# List of top-scoring protein chains for t2k-100-30-bys 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 4.53e-20 unknown_sccs -10786 1m3uA 264 1.36e+00 c.1.12.8 84784 1ttzA 87 3.25e+00 1gp6A 356 3.55e+00 b.82.2.1 65441 1gp4A 356 3.56e+00 b.82.2.1 65439 1qdlA 422 3.57e+00 1qdlA d.161.1.1 42088 1q52A 314 4.28e+00 c.14.1.3 -6246 1nmmB 286 4.46e+00 c.68.1.2 80662 1dvkA 173 4.50e+00 1dvkA a.72.1.1 18319 1neeA 138 4.55e+00 unknown_sccs -9002 g.59.1.1 -12824 1gg1A 350 4.70e+00 1qr7A c.1.10.4 29187 1pztA 286 6.00e+00 c.68.1.2 -8213 1nf5B 286 6.35e+00 c.68.1.2 80454 1pa2A 306 6.71e+00 1bgp a.93.1.1 18693 1j79A 347 7.31e+00 1j79A c.1.9.4 62675 1n8fA 350 7.61e+00 c.1.10.4 85397 1scuA 288 8.28e+00 2scuA c.2.1.8 30307 c.23.4.1 31135 1h7xC 1025 8.71e+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 1qr7A 350 9.24e+00 1qr7A c.1.10.4 29191 1lvwA 295 9.75e+00 c.68.1.6 84723 1vhmA 195 1.02e+01 d.110.2.1 -10828 1skoA 143 1.07e+01 1j8wB 273 1.08e+01 1jn8B 273 1.14e+01 2scuA 288 1.22e+01 2scuA c.2.1.8 30303 c.23.4.1 31131 1vk6A 269 1.23e+01 unknown_sccs -10923 unknown_sccs -10924 1pmaP 211 1.24e+01 1pmaP d.153.1.4 41863 1fgxA 288 1.29e+01 1fgxA c.68.1.2 34508 1ujnA 348 1.29e+01 e.22.1.1 -11998 1l6wA 220 1.32e+01 c.1.10.1 73632 1d7yA 408 1.36e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1nv8A 284 1.39e+01 c.66.1.30 86224 1uz5A 402 1.39e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1v2xA 194 1.43e+01 c.116.1.1 -6704 1qg8A 255 1.45e+01 1qg8A c.68.1.1 34505 1h7xA 1025 1.49e+01 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 1lrwA 600 1.49e+01 b.70.1.1 -4629 1hyeA 313 1.53e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1bxsA 501 1.53e+01 1bpwA c.82.1.1 35357 1mpp 361 1.58e+01 2rmpA b.50.1.2 26856 1q1oA 98 1.59e+01 d.15.2.2 -9172 1q2wA 308 1.62e+01 b.47.1.4 88355 2cmd 312 1.63e+01 2cmd c.2.1.5 30135 d.162.1.1 42102 1h6kZ 98 1.64e+01 d.58.7.1 60686 1egr 85 1.71e+01 1kte c.47.1.1 32765 1gthA 1025 1.72e+01 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 1rj9A 304 1.77e+01 a.24.13.1 -631 c.37.1.10 -7129 1i0rA 169 1.79e+01 1i0rA b.45.1.2 61489 1ej0A 180 1.80e+01 1ej0A c.66.1.2 34179 1gt8C 1025 1.80e+01 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 1h7xD 1025 1.87e+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 1h2vZ 156 1.87e+01 d.58.7.1 76595 1uumA 372 1.91e+01 c.1.4.1 -5193 1tz9A 367 1.92e+01 1j0aA 325 1.98e+01 c.79.1.1 83871 1i7qA 519 2.01e+01 1qdlA d.161.1.1 61901 1i0sA 169 2.02e+01 1i0rA b.45.1.2 61491 1k3fA 253 2.03e+01 c.56.2.1 68105 1pyfA 312 2.03e+01 c.1.7.1 -5251 1pg5A 299 2.05e+01 1fc4A 401 2.08e+01 1bs0A c.67.1.4 59760 1gt8A 1025 2.11e+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 1ks2A 219 2.13e+01 unknown_sccs 72908 d.58.40.1 72909 1uiqA 351 2.15e+01 1v7cA 351 2.15e+01 c.79.1.1 -8512 1rfmA 344 2.16e+01 c.122.1.1 -8032 1hv8A 367 2.21e+01 1hv8A c.37.1.19 32405 c.37.1.19 32406 1skyB 502 2.21e+01 1skyB a.69.1.1 18313 b.49.1.1 26478 c.37.1.11 32358 2pec 353 2.24e+01 1air b.80.1.1 28019 1b4eA 323 2.27e+01 1b4kA c.1.10.3 29186 1b3rA 431 2.36e+01 1b3rA c.2.1.4 30106 c.23.12.3 31366 1bd3A 243 2.40e+01 1bd3A c.61.1.1 34098 1hpgA 187 2.42e+01 1qq4A b.47.1.1 25813 1jg1A 235 2.44e+01 c.66.1.7 66661 1lci 550 2.49e+01 1lci e.23.1.1 43349 1v1rA 400 2.50e+01 1o4vA 183 2.54e+01 c.23.8.1 86628 1h7wA 1025 2.55e+01 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 1qorA 327 2.58e+01 1qorA b.35.1.2 24766 c.2.1.1 29782 1uslA 170 2.74e+01 c.121.1.1 -6682 1gt8D 1025 2.75e+01 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 1um0A 365 2.75e+01 1h7wB 1025 2.75e+01 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 1qhhD 169 2.79e+01 1pjr 1h7wD 1025 2.82e+01 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 1l6sA 323 2.82e+01 c.1.10.3 73627 1qmhA 347 2.92e+01 1qmhA c.47.2.1 33082 d.68.2.1 39568 1gthD 1025 2.95e+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 1lkzA 219 2.96e+01 unknown_sccs 73991 d.58.40.1 73992 1g0uE 234 2.96e+01 d.153.1.4 41950 1qsmA 152 2.97e+01 1qsmA d.108.1.1 40808 1xo1A 291 2.98e+01 1exnA a.60.7.1 18086 c.120.1.2 33356 1kqzA 273 2.98e+01 c.1.8.5 68844 1gntA 553 3.04e+01 e.26.1.1 70290 1i8jA 323 3.08e+01 1b4kA c.1.10.3 61968 1e1dA 553 3.09e+01 1e1dA e.26.1.1 43363 1orrA 347 3.13e+01 c.2.1.2 -5776 1h7xB 1025 3.16e+01 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 1gteA 1025 3.19e+01 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 1d1rA 116 3.21e+01 1d1rA d.64.1.1 39548 1oi7A 288 3.27e+01 c.2.1.8 87049 c.23.4.1 87050 1f8fA 371 3.27e+01 b.35.1.2 83246 c.2.1.1 83247 1efvA 315 3.31e+01 1efvA c.26.2.3 31633 c.31.1.2 31728 1d4fA 431 3.33e+01 1b3rA c.2.1.4 30110 c.23.12.3 31370 1gt8B 1025 3.34e+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 1r44A 202 3.36e+01 1o88A 353 3.43e+01 b.80.1.1 81178 1twdA 256 3.43e+01 1kdkA 177 3.45e+01 b.29.1.4 72351 1j1hA 144 3.47e+01 b.111.1.1 77056 1vjeA 166 3.49e+01 d.185.1.2 -10261 1eucA 311 3.52e+01 2scuA c.2.1.8 30311 c.23.4.1 31139 1jnjA 100 3.53e+01 b.1.1.2 66955 1gk1B 522 3.54e+01 1ozhA 566 3.59e+01 c.31.1.3 -6737 c.36.1.5 -6895 c.36.1.9 -6935 1gthC 1025 3.64e+01 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 1pjqA 457 3.66e+01 c.2.1.11 -5904 c.90.1.1 -8611 e.37.1.1 -12004 1fecA 490 3.67e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1ako 268 3.67e+01 1ako d.151.1.1 41779 1air 353 3.67e+01 1air b.80.1.1 28018 1h6kX 97 3.74e+01 d.58.7.1 60684 1vig 71 3.76e+01 1vih d.51.1.1 38806 1ks9A 291 3.76e+01 a.100.1.7 68857 c.2.1.6 68858 1o8bA 219 3.81e+01 unknown_sccs 81180 d.58.40.1 81181 1j3mA 129 3.82e+01 1innA 166 3.94e+01 1j98A d.185.1.2 62608