# List of top-scoring protein chains for t2k-100-30-str 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 1cviA 342 1.43e-01 1cviA c.60.1.2 33989 2hpaA 342 2.35e-01 1cviA c.60.1.2 33985 1fxoA 293 2.95e-01 1g0rA c.68.1.6 34524 1quqB 121 4.56e-01 1quqB b.40.4.3 25305 1h5rA 293 7.64e-01 c.68.1.6 65623 1g0rA 293 1.35e+00 1g0rA c.68.1.6 34532 1rpa 342 1.62e+00 1cviA c.60.1.2 33983 1bet 107 2.29e+00 1bndA g.17.1.3 44801 2pldA 105 2.70e+00 1qadA d.93.1.1 40521 1ah6 220 4.48e+00 1yer d.122.1.1 41094 1bia 321 6.08e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1d2kA 392 7.27e+00 1d2kA c.1.8.5 29008 d.26.3.1 38442 1gyxA 76 7.82e+00 1bib 321 7.90e+00 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 3vtk 343 8.05e+00 1qhiA c.37.1.1 31884 1bncB 449 8.30e+00 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1dv1A 449 8.74e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1lbvA 252 1.13e+01 1hs6A 611 1.17e+01 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1a8p 258 1.17e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1bcpF 99 1.33e+01 1prtF b.40.2.1 25142 1prtF 98 1.40e+01 1prtF b.40.2.1 25140 2pleA 105 1.42e+01 1qadA d.93.1.1 40522 1rypJ 204 1.42e+01 d.153.1.4 41878 1mmsA 140 1.43e+01 1mmsA a.4.7.1 16247 d.47.1.1 38766 1g0uI 205 1.44e+01 d.153.1.4 41891 1d0nA 729 1.52e+01 1d0nA d.109.1.1 40834 d.109.1.1 40835 d.109.1.1 40836 d.109.1.1 40837 d.109.1.1 40838 d.109.1.1 40839 2rslA 140 1.61e+01 2rslA c.53.1.1 33345 1k7wA 468 1.63e+01 1a6jA 163 1.65e+01 1a6jA d.112.1.1 40915 1rypH 205 1.73e+01 d.153.1.4 41876 1uok 558 1.79e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1gdtA 183 1.91e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1hcl 298 1.94e+01 1hcl d.144.1.1 41593 1dcnD 436 2.00e+01 1auwA a.127.1.1 19423 1a6wL 109 2.01e+01 1mfa b.1.1.1 20252 1e1xA 299 2.10e+01 1hcl d.144.1.1 59157 1bolA 222 2.13e+01 1bolA d.124.1.1 41120 1dkzA 219 2.21e+01 1dkzA e.20.1.1 43314 1auwA 468 2.25e+01 1auwA a.127.1.1 19416 1vppV 102 2.26e+01 1vpfA g.17.1.1 44753 1f3yA 165 2.34e+01 d.113.1.1 59635 1jvpP 298 2.47e+01 d.144.1.1 67371 1bag 425 2.51e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1id0A 152 2.52e+01 d.122.1.3 66111 1gnhA 206 2.66e+01 1sacA b.29.1.5 24252 1a6uL 108 2.66e+01 1mfa b.1.1.1 20254 1eg5A 384 2.77e+01 1ecxA c.67.1.3 34429 1gatA 60 2.79e+01 1gatA g.39.1.1 45106 1wapA 75 2.82e+01 1wapA b.82.5.1 28153 1i50B 1224 2.85e+01 e.29.1.2 61755 1byqA 228 2.88e+01 1yer d.122.1.1 41100 1ig8A 486 2.89e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1bncA 449 2.90e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1ecxA 384 2.92e+01 1ecxA c.67.1.3 34431 1bftA 101 2.93e+01 1a3qA b.1.1.5 21934 1dkxA 219 2.94e+01 1dkzA e.20.1.1 43315 3lck 271 2.95e+01 1fmk d.144.1.2 41686 3gatA 66 3.05e+01 1gatA g.39.1.1 45103 2gatA 66 3.27e+01 1gatA g.39.1.1 45102 1fj2A 232 3.29e+01 1auoA c.69.1.14 34720 1h99A 224 3.32e+01 a.142.1.1 60814 a.142.1.1 60815 1yer 228 3.33e+01 1yer d.122.1.1 41101 1huxA 270 3.36e+01 1huxA c.55.1.5 61278 1iqaA 160 3.60e+01 487dL 133 3.72e+01 1mmsA i.1.1.2 45839 1gzgA 337 3.76e+01 1h5qA 265 3.81e+01 1cydA c.2.1.2 60643 1dqaA 467 3.90e+01 1dqaA d.58.20.1 39364 d.179.1.1 42585 1svpA 161 3.98e+01 1svpA b.47.1.3 26384