# List of top-scoring protein chains for YGR009C.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 1l4aC 83 6.53e-21 h.1.15.1 73561 1sfcD 87 3.35e-20 1sfcD h.1.15.1 45646 1jthA 82 3.84e-20 h.1.15.1 67270 1l4aD 87 3.95e-20 h.1.15.1 73562 1sfcC 83 6.77e-19 1sfcC h.1.15.1 45645 1urqC 80 7.75e-19 1n7sC 79 7.81e-19 h.1.15.1 80273 1kilC 74 1.65e-18 h.1.15.1 72520 1kilD 66 1.19e-16 h.1.15.1 72521 1n7sD 66 1.19e-16 h.1.15.1 80274 1urqD 69 2.06e-16 1nhlA 54 6.35e-14 h.1.15.1 85722 1gl2D 65 1.97e-10 h.1.15.1 65281 1gl2C 65 1.20e-09 h.1.15.1 65280 1lvfA 110 2.77e-03 a.47.2.1 74280 1jthB 77 2.03e-02 h.1.15.1 67271 1hvvA 75 2.04e-02 1hvvA h.1.15.1 45639 1n7sB 68 2.04e-02 h.1.15.1 80272 1kilB 62 2.28e-02 h.1.15.1 72519 1urqB 75 2.66e-02 1l4aB 88 6.32e-02 h.1.15.1 73560 1sfcB 83 6.39e-02 1sfcB h.1.15.1 45644 1s4nA 348 1.21e-01 1dn1B 267 2.12e-01 1dn1B a.47.2.1 17771 1gl2B 65 2.67e-01 h.1.15.1 65279 5csmA 256 1.75e+00 5csmA a.130.1.2 19494 3csmA 256 1.83e+00 5csmA a.130.1.2 19500 1sbzA 197 2.40e+00 1rurL 217 2.89e+00 2csmA 256 2.97e+00 5csmA a.130.1.2 19497 1j3vA 289 3.81e+00 1uypA 432 4.94e+00 1m6yA 301 4.97e+00 a.60.13.1 78716 c.66.1.23 78717 1s58A 554 4.97e+00 1csmA 256 4.97e+00 5csmA a.130.1.2 19495 1qe0A 420 5.10e+00 1adjA c.51.1.1 33186 d.104.1.1 40735 1o5kA 306 5.60e+00 1jeyB 565 5.98e+00 1jeqB e.31.1.2 62925 1qyrA 252 6.40e+00 1izlB 472 7.38e+00 i.5.1.1 76995 1fcqA 350 7.97e+00 c.1.8.9 65006 1q47A 495 8.18e+00 1n6aA 259 8.20e+00 b.76.2.1 80121 b.85.7.1 80122 1cjxA 357 8.29e+00 1cjxA d.32.1.3 38516 d.32.1.3 38517 1k92A 455 9.22e+00 c.26.2.1 68325 d.210.1.1 68326 1ls5A 328 9.62e+00 b.50.1.2 74240 1hxs2 272 9.85e+00 1dgi2 268 9.95e+00 1h4lA 292 1.05e+01 d.144.1.7 70871 1ar72 272 1.10e+01 1aym2 1k47A 337 1.19e+01 d.14.1.5 72040 d.58.26.4 72041 1a7cA 379 1.25e+01 1sek e.1.1.1 42660 1pov 341 1.27e+01 b.121.4.1 23411 b.121.4.1 23413 b.121.4.1 23412 1olxB 342 1.30e+01 9paiA 379 1.43e+01 1sek e.1.1.1 42667 1lj5A 379 1.48e+01 e.1.1.1 73928 1oc0A 379 1.53e+01 e.1.1.1 86790 1pvc2 271 1.54e+01 1aym2 1db2A 377 1.56e+01 1sek e.1.1.1 42672 1c5gA 402 1.62e+01 1sek e.1.1.1 42661 1hciA 476 1.63e+01 1quuA a.7.1.1 60950 a.7.1.1 60951 a.7.1.1 60952 a.7.1.1 60953 1ic2A 81 1.64e+01 h.1.5.1 62247 1vl6A 388 1.68e+01 1mxgA 435 1.71e+01 b.71.1.1 85193 c.1.8.1 85194 1n6cA 297 1.75e+01 b.76.2.1 80123 b.85.7.1 80124 1nmoA 247 1.82e+01 1ukhA 363 1.84e+01 1sziA 247 1.88e+01 1q44A 326 1.89e+01 1dvmA 379 2.03e+01 1sek e.1.1.1 42663 1izjA 637 2.18e+01 b.1.18.2 83841 b.71.1.1 83842 c.1.8.1 83843 1ei5A 520 2.22e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1m3kA 392 2.26e+01 c.95.1.1 78565 c.95.1.1 78566 1m1tA 392 2.26e+01 c.95.1.1 78433 c.95.1.1 78434 1dluA 389 2.26e+01 1afwA c.95.1.1 35916 c.95.1.1 35917 1ou6A 392 2.27e+01 1qflA 389 2.29e+01 1afwA c.95.1.1 35908 c.95.1.1 35909 1m4tA 392 2.30e+01 c.95.1.1 78617 c.95.1.1 78618 1d00A 168 2.31e+01 1d0aB b.8.1.1 23229 h.1.2.1 45436 1vk4A 298 2.34e+01 1m33A 258 2.35e+01 c.69.1.26 78514 1czyA 168 2.37e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1f3vB 171 2.46e+01 1d0aB b.8.1.1 23237 h.1.2.1 45444 1h21A 247 2.67e+01 a.138.1.3 76510 1v1rB 342 2.73e+01 1vi6A 208 2.77e+01 1mufA 257 2.78e+01 b.76.2.1 79483 b.85.7.1 79484 2gsrA 207 2.88e+01 1pgtA a.45.1.1 17586 c.47.1.5 32880 1s9aA 257 2.89e+01 1czzA 187 3.02e+01 1d0aB b.8.1.1 23259 h.1.2.1 45466 1pdkB 157 3.05e+01 1pdkB b.2.3.2 22427 1ry6A 360 3.22e+01 1qppA 218 3.24e+01 1qpxA b.1.11.1 22320 b.7.2.1 23202 1vkyA 347 3.26e+01 1qpxA 218 3.29e+01 1qpxA b.1.11.1 22318 b.7.2.1 23200 1ehyA 294 3.33e+01 1ehyA c.69.1.11 34693 1pdkA 218 3.37e+01 1qpxA b.1.11.1 22322 b.7.2.1 23204 1qscA 191 3.46e+01 1d0aB b.8.1.1 23250 h.1.2.1 45457 3dpa 218 3.47e+01 1qpxA b.1.11.1 22323 b.7.2.1 23205 1n0lA 224 3.48e+01 b.1.11.1 79744 b.7.2.1 79745 1ca9A 192 3.48e+01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1r31A 428 3.50e+01 1woqA 267 3.59e+01 1izkA 637 3.66e+01 b.1.18.2 83844 b.71.1.1 83845 c.1.8.1 83846 1v58A 241 3.73e+01 1av6A 295 4.00e+01 3mag c.66.1.25 34218