# List of top-scoring protein chains for t04-w0.5-1-alpha-0.1-scores 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.
#
#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	SCOP_domain	SCOP_suid
5S	5N	12S	12S	10N
1s5aA	150	7.15e-15	d.17.4.10	98525
2bngA	149	4.84e-14		
1nwwA	149	5.27e-14	d.17.4.8	86306
2geyA	158	1.52e-13		
1tuhA	156	1.84e-13	d.17.4.11	107345
1sjwA	144	3.27e-13	d.17.4.9	98899
1oh0A	131	4.13e-13	d.17.4.3	87004
2a15A	139	5.05e-13	d.17.4.3	125973
1dmmA	131	5.75e-13	d.17.4.3	38114
1ohpA	125	5.92e-13	d.17.4.3	118702
1opy	131	1.94e-12		
1ocvA	125	6.37e-12	d.17.4.3	86810
2rfrA	155	2.16e-07		
3cu3A	172	2.58e-07		
2gxfA	142	5.88e-07		
2r4iA	123	1.13e-06		
2chcA	170	1.44e-06		
2ux0A	143	2.40e-06		
1hkxA	147	5.75e-06	d.17.4.7	83567
3b7cA	122	9.09e-06		
2f86B	143	2.43e-05		
3bb9A	148	5.14e-05		
3cnxA	170	0.000114		
3blzA	128	0.000192		
1m98A	317	0.03502	a.175.1.1,d.17.4.6	78866,78867
1tp6A	128	0.04338	d.17.4.12	107184
2imjA	166	0.07429		
2owpA	129	0.08246		
1zx2A	147	0.1314		
2rgqA	144	0.1425		
2b1xB	172	0.7318	d.17.4.4	127677
2gbwB	174	0.9557		
2ckfB	174	1.125		
1zo2A	129	2.500		
1uliB	187	2.599	d.17.4.4	107923
1gybA	125	3.169	d.17.4.2	70744
1std	172	3.391		
3stdA	165	3.418	d.17.4.1	38073
1gy6A	127	4.127	d.17.4.2	70736
3bczA	293	5.133		
1gy7A	125	8.556	d.17.4.2	70738
2qiyA	154	11.07		
2qguA	211	16.01		
1jkgA	140	16.59	d.17.4.2	66795
2cw9A	194	17.84	d.17.4.13	130920
1qysA	106	19.19	k.41.1.1	96603
1of5B	184	20.99	d.17.4.2	86934
1zdrA	164	25.54		
1ounA	127	29.09	d.17.4.2	38090
1jqgA	433	30.06	c.56.5.1,d.58.3.1	71791,71792
1tuaA	191	31.03	d.51.1.1,d.51.1.1	107321,107322
2fckA	181	39.85	d.108.1.1	133272
2blcA	238	40.68		
2qyxA	238	42.41		
2z10A	194	42.56		
2qsjA	154	43.44		
2ol2A	395	49.04		
2esrA	177	51.00	c.66.1.46	132344
2bmoB	194	54.04	d.17.4.4	128806
2bl9A	238	57.30		
1yvoA	172	62.22	d.108.1.1	124106
1on0A	158	66.29	d.108.1.1	87095
1yk3A	210	66.48	d.108.1.1	123493
1nkrA	201	79.61	b.1.1.4,b.1.1.4	21799,21800
1yr0A	175	80.71	d.108.1.1	123905
2qflA	267	85.74		
1juvA	193	86.31	c.71.1.1	90912
1l1zA	274	88.13	a.156.1.2,b.113.1.1,g.39.1.8	75911,75912,75913
2v95A	371	88.91		
2hglA	136	89.99