# List of top-scoring protein chains for t04-w0.5-1-str2-0.1-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
1e54A	332	8.47e-32	f.4.3.1	59258
2fgqX	332	2.12e-31	f.4.3.1	133439
2j1nA	346	4.53e-30		
1hxxA	340	4.66e-30	f.4.3.1	61385
2omf	340	9.97e-30		
2porA	301	3.17e-28	f.4.3.1	43759
2por	301	9.53e-26		
3prn	289	3.71e-24		
3prnA	289	1.45e-23	f.4.3.1	43761
2o4vA	411	1.07e-10		
1prn	289	1.23e-10		
1t16A	427	0.002344	f.4.3.4	106242
1fepA	724	0.01356	f.4.3.3	43808
1qjpA	171	0.02999	f.4.1.1	43742
2gufA	594	0.08631	f.4.3.3	135736
1qfgA	725	0.08647	f.4.3.3	43803
1kmoA	774	0.1114	f.4.3.3	72753
1nqeA	594	0.1522	f.4.3.3	86027
2f1vA	197	0.1628		
2odjA	428	0.2227		
1po0A	751	0.2350	f.4.3.3	94960
1xkwA	665	0.2700		
1p4tA	155	0.3309	f.4.1.1	87779
2iwvA	281	0.6265		
2mprA	421	1.097	f.4.3.2	43788
1i78A	297	1.715	f.4.4.1	66046
2f1cX	286	1.899		
1a0tP	413	2.632	f.4.3.2	43794
2hdiA	639	3.442		
2mev1	277	3.774		
2jqyA	280	6.148		
1py5A	326	9.948	d.144.1.7	104389
1qj8A	148	11.29	f.4.1.1	43744
1vjyA	303	11.37	d.144.1.7	108633
3blcA	330	13.14		
2d6mA	159	13.46		
1v0eA	666	15.84	b.68.1.2,b.108.1.3	113466,113467
1hxs1	302	17.15		
1pov1	302	21.32		
2bwrA	401	23.04		
1aym1	285	23.11		
1h8vA	218	23.89	b.29.1.11	60795
1ux6A	350	24.25	b.29.1.16,g.75.1.1	100145,100146
1pvc1	301	24.90		
1vjvA	415	26.46	d.3.1.9	108632
1gkpA	458	31.96	b.92.1.3,c.1.9.6	70231,70232
1hnf	182	32.15		
1zgsA	447	32.17		
2eh6A	375	32.33		
2p0mA	662	32.84		
2pb2A	420	33.83		
2g3fA	421	35.13		
2qz7A	194	36.26		
2cy8A	453	36.33		
1owcA	427	40.54	a.103.1.1	104039
2hp1A	432	41.18		
2hiqA	113	44.08	d.58.4.12	136529
3cgvA	397	44.94		
1oa2A	218	46.30	b.29.1.11	86721
2hmcA	344	51.08		
3bs2A	148	51.44		
1a8dA	452	51.82	b.29.1.6,b.42.4.2	24262,25607
1gnyA	153	54.54	b.18.1.11	65404
1r1a1	287	54.74		
2p4mA	219	55.02		
1h9dB	134	55.17	b.54.1.1	60822
1xf1A	926	55.32		
2volB	180	60.32		
1a5t	334	66.48		
2gcuA	245	68.91		
1p16A	395	71.59	b.40.4.6,d.142.2.3	87661,87662
1arbA	268	72.43	b.47.1.1	25766
1bkcE	256	74.91	d.92.1.10	40333
1i8aA	189	77.81	b.1.9.2	61951
1v7wA	807	78.24	a.102.1.4,b.30.5.3	108411,108412
1koe	172	78.98		
1mnnA	340	81.27	b.2.5.7	79324
1zgkA	308	81.52		
2ftwA	521	84.70	b.92.1.3,c.1.9.6	134083,134084
2gmnA	274	86.30		
1epwA	1290	87.46	b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1	24269,25614,40305,45785