# 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 1tzbA 302 1.36e-07 1c7qA 445 1.15e-01 2pgi c.80.1.2 35307 2pgi 445 1.34e-01 2pgi c.80.1.2 35308 1b0zA 445 1.34e-01 2pgi c.80.1.2 35309 1n57A 291 1.39e+00 c.23.16.2 85328 1rwyA 109 1.67e+00 a.39.1.4 -825 1fnnA 389 1.68e+00 1fnnA a.4.5.11 16129 c.37.1.20 32426 1a87 321 1.77e+00 1a87 f.1.1.1 43380 1h2sA 225 1.79e+00 f.13.1.1 76578 1jgjA 217 1.80e+00 1c3wA f.13.1.1 62952 1moh 142 1.93e+00 1flp a.1.1.2 15012 1flp 142 2.06e+00 1flp a.1.1.2 15011 1h68A 239 2.07e+00 f.13.1.1 60664 1a26 361 2.29e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1gx5A 536 2.53e+00 e.8.1.4 70682 1moq 368 2.71e+00 1moq c.80.1.1 35302 1ujpA 271 2.97e+00 c.1.2.4 -5177 1efyA 350 3.11e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1zin 217 3.28e+00 1zin c.37.1.1 31915 g.41.2.1 45178 1btmA 252 3.63e+00 1amk c.1.1.1 28513 5pal 109 3.63e+00 1a75A a.39.1.4 17215 1f4tA 368 3.97e+00 1f4tA a.104.1.1 18973 1fdi 715 4.59e+00 2napA b.52.2.2 26918 c.81.1.1 35326 1fdo 715 4.94e+00 2napA b.52.2.2 26917 c.81.1.1 35325 1aa6 715 4.97e+00 2napA b.52.2.2 26916 c.81.1.1 35324 1szqA 483 5.01e+00 unknown_sccs -11791 1uw4A 91 5.08e+00 unknown_sccs -10038 1csjA 531 5.24e+00 1quvA e.8.1.4 43120 1su8A 636 5.52e+00 e.26.1.2 -12015 1n5uA 585 6.08e+00 a.126.1.1 85339 a.126.1.1 85340 a.126.1.1 85341 1v4eA 299 6.54e+00 a.128.1.1 -1781 1di1A 300 6.93e+00 1di1A a.128.1.4 19446 1e7aA 585 6.96e+00 1bj5 a.126.1.1 19360 a.126.1.1 19361 a.126.1.1 19362 1b0b 142 7.02e+00 2fal a.1.1.2 15010 1kt8A 365 7.28e+00 e.17.1.1 77531 1ignA 246 7.37e+00 1ignA a.4.1.6 16048 a.4.1.6 16049 1ohuA 175 7.45e+00 f.1.4.1 -12058 1ktaA 365 7.48e+00 e.17.1.1 77533 1s35A 214 7.78e+00 a.7.1.1 -391 a.7.1.1 -392 1ekfA 365 7.89e+00 1ekfA e.17.1.1 59445 1bj5 585 8.73e+00 1bj5 a.126.1.1 19369 a.126.1.1 19370 a.126.1.1 19371 1i2aA 219 9.02e+00 e.24.1.1 -12012 1orvA 728 9.13e+00 b.70.3.1 87354 c.69.1.24 87355 1d3uB 201 9.59e+00 1aisB a.74.1.2 18386 a.74.1.2 18387 1uxoA 192 9.75e+00 1mldA 314 9.89e+00 2cmd c.2.1.5 30122 d.162.1.1 42089 1efcA 393 1.01e+01 1efcA b.43.3.1 25680 b.44.1.1 25720 c.37.1.8 32113 1ls1A 295 1.07e+01 a.24.13.1 78170 c.37.1.10 78171 1ao6A 585 1.08e+01 1bj5 a.126.1.1 19354 a.126.1.1 19355 a.126.1.1 19356 1ha2A 585 1.18e+01 1bj5 a.126.1.1 60866 a.126.1.1 60867 a.126.1.1 60868 1r1bA 59 1.28e+01 1r1bA a.16.1.3 16396 1d2dA 59 1.29e+01 1r1bA a.16.1.3 16397 2ng1 293 1.31e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1jztA 246 1.34e+01 c.104.1.1 63319 1hz4A 373 1.46e+01 a.118.8.2 65960 1jpnA 296 1.50e+01 a.24.13.1 67039 c.37.1.10 67040 1fggA 261 1.51e+01 1fggA c.68.1.7 34576 1jjyA 636 1.51e+01 1jjyA 1ng1 294 1.53e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1dhs 344 1.54e+01 1dhs c.31.1.1 31727 1sesA 421 1.72e+01 1sesA a.2.7.1 15710 d.104.1.1 40710 1orjA 130 1.74e+01 unknown_sccs -611 1pal 108 1.79e+01 1a75A a.39.1.4 17209 1i3dA 146 1.85e+01 a.1.1.2 61587 1mjfA 281 1.94e+01 c.66.1.17 79198 1rlzA 369 2.03e+01 1eu1A 780 2.08e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1umgA 362 2.10e+01 1m6jA 261 2.10e+01 c.1.1.1 78693 1pqsA 77 2.12e+01 d.15.2.2 88277 1colA 204 2.15e+01 1a87 f.1.1.1 43378 1i27A 73 2.17e+01 1i27A a.4.5.30 61555 1o22A 170 2.18e+01 d.238.1.1 86557 1apyA 162 2.19e+01 1apyA d.153.1.5 42004 1io7A 368 2.19e+01 1f4tA a.104.1.1 18971 1aky 221 2.22e+01 1zin c.37.1.1 31896 g.41.2.1 45197 1p5sA 203 2.22e+01 a.40.1.1 -900 1o4wA 147 2.30e+01 c.120.1.1 86629 1j4wA 174 2.36e+01 d.51.1.1 71529 d.51.1.1 71530 1mil 104 2.36e+01 1d4tA d.93.1.1 40496 1c2pA 576 2.39e+01 1quvA e.8.1.4 43117 1amk 251 2.40e+01 1amk c.1.1.1 28503 1jkmB 361 2.41e+01 1jkmA c.69.1.2 34634 1vicA 262 2.42e+01 c.68.1.13 -8252 1pot 325 2.43e+01 1pot c.94.1.1 35807 1g99A 408 2.48e+01 1g99A c.55.1.2 33457 c.55.1.2 33458 1nrkA 328 2.54e+01 unknown_sccs -4071 unknown_sccs -10176 1uvqA 197 2.55e+01 b.1.1.2 -2649 d.19.1.1 -9336 1hs6A 611 2.60e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1mojA 182 2.63e+01 a.25.1.1 -669 1uzbA 516 2.65e+01 c.82.1.1 -8552 1iq0A 592 2.66e+01 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 4cpv 109 2.66e+01 1a75A a.39.1.4 17198 1ra9 159 2.69e+01 1vdrA c.71.1.1 34820 1gvnA 90 2.70e+01 a.8.2.1 76353 1vjqA 79 2.74e+01 unknown_sccs -13478 1pmmA 466 2.74e+01 c.67.1.6 -8159 1keaA 221 2.80e+01 a.96.1.2 68491 1cdp 109 2.99e+01 1a75A a.39.1.4 17197 1jg8A 347 3.00e+01 1jg8A c.67.1.1 62946 1m6sA 347 3.01e+01 c.67.1.1 78701 1aisB 200 3.02e+01 1aisB a.74.1.2 18384 a.74.1.2 18385 1j5xA 342 3.02e+01 c.80.1.1 71591 2pvbA 107 3.05e+01 1a75A a.39.1.4 17205 1kepA 348 3.08e+01 c.2.1.2 68536 1oc2A 348 3.13e+01 c.2.1.2 -5753 1lwdA 413 3.15e+01 c.77.1.1 78265 1mjnA 179 3.16e+01 c.62.1.1 79210 1hvyA 288 3.16e+01 1bkpA d.117.1.1 41049 1e12A 253 3.19e+01 1c3wA f.13.1.1 43428 1k0rA 366 3.24e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1ky3A 182 3.29e+01 c.37.1.8 73193 1hdmA 201 3.30e+01 1iakA b.1.1.2 21583 d.19.1.1 38157 1jf0A 195 3.32e+01 1ej3A a.39.1.5 62926 1teaA 299 3.34e+01 1jkmA 358 3.36e+01 1jkmA c.69.1.2 34633 1ojxA 263 3.36e+01 c.1.10.1 -5445 1jzxK 205 3.37e+01 i.1.1.2 67885 1bsmA 201 3.39e+01 1avmA a.2.11.1 15780 d.44.1.1 38743 1avmA 201 3.44e+01 1avmA a.2.11.1 15782 d.44.1.1 38745 1iqvA 218 3.48e+01 1rss a.75.1.1 62661 1n55A 251 3.48e+01 c.1.1.1 80007 1lehA 364 3.52e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1q16C 225 3.55e+01 unknown_sccs -12324 1j2jB 45 3.57e+01 a.7.8.1 84017 1pswA 348 3.62e+01 c.87.1.7 88287 1ftrA 296 3.68e+01 1ftrA d.58.33.1 39485 d.58.33.1 39486 1bmdA 327 3.69e+01 1bmdA c.2.1.5 30139 d.162.1.1 42106 1pc3A 350 3.70e+01 1sedA 117 3.76e+01 2occL 47 3.77e+01 2occL f.23.6.1 43526 1l2iA 261 3.82e+01 a.123.1.1 73503 1ujnA 348 3.84e+01 e.22.1.1 -11998 2dabA 282 3.85e+01 1daaA e.17.1.1 43274 1v8gA 329 3.86e+01 a.46.2.1 -953 c.27.1.1 -6644 1r6rA 100 3.86e+01 unknown_sccs -1071 1qahA 136 3.88e+01 d.79.1.1 -10377 1k4mA 213 3.89e+01 c.26.1.3 77258 1uyrA 737 3.92e+01 c.14.1.4 -6258 c.14.1.4 -6259 1jaxA 212 3.95e+01 c.2.1.6 66476