2 70428 c.1.4.1 70429 c.3.1.1 70430 c.4.1.1 70431 d.58.1.5 70432 1gqnA 252 9.93e+00 c.1.10.1 -5494 1twdA 256 9.94e+00 1qfeA 252 1.07e+01 1qfeA c.1.10.1 29167 1egr 85 1.08e+01 1kte c.47.1.1 32765 1l6wA 220 1.11e+01 c.1.10.1 73632 1ubpB 122 1.11e+01 1ubpB b.85.3.1 28346 4ubpB 126 1.12e+01 1ubpB b.85.3.1 28345 1g97A 459 1.15e+01 1fwyA b.81.1.4 60394 c.68.1.5 60395 1vkfA 188 1.18e+01 1air 353 1.20e+01 1air b.80.1.1 28018 2pec 353 1.20e+01 1air b.80.1.1 28019 1gt8A 1025 1.23e+01 a.1.2.2 70418 c.1.4.1 70419 c.3.1.1 70420 c.4.1.1 70421 d.58.1.5 70422 1g2qA 187 1.24e+01 c.61.1.1 65117 1ej0A 180 1.25e+01 1ej0A c.66.1.2 34179 1gthB 1025 1.32e+01 a.1.2.2 70488 c.1.4.1 70489 c.3.1.1 70490 c.4.1.1 70491 d.58.1.5 70492 1oz9A 150 1.34e+01 unknown_sccs -10588 1gt8B 1025 1.36e+01 a.1.2.2 70423 c.1.4.1 70424 c.3.1.1 70425 c.4.1.1 70426 d.58.1.5 70427 1vheA 373 1.38e+01 unknown_sccs -4280 c.56.5.4 -7890 1lx7A 253 1.42e+01 c.56.2.1 74329 1rxyA 253 1.57e+01 c.56.2.1 -7834 1ako 268 1.67e+01 1ako d.151.1.1 41779 1uiuA 502 1.70e+01 c.94.1.1 -8674 1bxsA 501 1.71e+01 1bpwA c.82.1.1 35357 1hizA 379 1.81e+01 c.1.8.3 65841 1j0aA 325 1.82e+01 c.79.1.1 83871 1h6kZ 98 1.83e+01 d.58.7.1 60686 1l2lA 457 1.86e+01 c.72.1.3 77656 1qdlA 422 1.87e+01 1qdlA d.161.1.1 42088 1kczA 413 1.90e+01 c.1.11.2 68451 d.54.1.1 68452 1mqoA 227 2.00e+01 2bc2B 227 2.03e+01 1a7tA d.157.1.1 42032 1h6kX 97 2.04e+01 d.58.7.1 60684 1lkcA 364 2.05e+01 c.67.1.1 73978 1i8jA 323 2.06e+01 1b4kA c.1.10.3 61968 1o88A 353 2.06e+01 b.80.1.1 81178 1cvjA 190 2.10e+01 1cvjB d.58.7.1 39191 d.58.7.1 39192 1jn8B 273 2.12e+01 1pztA 286 2.17e+01 c.68.1.2 -8213 1nf5B 286 2.19e+01 c.68.1.2 80454 1q1oA 98 2.33e+01 d.15.2.2 -9172 1b4eA 323 2.34e+01 1b4kA c.1.10.3 29186 1l6sA 323 2.35e+01 c.1.10.3 73627 1nvmA 345 2.50e+01 a.5.7.1 86249 c.1.10.5 86250 1o4vA 183 2.55e+01 c.23.8.1 86628 1k3fA 253 2.55e+01 c.56.2.1 68105 1cvjB 190 2.63e+01 1cvjB d.58.7.1 39193 d.58.7.1 39194 1qfnA 85 2.74e+01 1qfnA c.47.1.1 32768 1ugmA 125 2.78e+01 1zid 268 2.79e+01 1eny c.2.1.2 29911 2bc2A 227 2.80e+01 1a7tA d.157.1.1 42031 1j8wB 273 2.89e+01 1tz9A 367 2.94e+01 1orrA 347 2.95e+01 c.2.1.2 -5776 1difA 99 2.99e+01 1fmb b.50.1.1 26503 1f8yA 157 3.00e+01 1f8xA c.23.14.1 31395 1fc4A 401 3.03e+01 1bs0A c.67.1.4 59760 1j90A 230 3.04e+01 c.37.1.1 66448 1tikA 213 3.07e+01 1v2xA 194 3.09e+01 c.116.1.1 -6704 1innA 166 3.11e+01 1j98A d.185.1.2 62608 1skoA 143 3.12e+01 1vjeA 166 3.12e+01 d.185.1.2 -10261 1pyfA 312 3.12e+01 c.1.7.1 -5251 1jpnA 296 3.27e+01 a.24.13.1 67039 c.37.1.10 67040 1bw0A 416 3.29e+01 1bw0A c.67.1.1 34385 1f8xA 157 3.29e+01 1f8xA c.23.14.1 31397 1kzkA 99 3.33e+01 b.50.1.1 73371 2ng1 293 3.39e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ug6A 431 3.40e+01 c.1.8.4 88490 1uahA 431 3.40e+01 1moq 368 3.40e+01 1moq c.80.1.1 35302 2bvwA 362 3.46e+01 1bvwA c.6.1.1 30666 1shuX 182 3.51e+01 c.62.1.1 -7982 1m1nB 522 3.58e+01 c.92.2.3 78418 2minB 522 3.62e+01 1qguB c.92.2.3 35610 1ir6A 424 3.67e+01 c.107.1.2 71342 3minB 522 3.68e+01 1qguB c.92.2.3 35606 1ls1A 295 3.70e+01 a.24.13.1 78170 c.37.1.10 78171 1kblA 873 3.71e+01 c.1.12.2 68384 c.8.1.1 68385 d.142.1.5 68386 1fgxA 288 3.71e+01 1fgxA c.68.1.2 34508 1oi7A 288 3.73e+01 c.2.1.8 87049 c.23.4.1 87050 1ortA 335 3.73e+01 1othA c.78.1.1 35204 c.78.1.1 35205 1j3mA 129 3.73e+01 1nmmB 286 3.79e+01 c.68.1.2 80662 1brlA 355 3.81e+01 1lucA c.1.16.1 29553 1gthD 1025 3.81e+01 a.1.2.2 70498 c.1.4.1 70499 c.3.1.1 70500 c.4.1.1 70501 d.58.1.5 70502 1onxA 390 3.86e+01 b.92.1.7 87176 c.1.9.13 87177 1q0pA 223 3.91e+01 c.62.1.1 -7979 1kdkA 177 3.95e+01 b.29.1.4 72351 1p3dA 475 3.99e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730