# List of top-scoring protein chains for YGR034W.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 1s1iU 126 1.14e-19 1s72T 120 8.49e-17 1jj2S 119 1.05e-16 1ffkQ b.34.5.1 63104 1p85S 103 3.79e-12 i.1.1.1 87887 1nkwS 115 8.78e-12 i.1.1.2 80604 1pnuS 113 8.99e-12 i.1.1.1 88216 1nz9A 58 1.39e-03 1m1hA 248 2.19e-01 b.114.1.1 78415 d.58.42.1 78416 1uezA 101 9.44e-01 1sxjA 511 1.16e+00 1jj2R 84 1.52e+00 1ffkP d.12.1.1 63103 1s72S 85 1.54e+00 1s4vA 229 1.56e+00 1fl2A 310 2.27e+00 1hyuA c.3.1.5 59869 c.3.1.5 59870 1a4yA 460 2.35e+00 1a4yA c.10.1.1 30852 1hyuA 521 3.72e+00 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 1nykA 165 4.25e+00 b.33.1.1 86408 1n8nA 212 5.26e+00 1trjA 314 8.19e+00 1eysH 259 8.93e+00 6prcH b.41.1.1 25484 f.23.10.1 43517 1vib 55 1.09e+01 1vib g.2.2.1 43999 1e32A 458 1.14e+01 1e32A b.52.2.3 59183 c.37.1.20 59184 d.31.1.1 59185 1uoeA 366 1.27e+01 1gowA 489 1.34e+01 1qvbA c.1.8.4 28981 1mjfA 281 1.37e+01 c.66.1.17 79198 1ilr1 152 1.44e+01 1irp 1irp 153 1.44e+01 1irp b.42.1.2 25559 1oi2A 366 1.47e+01 c.32.1.2 87039 d.79.2.2 87040 1uwsA 489 1.63e+01 1g1pA 33 1.77e+01 1g1pA g.3.6.1 44099 2dynA 122 1.84e+01 1dynA b.55.1.1 26957 1dynA 125 1.89e+01 1dynA b.55.1.1 26955 1m2tA 254 2.04e+01 d.165.1.1 84761 1on2A 142 2.19e+01 a.4.5.24 87103 a.76.1.1 87104 1eg0J 171 2.22e+01 1rl6A i.1.1.1 45816 1oz4A 806 2.23e+01 1r7rA 816 2.24e+01 1qs0B 338 2.27e+01 1qs0B c.36.1.7 31830 c.48.1.2 33103 1u5vA 273 2.32e+01 1u5hA 273 2.32e+01 1q5vA 133 2.43e+01 1vecA 206 2.61e+01 1nhp 447 2.64e+01 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1nhq 447 2.64e+01 1nhp c.3.1.5 30551 c.3.1.5 30552 d.87.1.1 40197 1npx 447 2.66e+01 1nhp c.3.1.5 30557 c.3.1.5 30558 d.87.1.1 40200 1gs5A 258 2.67e+01 c.73.1.2 70395 1f8wA 447 2.68e+01 1nhp c.3.1.5 30561 c.3.1.5 30562 d.87.1.1 40202 1nhr 447 2.69e+01 1nhp c.3.1.5 30553 c.3.1.5 30554 d.87.1.1 40198 1nhs 447 2.69e+01 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1mmq 170 2.70e+01 1hfc d.92.1.11 40396 1stzA 338 2.75e+01 1frvA 264 2.87e+01 2frvA e.19.1.1 43308 487dJ 164 2.90e+01 1rl6A i.1.1.2 45837 1sgzA 389 2.97e+01 1s1iQ 100 3.10e+01 1oz7A 131 3.12e+01 1fknA 391 3.13e+01 1fknA b.50.1.2 26879 1dzfA 215 3.14e+01 1dzfA c.52.3.1 33344 d.78.1.1 39753 1ge9A 184 3.17e+01 1dd5A d.67.3.1 60463 1jehA 478 3.22e+01 1lvl c.3.1.5 62912 c.3.1.5 62913 d.87.1.1 62914 1vmeA 410 3.24e+01 1ksiA 642 3.33e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1iweA 457 3.37e+01 c.37.1.10 71486 1f5qB 252 3.42e+01 1f5qB a.74.1.1 18362 a.74.1.1 18363 1vlbA 907 3.44e+01 1cs8A 316 3.48e+01 1cs8A d.3.1.1 37065 1bwzA 274 3.68e+01 1bwzA d.21.1.1 38337 d.21.1.1 38338 1vl6A 388 3.69e+01 1hdkA 141 3.74e+01 b.29.1.3 65807 1um8A 376 3.76e+01 1lcl 142 3.76e+01 1lcl b.29.1.3 24216 1k23A 309 3.77e+01 c.107.1.1 68029 1w50A 411 3.88e+01