# List of top-scoring protein chains for t04-w0.5-1-n_sep-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
1zkoA	136	0.3583		
2evbA	74	0.9809		
1hpcA	131	0.9908	b.84.1.1	28221
1htp	131	1.024		
1y8oB	128	1.415	b.84.1.1	122759
2bcoA	350	3.132	c.56.5.7	128302
2e63A	170	3.156		
3c0dA	119	5.773		
2q4zA	312	5.919		
2qf7A	1165	6.948		
2odiA	238	8.016		
1ghj	79	8.142		
1bdo	80	9.934		
1lfoA	127	10.86	b.60.1.2	27223
1vqoA	240	11.02	b.34.5.3,b.40.4.5	120361,120362
1rkd	309	11.72		
1k8mA	93	12.75	b.84.1.1	68314
1bdoA	80	14.38	b.84.1.1	28214
2h1qA	270	14.81		
1l0gA	358	16.32	e.3.1.1	73400
2blnA	305	17.71	b.46.1.1,c.65.1.1	128734,128735
2h8gA	267	18.56		
1ftpA	133	18.91	b.60.1.2	27199
1clc	639	19.86		
1clcA	639	20.39	a.102.1.2,b.1.18.2	18835,21872
2fv7A	331	20.89	c.72.1.1	134197
2j5uA	255	22.74		
2nwhA	317	28.16		
2ajrA	331	29.44	c.72.1.1	126892
2p4oA	306	30.30		
1t5eA	360	36.11	f.46.1.1	106436
1v9sA	208	36.82	c.61.1.1	119894
1pjjA	271	39.27	a.156.1.2,b.113.1.1,g.39.1.8	104164,104165,104166
1yleA	342	43.84	d.108.1.8	123647
1vm7A	311	44.14	c.72.1.1	108884
3bwvA	180	44.16		
1wpgA	994	44.72	b.82.7.1,c.108.1.7,d.220.1.1,f.33.1.1	114806,114807,114808,114809
2ddmA	283	46.36		
2hrvA	142	48.00	b.47.1.4	26429
2hlzA	312	48.86		
2a9gA	418	49.42	d.126.1.4	126435
1vz0A	230	49.88	a.4.14.1,d.268.1.1	108929,108930
1sgoA	139	50.48	d.82.3.1	98857
2h4tA	626	50.93		
2d73A	738	51.52		
1ub0A	258	53.54	c.72.1.2	88394
1ee8A	266	54.30	a.156.1.2,b.113.1.1,g.39.1.8	75823,75824,75825
1kdj	102	54.74		
1p42A	270	55.51	d.14.1.7,d.14.1.7	87754,87755
2gnrA	145	56.56		
1m55A	197	56.92	d.89.1.3	74469
1y13A	181	62.29	d.96.1.2	116319
2ichA	335	63.00		
1jssA	224	63.25	d.129.3.2	71844
1fmtA	314	64.75	b.46.1.1,c.65.1.1	25758,34174
1llnA	262	65.94	d.165.1.1	84625
1amuA	563	69.92	e.23.1.1	43351
1ekqA	272	70.73	c.72.1.2	34941
1cnvA	299	71.69	c.1.8.5	28989
1a3yA	149	71.75	b.60.1.1	27110
2hdeA	148	74.11		
2v78A	313	75.38		
1k3xA	262	75.47	a.156.1.2,b.113.1.1,g.39.1.8	77242,77243,77244
2dcnA	311	77.03	c.72.1.1	131374
1rl2A	137	79.46	b.34.5.3,b.40.4.5	24610,25342
2ihoA	293	82.02		
2jexA	209	84.67		
2go3A	267	84.70	d.14.1.7,d.14.1.7	135422,135423
1wraA	308	85.41	d.157.1.8	121190
1r2zA	274	86.34	a.156.1.2,b.113.1.1,g.39.1.8	96892,96893,96894
3cdxA	354	86.98		
1l1nA	183	86.99	b.47.1.4	73476