# List of top-scoring protein chains for YCL002C.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 1txfA 258 1.68e-01 1ycjA 257 1.77e-01 2alr 324 4.27e-01 1frb c.1.7.1 28679 1gv3A 248 4.61e-01 a.2.11.1 70585 d.44.1.1 70586 1hcuA 503 6.63e-01 a.102.2.1 65796 1hqtA 326 7.28e-01 1frb c.1.7.1 61156 1cwn 324 7.33e-01 1frb c.1.7.1 28686 1ae4 325 7.35e-01 1frb c.1.7.1 28689 1l6zA 216 7.68e-01 b.1.1.1 77770 b.1.1.4 77771 2ao0A 324 7.94e-01 1f3yA 165 1.06e+00 d.113.1.1 59635 1kewA 361 1.80e+00 c.2.1.2 68544 1yolA 283 3.38e+00 1yojA 283 3.57e+00 1z5hA 780 4.02e+00 2fgrA 332 4.07e+00 2fgqX 332 4.07e+00 1uhbB 98 5.02e+00 2u2fA 85 5.02e+00 2u2fA d.58.7.1 39167 1fmk 452 5.45e+00 1fmk b.34.2.1 24511 d.93.1.1 40436 d.144.1.7 41690 1y57A 452 5.50e+00 1kswA 452 5.52e+00 b.34.2.1 68860 d.93.1.1 68861 d.144.1.7 68862 2axoA 270 5.53e+00 1b63A 333 5.87e+00 1b63A d.14.1.3 37566 d.122.1.2 41107 1sluB 223 5.92e+00 5ptp b.47.1.2 25977 1slwB 223 5.97e+00 5ptp b.47.1.2 25979 1b62A 349 6.11e+00 1b63A d.14.1.3 37567 d.122.1.2 41108 1bknA 352 6.14e+00 1b63A d.14.1.3 37568 d.122.1.2 41109 1s7qA 348 6.16e+00 b.1.1.2 98655 d.19.1.1 98656 1tjxA 159 6.26e+00 1k5wA 152 6.28e+00 b.7.1.2 68212 1nhjA 333 6.46e+00 d.14.1.3 85720 d.122.1.2 85721 1and 223 6.65e+00 5ptp b.47.1.2 25985 1trmA 223 6.76e+00 5ptp b.47.1.2 25987 3tgiE 223 6.78e+00 5ptp b.47.1.2 25976 1ezsC 223 6.85e+00 5ptp b.47.1.2 25989 1v2oT 223 7.11e+00 b.47.1.2 108291 1ql9A 223 7.32e+00 5ptp b.47.1.2 25986 1ryp1 222 7.36e+00 1ryp1 1gsvA 125 7.38e+00 d.110.3.1 65537 1f5rA 231 7.48e+00 5ptp b.47.1.2 59654 1f7zA 233 7.58e+00 5ptp b.47.1.2 59681 2ptk 453 7.60e+00 1fmk b.34.2.1 24517 d.93.1.1 40457 d.144.1.7 41692 2hhmA 276 7.70e+00 1imbA e.7.1.1 42955 1imbA 277 7.71e+00 1imbA e.7.1.1 42957 1g0uL 241 7.74e+00 d.153.1.4 41894 1fy8E 231 7.83e+00 5ptp b.47.1.2 25978 3tgkE 231 7.85e+00 5ptp b.47.1.2 63338 1gsxA 125 8.06e+00 d.110.3.1 65539 2aywA 223 8.39e+00 2fi5E 223 8.44e+00 1f9iA 125 8.55e+00 3pyp d.110.3.1 40898 1tawA 223 8.56e+00 5ptp b.47.1.2 25860 1y59T 223 8.57e+00 1ntp 223 8.59e+00 5ptp b.47.1.2 25858 1g3dA 228 8.85e+00 5ptp b.47.1.2 25920 1bty 229 8.93e+00 5ptp b.47.1.2 25833 1j16A 223 9.08e+00 b.47.1.2 77054 1dpo 223 9.21e+00 5ptp b.47.1.2 25975 1anb 223 9.23e+00 5ptp b.47.1.2 25998 1v2wT 223 9.26e+00 b.47.1.2 108299 1anc 223 9.32e+00 5ptp b.47.1.2 25982 1k9oE 223 9.55e+00 b.47.1.2 68355 1v2qT 223 9.64e+00 b.47.1.2 108293 2bjiA 277 9.80e+00 1d7eA 122 1.01e+01 3pyp d.110.3.1 40900 1nwzA 125 1.04e+01 d.110.3.1 86370 1zhnA 273 1.04e+01 1v2rT 223 1.05e+01 b.47.1.2 108294 1zzzA 237 1.07e+01 5ptp b.47.1.2 25892 2akrA 285 1.08e+01 1s83A 223 1.09e+01 b.47.1.2 98718 1an1E 223 1.09e+01 5ptp b.47.1.2 25970 1v2nT 223 1.12e+01 b.47.1.2 108290 1e6vB 443 1.12e+01 1mroB a.89.1.1 18533 d.58.31.2 39451 1v2sT 223 1.15e+01 b.47.1.2 108295 2c1gA 431 1.15e+01 1ot6A 125 1.22e+01 d.110.3.1 93504 1gh8A 89 1.26e+01 1gh8A d.58.12.1 39309 1cd1A 315 1.26e+01 1cd1A b.1.1.2 21579 d.19.1.1 38155 3tgjE 233 1.27e+01 5ptp b.47.1.2 25992 1utnA 243 1.30e+01 b.47.1.2 99967 1gswA 125 1.34e+01 d.110.3.1 65538 1dj3A 442 1.35e+01 1adeA c.37.1.10 32239 1bxkA 355 1.35e+01 1bxkA c.2.1.2 29803 1qhuA 460 1.36e+01 1qhuA b.66.1.1 27530 b.66.1.1 27531 1co7E 245 1.36e+01 b.47.1.2 76135 1brbE 223 1.36e+01 5ptp b.47.1.2 25983 1l7rA 574 1.38e+01 b.18.1.13 77793 c.69.1.21 77794 1l7qA 574 1.40e+01 b.18.1.13 77791 c.69.1.21 77792 1ju3A 583 1.44e+01 b.18.1.13 67300 c.69.1.21 67301 1v2lT 223 1.56e+01 b.47.1.2 108288 3kvt 115 1.58e+01 1t1dA d.42.1.2 38642 1amhA 223 1.58e+01 5ptp b.47.1.2 25994 1xwdC 252 1.63e+01 1gfn 334 1.72e+01 2omf f.4.3.1 43754 1iruJ 205 1.75e+01 d.153.1.4 71361 1iq8A 582 1.77e+01 b.122.1.1 83074 c.1.20.1 71270 d.17.6.1 83075 1f98A 125 1.83e+01 3pyp d.110.3.1 40899 1ophB 243 1.84e+01 b.47.1.2 93405 1gfm 340 1.97e+01 2omf f.4.3.1 43755 1wybA 392 1.97e+01 1wycA 392 2.08e+01 8fabB 224 2.11e+01 1igtB b.1.1.1 19773 b.1.1.2 20883 1x43A 81 2.18e+01 1eptC 98 2.25e+01 5ptp 1aijH 260 2.29e+01 6prcH b.41.1.1 25466 f.23.10.1 43463 1reoA 486 2.29e+01 c.3.1.2 97325 d.16.1.5 97326 1rvjH 260 2.31e+01 b.41.1.1 97924 f.23.10.1 97925 1hxuA 340 2.35e+01 2omf f.4.3.1 61384 1dj7A 117 2.39e+01 1dj7A g.36.1.1 44997 1kobA 387 2.42e+01 1tkiA d.144.1.7 41640 1fepA 724 2.45e+01 1fepA f.4.3.3 43808 1hxtA 340 2.45e+01 2omf f.4.3.1 61383 1t8cA 143 2.54e+01 2tldE 220 2.60e+01 5ptp b.47.1.2 25881 1x4kA 72 2.61e+01 2omf 340 2.67e+01 2omf f.4.3.1 43749 1hxxA 340 2.68e+01 2omf f.4.3.1 61385 1gfo 340 2.72e+01 2omf f.4.3.1 43753 1mpf 340 2.74e+01 2omf f.4.3.1 43752 1gfp 340 2.75e+01 2omf f.4.3.1 43750 1bt9A 340 2.82e+01 2omf f.4.3.1 43756 1i0rA 169 2.82e+01 1i0rA b.45.1.2 61489 2ayuA 417 3.01e+01 1rzhH 260 3.07e+01 b.41.1.1 98162 f.23.10.1 98163 1mroC 247 3.17e+01 1mroC d.58.31.1 39437 1a0jA 223 3.19e+01 5ptp b.47.1.2 26002 1oc3A 172 3.20e+01 c.47.1.10 92767 1dem 60 3.23e+01 1bpi g.8.1.1 44556 1itxA 419 3.25e+01 c.1.8.5 71425 d.26.3.1 71426 1s67L 119 3.34e+01 d.110.3.2 105303 1jauA 20 3.36e+01 j.85.1.1 66474 1hbnC 248 3.36e+01 1mroC d.58.31.1 60902 1xoeA 387 3.62e+01 1f8eA 388 3.63e+01 2qwc b.68.1.1 59694 1ncaN 389 3.64e+01 2qwc b.68.1.1 27579 1l7gA 388 3.65e+01 b.68.1.1 73654 1bx4A 345 3.71e+01 1bx4A c.72.1.1 34935 2c1iA 431 3.71e+01 3nn9 388 3.71e+01 2qwc b.68.1.1 27566 1ncbN 389 3.72e+01 2qwc b.68.1.1 27573 6nn9 388 3.74e+01 2qwc b.68.1.1 27565 1d4m2 261 3.80e+01 1aym2 1naaA 541 3.82e+01 c.3.1.2 80365 d.16.1.1 80366 1iny 388 3.85e+01 2qwc b.68.1.1 27569 1kdgA 546 3.85e+01 c.3.1.2 77337 d.16.1.1 77338 5nn9 388 3.85e+01 2qwc b.68.1.1 27563 4nn9 388 3.95e+01 2qwc b.68.1.1 27562 1nccN 389 3.95e+01 2qwc b.68.1.1 27588 1tqxA 227 3.96e+01