# 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
1e54A	332	7.35e-38	f.4.3.1	59258
2fgqX	332	2.48e-37	f.4.3.1	133439
2j1nA	346	3.02e-36		
1hxxA	340	4.74e-36	f.4.3.1	61385
2omf	340	1.28e-35		
2porA	301	1.36e-33	f.4.3.1	43759
2por	301	1.02e-30		
3prn	289	3.59e-29		
3prnA	289	2.54e-28	f.4.3.1	43761
1prn	289	8.16e-12		
2o4vA	411	1.01e-10		
1fepA	724	0.003088	f.4.3.3	43808
1t16A	427	0.01731	f.4.3.4	106242
1nqeA	594	0.04357	f.4.3.3	86027
2gufA	594	0.07441	f.4.3.3	135736
1p4tA	155	0.1501	f.4.1.1	87779
1qfgA	725	0.2228	f.4.3.3	43803
1kmoA	774	0.2328	f.4.3.3	72753
1qjpA	171	0.3284	f.4.1.1	43742
2f1vA	197	0.4407		
1po0A	751	0.5138	f.4.3.3	94960
2mprA	421	1.197	f.4.3.2	43788
1xkwA	665	1.388		
2odjA	428	1.440		
1a0tP	413	1.920	f.4.3.2	43794
2hdiA	639	2.057		
1i78A	297	3.027	f.4.4.1	66046
2mev1	277	3.173		
2iwvA	281	5.303		
2eh6A	375	7.041		
1py5A	326	7.450	d.144.1.7	104389
2pb2A	420	9.216		
1vjyA	303	9.717	d.144.1.7	108633
1v0eA	666	10.44	b.68.1.2,b.108.1.3	113466,113467
1xf1A	926	10.69		
1vjvA	415	14.38	d.3.1.9	108632
1qj8A	148	15.42	f.4.1.1	43744
2f1cX	286	16.11		
2qv3A	457	20.35		
1owqA	361	20.46	c.1.8.5,d.26.3.1	104041,104042
2fuvA	549	23.88		
3cgvA	397	23.93		
2d1pB	119	24.00	c.114.1.1	131137
2hp1A	432	24.75		
1qcxA	359	25.52	b.80.1.2	28028
1vjuA	309	26.39	d.248.1.1	100835
1zgkA	308	27.39		
1gt91	357	27.75		
1qd6C	240	28.91		
1arbA	268	31.04	b.47.1.1	25766
2jqyA	280	31.11		
2psoA	237	32.15		
1pov1	302	39.40		
2c9wA	169	39.43		
2g3fA	421	39.62		
1gkpA	458	39.77	b.92.1.3,c.1.9.6	70231,70232
2a7bA	120	43.05	b.1.10.2	126333
2p0mA	662	43.05		
1aym1	285	44.28		
1pvc1	301	48.53		
2hmcA	344	50.27		
1rxxA	421	52.80	d.126.1.4	98061
1pt6A	213	55.37	c.62.1.1	95091
2d6mA	159	58.44		
1oflA	481	64.70	b.80.1.4	103934
2bjkA	516	65.80		
1zodA	433	67.47	c.67.1.4	125437
2qtcA	886	68.04		
1an8	208	69.65		
2cy8A	453	69.87		
1oa2A	218	71.90	b.29.1.11	86721
1hurA	180	72.58	c.37.1.8	32052
3bs2A	148	73.22		
1cs1A	386	75.58	c.67.1.3	34399
2nruA	307	79.05		
1txnA	328	85.77	d.248.1.1	112779
1qg4A	216	85.86	c.37.1.8	32035
1iu1A	146	87.15	b.1.10.2	71428
1bkcE	256	87.76	d.92.1.10	40333
2ftwA	521	89.33	b.92.1.3,c.1.9.6	134083,134084