# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 4.86e-02 1cviA c.60.1.2 33989 2hpaA 342 5.05e-02 1cviA c.60.1.2 33985 1fxoA 293 4.72e-01 1g0rA c.68.1.6 34524 1rpa 342 4.77e-01 1cviA c.60.1.2 33983 1bet 107 4.80e-01 1bndA g.17.1.3 44801 1quqB 121 9.31e-01 1quqB b.40.4.3 25305 1g0rA 293 1.35e+00 1g0rA c.68.1.6 34532 1h5rA 293 2.16e+00 c.68.1.6 65623 2pldA 105 2.90e+00 1qadA d.93.1.1 40521 1d0nA 729 2.93e+00 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 1bia 321 3.76e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1bolA 222 4.31e+00 1bolA d.124.1.1 41120 3vtk 343 5.30e+00 1qhiA c.37.1.1 31884 1g0uI 205 5.92e+00 d.153.1.4 41891 1rypJ 204 6.15e+00 d.153.1.4 41878 1dv1A 449 6.49e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1bncB 449 6.62e+00 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1yagG 125 6.64e+00 1d0nA d.109.1.1 40846 1d4xG 126 6.70e+00 1d0nA d.109.1.1 59109 1gyxA 76 9.49e+00 1a6jA 163 1.07e+01 1a6jA d.112.1.1 40915 1d2kA 392 1.12e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1mai 131 1.18e+01 1mai b.55.1.1 26951 1k7wA 468 1.20e+01 1eg5A 384 1.24e+01 1ecxA c.67.1.3 34429 1bjx 110 1.31e+01 1bjx c.47.1.2 32774 2bjxA 110 1.31e+01 1bjx c.47.1.2 32776 2rslA 140 1.36e+01 2rslA c.53.1.1 33345 1ecxA 384 1.40e+01 1ecxA c.67.1.3 34431 1kimA 366 1.42e+01 1qhiA c.37.1.1 31864 1dcnD 436 1.49e+01 1auwA a.127.1.1 19423 2ki5A 366 1.76e+01 1qhiA c.37.1.1 31862 1qhiA 366 1.78e+01 1qhiA c.37.1.1 31860 1bib 321 1.79e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1a28A 256 1.97e+01 1a28A a.123.1.1 19290 1auwA 468 1.98e+01 1auwA a.127.1.1 19416 1fiwA 290 2.10e+01 5ptp 1kamA 194 2.17e+01 1dpb 243 2.18e+01 1eaf c.43.1.1 32618 2pleA 105 2.21e+01 1qadA d.93.1.1 40522 1bncA 449 2.45e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1e1xA 299 2.56e+01 1hcl d.144.1.1 59157 1hcl 298 2.57e+01 1hcl d.144.1.1 41593 1bag 425 2.59e+01 1bag b.71.1.1 27720 c.1.8.1 28707 2gatA 66 2.65e+01 1gatA g.39.1.1 45102 3gatA 66 2.65e+01 1gatA g.39.1.1 45103 1h99A 224 2.66e+01 a.142.1.1 60814 a.142.1.1 60815 1i50B 1224 2.75e+01 e.29.1.2 61755 1dcnA 424 2.76e+01 1auwA a.127.1.1 19420 1gatA 60 2.77e+01 1gatA g.39.1.1 45106 1jvpP 298 2.91e+01 d.144.1.1 67371 1rec 201 2.91e+01 1rec a.39.1.5 17326 1e2kA 331 2.92e+01 1qhiA c.37.1.1 31854 1a6wL 109 2.97e+01 1mfa b.1.1.1 20252 1bcpF 99 2.98e+01 1prtF b.40.2.1 25142 1irqA 71 3.03e+01 a.43.1.2 66297 1uok 558 3.10e+01 1uok b.71.1.1 27801 c.1.8.1 28788 3lck 271 3.12e+01 1fmk d.144.1.2 41686 1fj2A 232 3.29e+01 1auoA c.69.1.14 34720 1lox 662 3.31e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1f46A 140 3.42e+01 1f46A d.129.4.1 59643 1prtF 98 3.44e+01 1prtF b.40.2.1 25140 12asA 330 3.49e+01 12asA d.104.1.1 40783 1ji2A 585 3.51e+01 1iqaA 160 3.70e+01 1blxA 326 3.79e+01 1hcl d.144.1.1 41596 1f47B 144 3.88e+01 1f46A d.129.4.1 59645