# List of top-scoring protein chains for YAL037C-B.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 1rhhA 215 5.81e+00 b.1.1.1 97473 b.1.1.2 97474 1it9L 214 6.54e+00 b.1.1.1 76785 b.1.1.2 76786 1s3kL 219 6.71e+00 b.1.1.1 105239 b.1.1.2 105240 1mngA 203 7.64e+00 1avmA a.2.11.1 15776 d.44.1.1 38701 3sdpA 195 8.19e+00 1avmA a.2.11.1 15729 d.44.1.1 38722 1dt0A 197 8.94e+00 1avmA a.2.11.1 15726 d.44.1.1 38719 1iscA 192 9.90e+00 1avmA a.2.11.1 15733 d.44.1.1 38726 1za6A 220 1.03e+01 1z0hA 438 1.39e+01 1a7qH 116 1.45e+01 1gc1H b.1.1.1 19955 1mvuA 114 1.47e+01 b.1.1.1 91474 2awpA 198 1.48e+01 1qwtA 255 1.48e+01 b.26.1.3 96501 2ap2A 115 1.49e+01 8fabA b.1.1.1 20178 1ap2A 113 1.49e+01 8fabA b.1.1.1 20182 1j2fA 258 1.50e+01 b.26.1.3 90785 1q4nX 496 1.51e+01 b.71.1.1 95807 c.1.8.1 95808 1dsfL 112 1.56e+01 8fabA b.1.1.1 20246 1smrA 335 1.72e+01 1smrA b.50.1.2 26878 1e18A 823 1.92e+01 1dmr b.52.2.2 26907 c.81.1.1 35315 1pqsA 77 1.95e+01 d.15.2.2 88277 1tz1A 80 1.97e+01 1j4nA 271 1.98e+01 f.19.1.1 71510 1ry7B 334 2.00e+01 b.1.1.4 98092 b.1.1.4 98093 1ffyA 917 2.00e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1cfvL 113 2.03e+01 8fabA b.1.1.1 20160 1q1oA 98 2.20e+01 d.15.2.2 95596 1a4jA 217 2.21e+01 8fabA b.1.1.1 20232 b.1.1.2 21244 1li1A 229 2.22e+01 d.169.1.6 73898 d.169.1.6 73899 2bcfA 276 2.25e+01 1wt5C 122 2.25e+01 1dms 781 2.38e+01 1dmr b.52.2.2 26906 c.81.1.1 35314 1wlsA 328 2.47e+01 1dviA 184 2.48e+01 1alvA a.39.1.8 17365 2aazA 317 2.53e+01 1tzgL 214 2.53e+01 1cbg 490 2.55e+01 1e70M c.1.8.4 28933 1mz5A 638 2.55e+01 b.29.1.15 79679 b.68.1.1 79680 1rziA 212 2.59e+01 b.1.1.1 98166 b.1.1.2 98167 1ecl 597 2.63e+01 1ecl e.10.1.1 43238 1cy2A 599 2.64e+01 1ecl e.10.1.1 43241 1aj5A 173 2.65e+01 1alvA a.39.1.8 17367 1mw9X 592 2.68e+01 e.10.1.1 91480 1hezA 214 2.72e+01 32c2A b.1.1.1 60983 b.1.1.2 60984 1deeA 214 2.79e+01 32c2A b.1.1.1 20442 b.1.1.2 21408 4dmr 823 2.88e+01 1dmr b.52.2.2 26905 c.81.1.1 35313 1zhhB 242 2.88e+01 1tb6I 432 2.90e+01 e.1.1.1 106738 1df0B 184 2.91e+01 1alvA a.39.1.8 17369 1frfS 264 2.91e+01 2frvA e.19.1.1 43312 1dmr 823 2.91e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1e61A 823 2.93e+01 1dmr b.52.2.2 26908 c.81.1.1 35316 1z32X 496 2.93e+01 1smd 496 2.95e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1jxjA 496 2.95e+01 b.71.1.1 63314 c.1.8.1 63315 1nm9A 496 3.00e+01 b.71.1.1 91974 c.1.8.1 91975 1ivlA 107 3.07e+01 8fabA b.1.1.1 20516 1sznA 417 3.19e+01 b.71.1.1 106162 c.1.8.1 106163 1oyhI 432 3.21e+01 e.1.1.1 93727 2fgrA 332 3.21e+01 1t3fA 214 3.21e+01 2fgqX 332 3.22e+01 1f28A 297 3.22e+01 1bkpA d.117.1.1 59608 1u6aL 215 3.23e+01 1dlfL 113 3.23e+01 8fabA b.1.1.1 20382 1a4kA 217 3.29e+01 8fabA b.1.1.1 20236 b.1.1.2 21248 1jr9A 202 3.29e+01 a.2.11.1 71822 d.44.1.1 71823 1jvqI 432 3.39e+01 e.1.1.1 84232 1xipA 388 3.41e+01 1tziA 214 3.41e+01 b.1.1.1 107487 b.1.1.2 107488 1oz2A 331 3.46e+01 b.34.9.3 93781 b.34.9.3 93782 b.34.9.3 93783 1np8A 159 3.49e+01 a.39.1.8 92022 1fptH 220 3.49e+01 1mfa b.1.1.1 20031 b.1.1.2 21085 2tsrA 307 3.50e+01 1bkpA d.117.1.1 41043 1j1xL 107 3.51e+01 b.1.1.1 77064 1uacL 107 3.54e+01 b.1.1.1 99133 1elvA 333 3.56e+01 5ptp b.47.1.2 59454 g.18.1.1 59455 1xgzA 496 3.57e+01 1iqdA 211 3.61e+01 32c2A b.1.1.1 62644 b.1.1.2 62645 1hzwA 290 3.61e+01 1bkpA d.117.1.1 61464 1jihA 531 3.64e+01 d.240.1.1 90374 e.8.1.7 90375 1t61A 229 3.67e+01 d.169.1.6 106529 d.169.1.6 106530 1y3nA 490 3.67e+01 1vgeL 214 3.69e+01 8fabA b.1.1.1 20094 b.1.1.2 21126 1mhpL 212 3.70e+01 b.1.1.1 84969 b.1.1.2 84970 1v5dA 386 3.71e+01 1xmwA 178 3.72e+01 1alvA 173 3.77e+01 1alvA a.39.1.8 17370 1pkqA 241 3.78e+01 b.1.1.1 88148 b.1.1.2 88149 1eeqA 114 3.83e+01 32c2A b.1.1.1 20544 2imm 114 3.87e+01 8fabA b.1.1.1 19857 1dl7H 112 3.88e+01 1f3rB b.1.1.1 20499 1lve 122 3.91e+01 8fabA b.1.1.1 20553 1fl5A 217 3.96e+01 b.1.1.1 65015 b.1.1.2 65016 1evtC 225 3.99e+01 1cvsC b.1.1.4 21730 b.1.1.4 21731