# 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
1yt8A	539	2.60e-16	c.46.1.2,c.46.1.2,c.46.1.2,c.46.1.2	123996,123997,123998,123999
2hhgA	139	1.17e-15		
2oucA	142	1.86e-15		
1whbA	157	2.48e-15	c.46.1.4	114639
1qb0A	211	5.96e-15	c.46.1.1	32699
1rhsA	296	6.70e-15	c.46.1.2,c.46.1.2	32703,32704
1c25	161	7.93e-15		
1gmxA	108	1.02e-14	c.46.1.3	65355
1t3kA	152	1.54e-14	c.46.1.1	106357
1e0cA	271	1.77e-14	c.46.1.2,c.46.1.2	32717,32718
2j6pA	152	2.14e-14		
2a2kA	175	2.52e-14		
1ymkA	175	3.28e-14	c.46.1.1	123699
1uarA	285	3.84e-14	c.46.1.2,c.46.1.2	107762,107763
2fsxA	148	8.69e-14		
1rhs	296	3.13e-13		
2gwfA	157	3.74e-13	c.46.1.4	135802
1okgA	373	9.50e-13	c.46.1.2,c.46.1.2,d.26.1.3	93250,93251,93252
2eg4A	230	2.24e-11		
1wv9A	94	3.24e-10		
1zclA	180	3.772		
2b4pA	334	4.413		
2b4uA	335	4.645		
2f46A	156	4.837		
2c3zA	222	7.129		
5nulA	138	9.112	c.23.5.1	31191
1ywfA	296	10.12	c.45.1.5	124144
1yn9A	169	11.17		
2c46A	241	11.58		
1rxdA	159	16.91	c.45.1.1	111959
1zckA	154	16.94		
1yz4A	160	17.13		
2i6jA	161	17.16		
2p1zA	180	17.85		
2oycA	306	18.51		
1y0bA	197	18.89	c.61.1.1	122476
2ps1A	226	21.90		
2dy0A	190	22.05		
1x24A	180	24.08		
1y0eA	223	24.75	c.1.2.5	116297
2cybA	323	27.68		
1fpzA	212	28.03	c.45.1.1	59976
2cftA	298	29.93		
2imgA	151	31.15		
2c2xA	281	35.26		
1d5rA	324	36.92	b.7.1.1,c.45.1.1	23181,32697
5nul	138	37.44		
1vmkA	277	37.69	c.56.2.1	113680
1wrmA	165	37.80		
1l1eA	287	38.43	c.66.1.18	73454
2b4gA	317	40.00	c.1.4.1	127829
2ia4A	287	41.15		
1yfnA	118	41.95	b.136.1.1	123080
1d2eA	397	42.91	b.43.3.1,b.44.1.1,c.37.1.8	25701,25741,32136
2i8aA	252	43.37		
3bfxA	296	44.27		
2dm6A	333	47.15	b.35.1.2,c.2.1.1	131567,131568
2c29D	337	47.26		
1wchA	315	51.32	c.45.1.2	114508
2ggsA	273	51.37		
2gv8A	447	52.35	c.3.1.5,c.3.1.5	135759,135760
3b2yA	275	54.68		
1qgoA	264	56.11	c.92.1.2	35596
2eo5A	419	58.56		
1vrvA	101	59.05		
2yv1A	294	59.62		
1qb7A	236	60.85	c.61.1.1	34087
3cssA	267	62.76		
1kpgA	287	65.94	c.66.1.18	68735
1v04A	355	66.18	b.68.6.2	100240
1vhrA	184	67.35	c.45.1.1	32651
1je0A	236	67.50	c.56.2.1	66581
1i9gA	280	68.23	c.66.1.13	62090
2fe7A	166	69.78	d.108.1.1	133325
1r61A	207	69.88	c.8.8.1	97138
2fh7A	595	70.06		
2c5sA	413	70.24	c.26.2.6,d.308.1.1	129950,129951
2a5lA	200	72.45	c.23.5.8	126176
2hcmA	164	73.70		
1xxpA	306	73.88	c.45.1.2	122423
2hrdA	253	76.00		
2esbA	188	76.20		
2yzkA	178	80.60		
1qd1A	325	82.21	d.58.34.1,d.58.34.1	39493,39494
1j99A	293	82.85	c.37.1.5	71618
1rzfH	235	82.91	b.1.1.1,b.1.1.2	98150,98151
1tf5A	844	83.81	a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19	106834,106835,106836,106837
1fc6A	388	86.65	b.36.1.3,c.14.1.2	64738,64739
1f60A	458	87.03	b.43.3.1,b.44.1.1,c.37.1.8	25705,25745,32140
2pibA	216	88.77		
2omkA	231	89.41