# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 2hpaA 342 3.46e-02 1cviA c.60.1.2 33985 1cviA 342 3.79e-02 1cviA c.60.1.2 33989 1rpa 342 3.69e-01 1cviA c.60.1.2 33983 1quqB 121 4.40e-01 1quqB b.40.4.3 25305 1bet 107 5.00e-01 1bndA g.17.1.3 44801 1fxoA 293 7.77e-01 1g0rA c.68.1.6 34524 1d0nA 729 2.22e+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 1bolA 222 2.28e+00 1bolA d.124.1.1 41120 1h5rA 293 2.77e+00 c.68.1.6 65623 1g0rA 293 2.93e+00 1g0rA c.68.1.6 34532 2pldA 105 3.20e+00 1qadA d.93.1.1 40521 1yagG 125 4.32e+00 1d0nA d.109.1.1 40846 1a6jA 163 5.61e+00 1a6jA d.112.1.1 40915 1d4xG 126 5.74e+00 1d0nA d.109.1.1 59109 1bncB 449 7.05e+00 1bncA b.84.2.1 28237 c.30.1.1 31644 d.142.1.2 41489 1bia 321 7.33e+00 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1dv1A 449 7.62e+00 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1dqaA 467 8.18e+00 1dqaA d.58.20.1 39364 d.179.1.1 42585 1hs6A 611 9.13e+00 1hs6A a.118.1.7 61233 b.98.1.1 61234 d.92.1.13 61235 1hw8A 467 9.41e+00 1dqaA d.58.20.1 61298 d.179.1.1 61299 1bib 321 1.02e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1dqaC 467 1.03e+01 1dqaA d.58.20.1 39366 d.179.1.1 42587 1ecxA 384 1.12e+01 1ecxA c.67.1.3 34431 3vtk 343 1.25e+01 1qhiA c.37.1.1 31884 1eg5A 384 1.36e+01 1ecxA c.67.1.3 34429 1mai 131 1.45e+01 1mai b.55.1.1 26951 1a6wL 109 1.71e+01 1mfa b.1.1.1 20252 1h99A 224 1.75e+01 a.142.1.1 60814 a.142.1.1 60815 1bag 425 1.81e+01 1bag b.71.1.1 27720 c.1.8.1 28707 1gyxA 76 1.90e+01 12asA 330 1.95e+01 12asA d.104.1.1 40783 2pleA 105 2.01e+01 1qadA d.93.1.1 40522 1g0uI 205 2.08e+01 d.153.1.4 41891 1bcpF 99 2.08e+01 1prtF b.40.2.1 25142 1rypJ 204 2.22e+01 d.153.1.4 41878 1d2kA 392 2.26e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1jjfA 268 2.27e+01 c.69.1.2 66765 1uok 558 2.28e+01 1uok b.71.1.1 27801 c.1.8.1 28788 1k7wA 468 2.28e+01 1ig8A 486 2.33e+01 2yhx c.55.1.3 64746 c.55.1.3 64747 1dcnD 436 2.35e+01 1auwA a.127.1.1 19423 1im8A 244 2.42e+01 c.66.1.14 66212 1bncA 449 2.43e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1kbhB 59 2.49e+01 a.153.1.1 68383 1ji2A 585 2.53e+01 1lbvA 252 2.56e+01 1bjx 110 2.60e+01 1bjx c.47.1.2 32774 2bjxA 110 2.60e+01 1bjx c.47.1.2 32776 1a6uL 108 2.72e+01 1mfa b.1.1.1 20254 1prtF 98 2.87e+01 1prtF b.40.2.1 25140 1gatA 60 2.88e+01 1gatA g.39.1.1 45106 1daqA 71 2.88e+01 1daqA a.139.1.1 59113 1a28A 256 2.93e+01 1a28A a.123.1.1 19290 3gatA 66 3.00e+01 1gatA g.39.1.1 45103 1iqaA 160 3.01e+01 1ah6 220 3.04e+01 1yer d.122.1.1 41094 2gatA 66 3.13e+01 1gatA g.39.1.1 45102 1g5aA 628 3.13e+01 b.71.1.1 65152 c.1.8.1 65153 1fzvA 132 3.17e+01 1vpfA g.17.1.1 60159 1gdtA 183 3.27e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1fl7B 111 3.33e+01 1hcnB g.17.1.4 59872 1vppV 102 3.43e+01 1vpfA g.17.1.1 44753 1auwA 468 3.49e+01 1auwA a.127.1.1 19416 1cy5A 97 3.51e+01 1cy5A a.77.1.1 18430 1fltV 98 3.59e+01 1vpfA g.17.1.1 44751 1qp8A 303 3.67e+01 1qp8A c.2.1.4 30092 c.23.12.1 31352 1irqA 71 3.67e+01 a.43.1.2 66297 1f3uB 171 3.71e+01 1f3uB b.65.1.1 27525 1i50B 1224 3.74e+01 e.29.1.2 61755 1a1d 146 3.98e+01 1a1d b.40.4.8 25394