# List of top-scoring protein chains for YGR038C-A.t2k-w0.5 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 1fonA 240 4.98e-01 5ptp b.47.1.2 26231 1gjyA 167 1.45e+00 a.39.1.8 70199 6ptd 298 1.75e+00 2plc c.1.18.2 29611 5ptd 298 1.89e+00 2plc c.1.18.2 29610 4ptd 298 2.05e+00 2plc c.1.18.2 29608 3ptd 298 2.08e+00 2plc c.1.18.2 29607 1fpn1 289 2.09e+00 1aym1 7ptd 298 2.11e+00 2plc c.1.18.2 29613 1gym 298 2.15e+00 2plc c.1.18.2 29606 2ptd 298 2.15e+00 2plc c.1.18.2 29605 1juoB 198 4.38e+00 a.39.1.8 67313 1gtmA 419 4.53e+00 1hwyA c.2.1.7 30223 c.58.1.1 33871 1ddzA 496 5.05e+00 1ddzA c.53.2.1 33372 c.53.2.1 33373 1e4mM 501 5.98e+00 1e70M c.1.8.4 59226 1e6qM 501 5.98e+00 1e70M c.1.8.4 28920 1e70M 501 5.98e+00 1e70M c.1.8.4 28926 1dwaM 499 6.03e+00 1e70M c.1.8.4 28928 1fzaB 328 6.05e+00 3fib d.171.1.1 42480 h.1.8.1 45621 1myr 501 6.44e+00 1e70M c.1.8.4 28925 1eswA 500 7.09e+00 1cwyA c.1.8.1 59500 1cwyA 500 7.09e+00 1cwyA c.1.8.1 28789 1pytC 253 7.43e+00 5ptp b.47.1.2 26233 1m8qA 840 8.93e+00 i.15.1.1 78795 2mysA 843 8.94e+00 1lvk b.34.3.1 24557 c.37.1.9 32154 1e44B 96 9.56e+00 1e44B b.101.1.1 59220 2ptk 453 1.03e+01 1fmk b.34.2.1 24517 d.93.1.1 40457 d.144.1.7 41692 1kynB 235 1.05e+01 b.47.1.2 73248 1a4eA 488 1.05e+01 1cf9A e.5.1.1 42806 1klt 226 1.13e+01 5ptp b.47.1.2 26300 1ltm 320 1.13e+01 1ltm d.2.1.6 36992 1qusA 322 1.13e+01 1ltm d.2.1.6 36991 1a6i 217 1.18e+01 2tct a.4.1.9 16066 a.121.1.1 19243 2trt 217 1.20e+01 2tct a.4.1.9 16064 a.121.1.1 19241 1pjpA 226 1.24e+01 5ptp b.47.1.2 26301 1i1rB 181 1.32e+01 1i1rB a.26.1.1 61548 1qkkA 155 1.32e+01 1dbwA c.23.1.1 31104 1k1sA 354 1.34e+01 e.8.1.5 68025 2gsaA 432 1.35e+01 2gsaA c.67.1.4 34446 1rypC 244 1.38e+01 1rypC d.153.1.4 41934 1fntC 245 1.39e+01 1l7oA 211 1.46e+01 c.108.1.4 73668 1l7mA 211 1.48e+01 c.108.1.4 73664 1jrhI 108 1.51e+01 1jrhI b.1.2.1 22059 1bf0 60 1.57e+01 1bpi g.8.1.1 44557 1f4qA 165 1.58e+01 1alvA a.39.1.8 17360 1vaoA 560 1.68e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 1k94A 165 1.80e+01 a.39.1.8 68333 1j97A 211 1.83e+01 1f5sA c.108.1.4 62753 1cghA 224 1.84e+01 1a7s b.47.1.2 26290 1f5sA 211 1.85e+01 1f5sA c.108.1.4 59656 1au8A 224 1.85e+01 1a7s b.47.1.2 26291 1kyqA 274 1.97e+01 c.2.1.11 73281 e.37.1.1 73282 1pymA 295 2.05e+01 1pymA c.1.12.7 29308 1l0oC 243 2.08e+01 a.4.13.2 73405 1bfd 528 2.11e+01 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1fyhB 229 2.11e+01 1jrhI b.1.2.1 22055 b.1.2.1 22056 1e0yA 560 2.18e+01 1qltA d.58.32.1 39467 d.145.1.1 41730 1qltA 560 2.18e+01 1qltA d.58.32.1 39457 d.145.1.1 41720 1dznB 560 2.19e+01 1qltA d.58.32.1 39472 d.145.1.1 41735 1e8gA 560 2.25e+01 1qltA d.58.32.1 39455 d.145.1.1 41718 1f58H 228 2.42e+01 1igtB b.1.1.1 20351 b.1.1.2 21343 1dw0A 112 2.47e+01 1dw0A a.3.1.1 15911 1ck4B 198 2.56e+01 1aoxA c.62.1.1 34150 1kfvA 271 2.60e+01 a.156.1.2 75886 b.113.1.1 75887 g.39.1.8 75888 1spgB 147 2.68e+01 1cg5B a.1.1.2 15588 1iruG 254 2.68e+01 d.153.1.4 71358 1iow 306 2.69e+01 1iow c.30.1.2 31713 d.142.1.1 41481 1itkA 731 2.74e+01 a.93.1.3 71417 a.93.1.3 71418 1pvaA 110 2.86e+01 1a75A a.39.1.4 17207 1clxA 347 2.89e+01 1taxA c.1.8.3 28899 1dj2A 443 2.91e+01 1adeA c.37.1.10 32237 1bg4 302 3.07e+01 1taxA c.1.8.3 28806 1b31A 302 3.07e+01 1taxA c.1.8.3 28892 1kq4A 232 3.09e+01 d.207.1.1 68791 1fh1A 92 3.10e+01 1fh1A i.11.1.1 46014 2dln 306 3.21e+01 1iow c.30.1.2 31715 d.142.1.1 41483 1ii6A 368 3.27e+01 1bg2 c.37.1.9 62413 1hmjA 78 3.33e+01 d.78.1.1 39752 1hs6A 611 3.51e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1bez 310 3.53e+01 1b6g c.69.1.8 34666 1ede 310 3.60e+01 1b6g c.69.1.8 34662 1be0 310 3.62e+01 1b6g c.69.1.8 34663 1gviA 588 3.70e+01 b.1.18.2 70604 b.71.1.1 70605 c.1.8.1 70606 1b6g 310 3.70e+01 1b6g c.69.1.8 34661 1bsg 266 3.81e+01 1btl e.3.1.1 42729 1xyzA 347 3.84e+01 1taxA c.1.8.3 28804 1duxC 94 3.87e+01 1awcA a.4.5.21 16170 1irsA 112 3.90e+01 1qqgA b.55.1.2 26991 1smaA 588 3.90e+01 1bvzA b.1.18.2 21854 b.71.1.1 27781 c.1.8.1 28768 1h19A 611 3.90e+01 a.118.1.7 70847 b.98.1.1 70848 d.92.1.13 70849