# 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
1ro0A	216	3.716	d.264.1.2	97664
3cbnA	151	4.563		
1eejA	216	5.143	c.47.1.9,d.17.3.1	33057,38071
2g0bA	198	5.879		
1ad2A	228	9.190	e.24.1.1	43353
1zhvA	134	9.246	d.58.18.8,d.58.18.8	125109,125110
1vpvA	300	9.584	c.119.1.1	113975
1ro2A	216	10.69	d.264.1.2	97665
2d1zA	436	10.95		
1x3cA	73	11.85	g.37.1.1	121660
1iirA	415	12.53	c.87.1.5	62453
1x6oA	174	16.71	b.34.5.2,b.40.4.5	109493,109494
1khiA	176	23.19	b.34.5.2,b.40.4.5	77408,77409
1keqA	248	23.81	b.74.1.1	72387
2opkA	112	25.09		
1mo7A	213	25.51	d.220.1.1	85028
1vjrA	271	28.39	c.108.1.14	100832
2f69A	261	30.76	b.76.2.1,b.85.7.1	133035,133036
1ez0A	510	31.79	c.82.1.1	35385
2hq9A	149	32.49	b.45.1.1	136659
2fr2A	172	35.91	b.60.1.8	133963
2oczA	231	37.12		
3c3bA	420	37.32		
2vqeI	128	38.48		
2r76A	152	39.19		
2snsA	149	39.23	b.40.1.1	24860
2fafA	608	45.69		
1x8hA	228	50.17	d.157.1.1	114961
1mgpA	313	51.57	c.119.1.1	79098
2nvoA	535	53.67		
2cbiA	594	55.47	a.246.1.1,c.1.8.10,d.92.2.3	130179,130180,130181
2awfA	172	55.79	d.20.1.1	127432
2uxyA	341	57.05		
1r6uA	437	59.07	c.26.1.1	97163
2nmxA	260	63.71	b.74.1.1	138382
1mfmA	153	64.82	b.1.8.1	22246
1ne9A	335	66.28	d.108.1.4,d.108.1.4	91839,91840
1t3bA	211	67.50	c.47.1.9,d.17.3.1	106341,106342
1f1gA	154	68.19	b.1.8.1	76153
3cpnA	330	68.61		
2vbkA	514	70.81		
3brgC	427	74.78		
2bgiA	272	75.65		
2qdxA	257	77.28		
1g7sA	594	77.77	b.43.3.1,b.43.3.1,c.20.1.1,c.37.1.8	25712,25713,31032,32147
2aj7A	163	78.61	b.158.1.1	126842
2engA	210	78.85	b.52.1.1	26895
1y43B	173	81.51		
3ullA	132	81.86	b.40.4.3	25282
2b5iC	199	83.32	b.1.2.1,b.1.2.1	127898,127899
2j67A	178	85.15		
1xrjA	261	87.35	c.37.1.6	122256
1l9xA	315	87.61	c.23.16.1	73762