# 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
1yqyA	523	0.03874	d.92.1.14,d.166.1.1	123903,123904
1nq7A	244	11.49	a.123.1.1	92047
1zgyA	272	12.02	a.123.1.1	125064
1fcyA	236	13.17	a.123.1.1	19282
2q22A	139	14.70		
1pzlA	237	16.02	a.123.1.1	104393
2gdrA	202	21.57		
2o36A	674	26.01		
2gpuA	230	28.62	a.123.1.1	135493
1ezm	301	28.82		
1uzeA	589	31.39	d.92.1.5	108174
1bqbA	301	33.68	d.92.1.2	58962
1kapP	479	33.88	b.80.7.1,d.92.1.6	28012,40298
2e62A	61	34.28		
1nrlA	316	35.03	a.123.1.1	92091
1c7kA	132	35.80	d.92.1.1	59078
1upvA	257	38.50	a.123.1.1	113398
2cz2A	223	42.84		
1mmqA	170	43.87	d.92.1.11	40396
1hg4A	279	45.57	a.123.1.1	19333
1go7P	462	46.55	b.80.7.1,d.92.1.6	76245,76246
1ovlA	271	48.16	a.123.1.1	87455
1kagA	173	48.34	c.37.1.2	72249
1mpuA	138	48.89	d.169.1.1	85040
1tltA	319	50.13	c.2.1.3,d.81.1.5	107135,107136
1iab	200	51.09		
2p8tA	200	51.87		
1n83A	270	52.01	a.123.1.1	80276
2ebn	289	55.21		
1ctjA	89	58.51	a.3.1.1	15798
1n46A	258	59.57	a.123.1.1	85315
2b5iB	214	60.42	b.1.2.1,b.1.2.1	127896,127897
1xpcA	248	61.19	a.123.1.1	115738
1pq9A	253	61.91	a.123.1.1	95004
1t7rA	269	64.14	a.123.1.1	106635
1nu4A	97	64.48	d.58.7.1	80731
1bli	483	64.62		
2g8lA	299	66.32	e.50.1.1	134775
1iabA	200	66.80	d.92.1.8	40312
8tlnE	316	67.42	d.92.1.2	59075
2pq8A	278	68.74		
1kuh	132	69.39		
1iae	200	69.91		
1ymtA	246	73.10		
2aaxA	275	75.61		
1j7nA	776	75.66	d.92.1.14,d.92.1.14,d.166.1.1	66409,66410,66411
1t07A	94	77.13	d.279.1.1	106196
1hq8A	123	79.07	d.169.1.1	61127
1qkmA	255	79.33	a.123.1.1	19309
1d3cA	686	80.33	b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1	21827,22496,27734,28721
3c5tA	122	81.76		
2ntoA	201	83.60		
1pk5A	248	84.72	a.123.1.1	88139
1sat	471	86.86		
2ajfA	597	86.87	d.92.1.5	126882
1u4gA	301	87.54	d.92.1.2	107670
2qr4A	587	87.92		
2h1nA	567	88.46		
2pt5A	168	89.00