# 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://compbio.soe.ucsc.edu/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
2o0tA	467	1.30e-41		
1twiA	434	2.39e-41	b.49.2.3,c.1.6.1	107399,107400
1tufA	434	4.02e-41	b.49.2.3,c.1.6.1	107335,107336
2qghA	425	4.26e-41		
2p3eA	420	5.39e-38		
1knwA	425	9.83e-37	b.49.2.3,c.1.6.1	90969,90970
2j66A	428	1.23e-36		
7odcA	424	1.53e-35	b.49.2.3,c.1.6.1	26488,28650
2yxxA	386	1.65e-35		
2pljA	419	1.15e-34		
2nvaA	372	7.77e-33		
1xfcA	384	2.21e-24		
2dy3A	361	4.97e-23		
1rcqA	357	1.09e-22	b.49.2.2,c.1.6.1	104882,104883
3gwqA	426	1.20e-22		
2vd8A	391	2.49e-21		
1bd0A	388	1.05e-20	b.49.2.2,c.1.6.1	26480,28642
1vfsA	386	2.82e-20	b.49.2.2,c.1.6.1	108584,108585
3co8A	380	2.83e-19		
3llxA	376	4.75e-16		
3kw3A	376	1.21e-11		
3hurA	395	2.30e-09		
3e6eA	371	1.45e-06		
1w8gA	234	0.006049		
3cpgA	282	0.03896		
3lhlA	287	0.3938		
2wnwA	447	5.524		
1kyzA	365	10.77	a.4.5.29,c.66.1.12	73312,73313
1l2uA	245	13.21	c.1.2.3	73516
1e39A	571	14.57	a.138.1.3,c.3.1.4,d.168.1.1	19694,30431,42314
1ct5A	256	16.01	c.1.6.2	28663
1xfkA	336	16.67	c.42.1.1	115264
1qtwA	285	17.13	c.1.15.1	29392
2h4pA	394	19.18		
1qfeA	252	22.64	c.1.10.1	29167
1qo8A	566	23.43	a.138.1.3,c.3.1.4,d.168.1.1	19696,30433,42316
1rlkA	117	27.93	c.131.1.1	97651
2vc7A	314	28.41		
1gqnA	252	28.60	c.1.10.1	90514
2a0mA	316	30.81	c.42.1.1	125960
2kksA	146	31.74		
3bdwB	120	32.36		
1d3vA	323	32.67	c.42.1.1	32559
1ojxA	263	33.40	c.1.10.1	93164
1k77A	260	33.83	c.1.15.5	72096
2ef5A	290	40.42		
3ladA	476	42.56	c.3.1.5,c.3.1.5,d.87.1.1	30573,30574,40208
1f6yA	262	42.90	c.1.21.2	29673
2qkfA	280	45.00		
1oapA	109	45.07	d.79.7.1	92706
1q7sA	117	46.13	c.131.1.1	96055
2rauA	354	48.07		
2hk0A	309	51.03		
1bu8A	452	54.40	b.12.1.2,c.69.1.19	23647,34795
1x31B	404	55.54		
3guvA	167	56.68		
1ejxC	567	57.22	b.92.1.1,c.1.9.2	83184,83185
1sfjA	238	60.22	c.1.10.1	112075
3ipwA	325	60.43		
1o08A	221	60.49	c.108.1.6	86525
2hdwA	367	66.04		
2z1eA	342	67.17	d.79.4.1,d.139.1.1	153932,153933
3m7wA	255	68.03		
3ewiA	168	68.23		
3iivA	263	71.50		
1kssA	571	71.89	a.138.1.3,c.3.1.4,d.168.1.1	72928,72929,72930
1u69A	163	72.66	d.32.1.7	107699
3mmzA	176	74.03		
2ajtA	500	74.06	b.43.2.2,c.85.1.2	126894,126895
2vsnA	568	74.53		
2vu1A	392	75.57		
1gq6A	313	75.60	c.42.1.1	70341
2yr1A	257	77.63		
2bc4A	211	81.81		
3ju2A	284	82.07		
1gpl	432	83.18		
1vdzA	588	83.91		
2f4nA	273	85.85		
2pc8A	400	87.07		
3e49A	311	87.24		
2pr7A	137	89.96