# 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
1mhnA	59	0.2915	b.34.9.1	84964
1sc3B	88	8.423		
2dkoB	103	9.687		
1nmeB	92	10.17		
1qtnB	95	11.66		
1ehsA	48	14.58	g.2.1.1	43998
2oc3A	303	19.68		
1jj2B	337	22.93	b.43.3.2	63086
1o59A	355	24.45	b.18.1.22,b.18.1.22	92495,92496
2pbnA	313	27.10		
2qdeA	397	27.86		
2bkdN	134	27.91		
1pysA	350	32.15	d.104.1.1	40775
2ccvA	101	34.40	b.154.1.1	130258
2jepA	395	36.73		
1c1dA	355	37.63	c.2.1.7,c.58.1.1	30270,33918
2cm2A	304	37.64	c.45.1.2	130610
1kzlA	208	37.93	b.43.4.3,b.43.4.3	77635,77636
1vqoB	338	39.15	b.43.3.2	120363
1pyoB	105	41.05		
1avqA	228	43.53	c.52.1.13	33326
1i8dA	213	44.75	b.43.4.3,b.43.4.3	61953,61954
2r7dA	469	45.27		
1ym0B	27	46.28		
1mi8A	158	47.13	b.86.1.2	91279
1pdqA	72	49.23	b.34.13.2	94590
2ivwA	113	54.52		
2ar9A	278	55.58		
2hqxA	246	56.34	b.34.9.1	136675
1khcA	147	58.49	b.34.9.2	68608
1aoeA	192	58.53	c.71.1.1	34923
2fp3A	316	63.29		
2j01E	206	63.95		
2q8kA	401	65.82		
2i75A	320	65.97		
2yrvA	117	67.86		
1t3lA	337	68.74	b.34.2.1,c.37.1.1	106358,106359
1xttA	216	68.75	c.61.1.1	122300
1pm4A	119	70.29	b.135.1.1	94891
2hftA	218	71.05	b.1.2.1,b.1.2.1	21951,21952
2gfaA	119	74.44	b.34.9.1,b.34.9.1	135089,135090
1d3yA	301	75.10	e.12.1.1	43252
1m1qA	91	76.72	a.138.1.3	74419
2qdxA	257	84.07		
1vc3B	97	84.18		
3cx5B	352	84.25		
2nx8A	179	85.75		
1d2eA	397	86.37	b.43.3.1,b.44.1.1,c.37.1.8	25701,25741,32136
1m70A	190	86.40	a.3.1.4,a.3.1.4	91200,91201
1z3aA	168	87.57	c.97.1.2	124396
2pceA	386	88.90		
2f71A	298	89.78	c.45.1.2	133070