# List of top-scoring protein chains for 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.soe.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 2gzoA 195 3.22e-01 d.310.1.1 135910 2c0lA 305 5.91e-01 2c0mA 319 6.29e-01 a.118.8.1 129596 2j9qA 328 6.78e-01 a.118.8.1 138152 2cmjA 410 7.16e-01 1t0lA 414 7.45e-01 c.77.1.1 106216 1fchA 368 1.07e+00 1fchA a.118.8.1 19212 2j7mA 149 2.36e+00 2j1aA 150 2.37e+00 1aogA 485 2.98e+00 3grs c.3.1.5 30517 c.3.1.5 30518 d.87.1.1 40190 1bzlA 486 2.99e+00 3grs c.3.1.5 30521 c.3.1.5 30522 d.87.1.1 40192 1gxfA 492 3.02e+00 c.3.1.5 90527 c.3.1.5 90528 d.87.1.1 90529 3bv8A 87 3.57e+00 2g9eA 70 5.11e+00 a.241.1.1 134799 2g7oA 70 5.50e+00 a.241.1.1 134736 2d1hA 109 5.93e+00 a.4.5.50 131125 2i9dA 217 7.21e+00 1pkvA 97 8.47e+00 b.43.4.3 104168 1ri8A 134 8.71e+00 2a9dA 372 8.95e+00 b.1.18.6 126431 d.176.1.1 126432 1ee0A 402 8.97e+00 1bi5A c.95.1.2 36007 c.95.1.2 36008 2pifA 276 9.03e+00 2a9aA 372 9.18e+00 b.1.18.6 126427 d.176.1.1 126428 2a9bA 372 9.52e+00 b.1.18.6 126429 d.176.1.1 126430 1jewR 120 1.02e+01 i.6.1.1 66618 1kacB 124 1.06e+01 1neu b.1.1.1 19707 1eajA 126 1.06e+01 1f5wA b.1.1.1 59401 1f5wA 126 1.06e+01 1f5wA b.1.1.1 19705 1rsfA 126 1.06e+01 b.1.1.1 97809 2j12B 128 1.09e+01 b.1.1.1 137933 1soxA 466 1.14e+01 1soxA b.1.18.6 21947 d.120.1.1 41090 d.176.1.1 42563 1i7kA 179 1.18e+01 1u9aA d.20.1.1 61889 2r6fA 972 1.23e+01 2hhjA 267 1.32e+01 c.60.1.1 136497 1guxB 152 1.37e+01 1guxB a.74.1.3 18389 1l9oA 341 1.48e+01 b.6.1.3 77828 b.6.1.3 77829 1l9sA 341 1.49e+01 b.6.1.3 77852 b.6.1.3 77853 2yrrA 353 1.49e+01 2ppfA 341 1.49e+01 1j9qA 341 1.49e+01 1nif b.6.1.3 62765 b.6.1.3 62766 1l9tA 341 1.50e+01 b.6.1.3 77858 b.6.1.3 77859 1l9qA 341 1.50e+01 b.6.1.3 77840 b.6.1.3 77841 1l9rA 341 1.50e+01 b.6.1.3 77846 b.6.1.3 77847 1l9pA 341 1.51e+01 b.6.1.3 77834 b.6.1.3 77835 1snrA 341 1.52e+01 b.6.1.3 105823 b.6.1.3 105824 1et7A 341 1.53e+01 1nif b.6.1.3 23070 b.6.1.3 23071 2ppeA 343 1.53e+01 1et8A 341 1.53e+01 1nif b.6.1.3 23072 b.6.1.3 23073 2e86A 337 1.54e+01 1as6A 343 1.55e+01 1nif b.6.1.3 23090 b.6.1.3 23091 2b08A 340 1.58e+01 b.6.1.3 127626 b.6.1.3 127627 1zdsA 336 1.59e+01 b.6.1.3 124952 b.6.1.3 124953 1r0pA 312 1.65e+01 d.144.1.7 96734 3cthA 314 1.66e+01 1ntdA 343 1.67e+01 b.6.1.3 23088 b.6.1.3 23089 1ogpA 393 1.80e+01 b.1.18.6 92927 d.176.1.1 92928 3c1xA 373 1.85e+01 2cpjA 99 1.95e+01 d.58.7.1 130702 1kt1A 457 1.99e+01 a.118.8.1 77528 d.26.1.1 77529 d.26.1.1 77530 2eweA 353 2.05e+01 2hbjA 410 2.09e+01 a.60.8.4 136311 c.55.3.5 136312 1jmtA 104 2.10e+01 d.58.7.3 63180 1s7oA 113 2.12e+01 a.4.13.3 105354 1g291 372 2.22e+01 1g291 3cnbA 143 2.27e+01 1rr7A 129 2.32e+01 a.4.1.14 105075 3tssA 194 2.45e+01 b.40.2.2 25160 d.15.6.1 37749 2cr9A 139 2.46e+01 d.297.1.1 130735 2cqnA 77 2.48e+01 a.159.2.1 130726 1kt0A 457 2.54e+01 a.118.8.1 77525 d.26.1.1 77526 d.26.1.1 77527 3bknA 161 2.62e+01 1b1xA 689 2.67e+01 1cb6A c.94.1.2 35865 c.94.1.2 35866 1cyxA 205 2.79e+01 b.6.1.2 23023 2oltA 227 2.87e+01 1jayA 212 2.91e+01 c.2.1.6 66478 2ba0D 258 2.94e+01 2yy7A 312 3.06e+01 2e8mA 99 3.07e+01 1zljA 78 3.10e+01 2uycA 327 3.21e+01 2jxcA 100 3.29e+01 2iy0C 156 3.29e+01 1f6fB 210 3.33e+01 1axiB b.1.2.1 22033 b.1.2.1 22034 2io2C 172 3.35e+01 2grrB 170 3.41e+01 1z5sC 172 3.43e+01 1f8hA 95 3.48e+01 1eh2 a.39.1.6 17336 1b76A 442 3.48e+01 1atiA c.51.1.1 33198 d.104.1.1 40747 3c57A 95 3.57e+01 1maiA 131 3.60e+01 b.55.1.1 26951 1eh2A 106 3.61e+01 a.39.1.6 17339 1owfA 99 3.63e+01 a.55.1.1 87487 1i8dA 213 3.69e+01 b.43.4.3 61953 b.43.4.3 61954 1spwA 39 3.77e+01 1atiA 505 3.78e+01 1atiA c.51.1.1 33196 d.104.1.1 40745 2yskA 145 3.80e+01 1xsvA 113 3.81e+01 a.4.13.3 116003 1o0yA 260 3.82e+01 c.1.10.1 80756 1p16A 395 3.87e+01 b.40.4.6 87661 d.142.2.3 87662 1ndaA 491 3.92e+01 3grs c.3.1.5 30525 c.3.1.5 30526 d.87.1.1 40194 1jscA 630 3.95e+01 c.31.1.3 67224 c.36.1.5 67225 c.36.1.9 67226