# List of top-scoring protein chains for t2k-100-30-alpha 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 1qfoC 119 3.66e-01 1qfoA b.1.1.1 19710 1h0xA 100 5.48e-01 1mldA 314 5.68e-01 2cmd c.2.1.5 30122 d.162.1.1 42089 1ig8A 486 8.66e-01 2yhx c.55.1.3 64746 c.55.1.3 64747 1qfoA 119 1.27e+00 1qfoA b.1.1.1 19708 1qguB 519 1.82e+00 1qguB c.92.2.3 35626 1bn7A 294 2.22e+00 1bn6A c.69.1.8 34677 1cqwA 295 2.27e+00 1b6g c.69.1.8 34679 1bn6A 294 2.38e+00 1bn6A c.69.1.8 34678 1kk1A 410 2.65e+00 1qh8B 519 2.98e+00 1qguB c.92.2.3 35634 1kllA 130 3.01e+00 1k7hA 476 3.40e+00 1ospH 218 3.56e+00 1igtB b.1.1.1 20117 b.1.1.2 21147 1adoA 363 3.76e+00 1fbaA c.1.10.1 29124 1ptf 88 3.77e+00 1ptf d.94.1.1 40549 1gw0A 559 4.50e+00 1gt7A 274 4.80e+00 1ihmA 530 4.82e+00 1ihmA b.10.1.4 62385 1eo6A 117 4.98e+00 1eo6A d.15.1.3 37609 1jkmB 361 6.00e+00 1jkmA c.69.1.2 34634 1a26 361 6.00e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1gk8A 475 6.07e+00 c.1.14.1 65234 d.58.9.1 65235 1tubA 440 6.13e+00 1tubA c.32.1.1 31751 d.79.2.1 39803 1jkmA 358 6.40e+00 1jkmA c.69.1.2 34633 1mdl 359 6.64e+00 2mnr c.1.11.2 29247 d.54.1.1 38891 1preB 470 6.73e+00 1preA d.169.1.2 42438 f.8.1.1 43825 2mnr 357 8.20e+00 2mnr c.1.11.2 29245 d.54.1.1 38889 1preA 470 8.24e+00 1preA d.169.1.2 42437 f.8.1.1 43824 1lu9A 287 8.28e+00 1qfrA 89 8.33e+00 1ptf d.94.1.1 40552 1e4fT 419 8.42e+00 1e4fT c.55.1.1 33453 c.55.1.1 33454 1i4nA 251 1.01e+01 1efyA 350 1.02e+01 1a26 a.41.1.1 17413 d.166.1.2 42275 1nlr 234 1.08e+01 2nlrA b.29.1.11 24345 1add 349 1.10e+01 1a4mA c.1.9.1 29020 1g10A 102 1.11e+01 1g10A d.137.1.1 60191 1dkrA 317 1.12e+01 1dkuA c.61.1.2 34114 c.61.1.2 34115 1fkx 349 1.12e+01 1a4mA c.1.9.1 29018 1dfmA 223 1.13e+01 1d2iA c.52.1.5 33295 1jqeA 292 1.17e+01 8rucA 475 1.18e+01 1burA c.1.14.1 29339 d.58.9.1 39245 1bla 155 1.18e+01 1bfg b.42.1.1 25502 1j5yA 187 1.18e+01 2nlrA 234 1.20e+01 2nlrA b.29.1.11 24344 1ezwA 349 1.20e+01 1ezwA c.1.16.3 29558 1ibsA 317 1.25e+01 c.61.1.2 66107 c.61.1.2 66108 1dkuA 317 1.29e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1hstA 90 1.29e+01 1hstA a.4.5.13 16140 1d2iA 223 1.30e+01 1d2iA c.52.1.5 33297 1cznA 169 1.31e+01 1rcf c.23.5.1 31181 1hy3A 294 1.34e+01 1f7cA 231 1.36e+01 1f7cA a.116.1.1 19107 1a4mA 349 1.37e+01 1a4mA c.1.9.1 29014 1fofA 246 1.42e+01 1fofA e.3.1.1 42763 1ofv 169 1.44e+01 1rcf c.23.5.1 31184 2bopA 85 1.48e+01 2bopA d.58.8.1 39217 1e3uA 246 1.54e+01 1fofA e.3.1.1 42755 1k55A 246 1.59e+01 e.3.1.1 68156 1lucA 355 1.72e+01 1lucA c.1.16.1 29547 1i1qA 520 1.76e+01 1qdlA d.161.1.1 61543 1h77A 605 1.81e+01 1jkxA 212 1.82e+01 c.65.1.1 66813 1cjsA 219 1.89e+01 1cjsA e.24.1.1 43354 1jffA 451 1.98e+01 c.32.1.1 62932 d.79.2.1 62933 1garA 212 2.05e+01 2gar c.65.1.1 34162 1btmA 252 2.06e+01 1amk c.1.1.1 28513 1k4fA 248 2.07e+01 e.3.1.1 68138 1j4aA 333 2.09e+01 2gar 212 2.24e+01 2gar c.65.1.1 34161 1l6pA 125 2.28e+01 1jjhA 86 2.36e+01 2bopA d.58.8.1 63119 1uroA 367 2.41e+01 1uroA c.1.22.1 29675 1ek1A 554 2.43e+01 1cr6B c.108.1.2 43335 c.69.1.11 34685 1qs2A 401 2.59e+01 1qs1A d.166.1.1 42268 d.166.1.1 42269 1f3uB 171 2.64e+01 1f3uB b.65.1.1 27525 1hqkA 154 2.67e+01 c.16.1.1 65902 1hlvA 131 2.79e+01 a.4.1.7 65854 a.4.1.7 65855 1lnqA 336 2.85e+01 1j71A 334 2.88e+01 1eagA b.50.1.2 62669 1qlaA 656 3.04e+01 1qlaA a.7.3.1 16328 c.3.1.4 30427 d.168.1.1 42310 1h5rA 293 3.05e+01 c.68.1.6 65623 1hueA 90 3.08e+01 1huuA a.55.1.1 17900 1caj 260 3.10e+01 2cba b.74.1.1 27841 1ldg 316 3.12e+01 1ceqA c.2.1.5 30165 d.162.1.1 42132 2cba 260 3.14e+01 2cba b.74.1.1 27821 1b73A 254 3.16e+01 1b74A c.78.2.1 35266 c.78.2.1 35267 1qs1A 462 3.23e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1b74A 254 3.25e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1bf4A 63 3.39e+01 1azpA d.9.2.1 37461 1thg 544 3.41e+01 1thg c.69.1.17 34763 1knaA 69 3.42e+01 1e19A 314 3.45e+01 1b7bA c.73.1.1 34967 1jic 62 3.56e+01 1azpA d.9.2.1 37462 1dbdA 100 3.59e+01 2bopA d.58.8.1 39218 1brlA 355 3.59e+01 1lucA c.1.16.1 29553 1bdg 451 3.60e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462 1floA 422 3.72e+01 1floA a.60.9.1 18106 d.163.1.1 42166 1ehyA 294 3.75e+01 1ehyA c.69.1.11 34693 1ko7A 314 3.76e+01 1lzjA 292 3.77e+01 1hetA 374 3.86e+01 2ohxA b.35.1.2 60975 c.2.1.1 60976