# List of top-scoring protein chains for t04-w0.5-1-str4-0.1-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
1iabA	200	5.543	d.92.1.8	40312
3ctzA	623	7.301		
2oxcA	230	7.747		
1g94A	448	7.845	b.71.1.1,c.1.8.1	65169,65170
2f5uA	447	7.881		
3mag	307	8.737		
2db3A	434	10.41		
1vpt	348	16.41		
1vptA	348	18.13	c.66.1.25	34207
2fjuB	799	19.01		
1k4iA	233	19.41	d.115.1.2	72056
3borA	237	20.34		
2yy3A	91	21.59		
2f02A	323	22.67	c.72.1.1	132649
1xvxA	312	26.45	c.94.1.1	116097
1y63A	184	27.00	c.37.1.1	116494
1bwzA	274	27.27	d.21.1.1,d.21.1.1	38337,38338
1qdeA	224	28.00	c.37.1.19	32410
1xubA	298	29.50	d.21.1.2,d.21.1.2	116060,116061
2c81A	418	30.22		
1eyzA	392	31.75	b.84.2.1,c.30.1.1,d.142.1.2	28246,31653,41498
2qu7A	288	31.83		
1aba	87	33.76		
1g57A	217	35.02	d.115.1.2	60253
1tlfA	301	37.21	c.93.1.1	35687
1hyeA	313	37.42	c.2.1.5,d.162.1.1	61400,61401
2c2qA	199	37.50		
1gox	370	39.30		
1jdw	423	40.23		
2bgiA	272	41.41		
1iae	200	41.64		
1pamA	686	42.17	b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1	21846,22515,27753,28740
1qyaA	307	43.34	d.21.1.2,d.21.1.2	104653,104654
2a40B	260	43.51	d.151.1.1	126139
3brqA	296	43.80		
2rgyA	290	44.81		
1tksA	204	45.00	d.115.1.2	107114
1gqzA	274	45.87	d.21.1.1,d.21.1.1	83311,83312
3berA	249	46.45		
1o8vA	134	47.47	b.60.1.2	86680
1jyeA	349	51.58	c.93.1.1	67455
2j9cA	119	52.45		
2idxA	196	53.80		
1vpsA	289	54.39	b.121.6.1	23336
1t6nA	220	58.18	c.37.1.19	106576
2v1xA	591	58.30		
1p1jA	533	62.19	c.2.1.3,d.81.1.3	87687,87688
3cs3A	277	63.35		
1kjqA	391	63.85	b.84.2.1,c.30.1.1,d.142.1.2	72616,72617,72618
1vfjA	116	65.36	d.58.5.1	113637
1hmt	132	65.42		
2pii	112	65.83		
1uumA	372	67.20	c.1.4.1	100010
1akoA	268	68.20	d.151.1.1	41779
2o11A	407	69.52		
1qwgA	251	69.83	c.1.27.1	96473
3bblA	287	70.52		
2gh9A	386	70.77		
2i4iA	417	71.14		
2gxqA	207	74.72		
1opbA	135	75.00	b.60.1.2	27216
2o9cA	342	75.22		
1oi0A	124	76.16	c.97.3.1	93045
2eg2A	112	76.53		
2gkpA	167	78.92		
2ns1B	116	81.91		
2qahA	303	82.18		
2z14A	133	82.91		
1c0eA	157	83.17	c.44.1.1	32638
1fjgS	93	85.30	d.28.1.1	38451
1ir6A	424	86.81	c.107.1.2	71342
1m7lA	40	87.29	h.1.1.1	78735
2acfA	182	87.49	c.50.1.2	126547
1vecA	206	87.80	c.37.1.19	100575
1xx6A	191	89.00	c.37.1.24,g.39.1.14	116139,116140