# List of top-scoring protein chains for t04-w0.5-1-CB8-sep9-0.3-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
1oqcA	125	3.25e-17	a.24.15.1	87264
1jr8A	117	1.18e-16	a.24.15.1	67115
2aj0A	71	2.076		
2q3pA	112	4.940	d.58.4.4	139798
1wn5A	130	8.358	c.97.1.1	121082
1tdpA	111	8.514	a.29.8.1	106781
1cc8A	73	11.56	d.58.17.1	39343
1dxsA	80	16.35	a.60.1.2	17944
2h8lA	252	17.49		
1tr0A	108	17.72	d.58.4.4	107261
1a9wE	146	17.91	a.1.1.2	15551
1mwyA	73	19.51	d.58.17.1	79616
2eppA	66	21.04		
2yrmA	43	21.38		
2fqhA	109	21.92		
1wkqA	164	23.00	c.97.1.2	109393
1fe0A	68	27.65	d.58.17.1	39345
3bomB	147	28.46		
2nytA	190	28.74		
1gyxA	76	30.09	d.80.1.1	76387
1rwjA	82	30.42	a.138.1.1	105114
1r5tA	142	30.90	c.97.1.1	104812
2ia4A	287	31.46		
3b8fA	142	33.77		
2vlgA	111	34.30		
2z3hA	130	35.18		
2pqxA	245	35.20		
1kqhA	38	36.49	g.3.6.2	68810
2q01A	497	37.93		
1d4vA	117	39.09	g.24.1.1,g.24.1.1,g.24.1.1	44915,44916,44917
1y791	680	40.68		
1oruA	195	44.78	b.58.1.2	93464
2b5eA	504	48.62	c.47.1.2,c.47.1.2,c.47.1.2,c.47.1.2	127888,127889,127890,127891
2dsyA	87	49.12		
1y3jA	77	50.66		
1fa0A	537	51.18	d.58.16.1,a.160.1.1,d.218.1.3	39335,75837,75838
1uwzA	136	51.29	c.97.1.1	108081
1x3zA	335	53.26	d.3.1.4	121673
2z8aA	146	56.89		
2g84A	197	61.57	c.97.1.2	134766
1y0nA	78	62.43	d.291.1.1	116305
1cttA	294	63.38	c.97.1.1,c.97.1.1	36022,36023
1ldjB	90	63.51	g.44.1.1	73850
3b8xA	390	63.53		
1ovxA	67	67.19	g.39.1.11	93622
2ahmA	88	67.84	a.8.9.1	126760
1jtkA	136	71.83	c.97.1.1	71862
1pdgA	109	72.25	g.17.1.1	44748
2jwhA	48	75.32		
2fccA	137	76.07	a.18.1.1	133264
1osdA	72	79.03	d.58.17.1	104022
1itg	166	79.21		
1mkkA	96	79.33	g.17.1.1	79240
2z4iA	233	80.58		
1znfA	25	83.12	g.37.1.1	45036
1a01B	146	85.34	a.1.1.2	15448
1hruA	188	85.96	d.115.1.1	40926
3sdhA	146	87.93	a.1.1.2	14984
1nhyA	219	89.20	a.45.1.1,c.47.1.5	80520,80521