# 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
1edgA	380	0.9614	c.1.8.3	28807
2bkdN	134	2.938		
1r7aA	504	3.192	b.71.1.1,c.1.8.1	97192,97193
1mhnA	59	3.361	b.34.9.1	84964
1em2A	229	3.912	d.129.3.2	41321
2qqrA	118	10.17		
1jj2B	337	10.94	b.43.3.2	63086
2jepA	395	14.51		
2jixB	225	15.21		
2dkoB	103	21.41		
2hqxA	246	22.06	b.34.9.1	136675
2arcA	164	23.11	b.82.4.1	28148
1qtnB	95	23.75		
2r55A	231	24.60		
2hftA	218	25.39	b.1.2.1,b.1.2.1	21951,21952
1nmeB	92	26.55		
3chvA	284	28.59		
1sc3B	88	29.52		
1louA	101	32.06	d.58.14.1	39323
1z9nA	177	32.23		
1wznA	252	33.18	c.66.1.43	121525
1qwdA	177	35.70	b.60.1.1	96471
2yrvA	117	35.88		
1xr4A	509	36.70	c.124.1.2,c.124.1.2	115860,115861
1wgsA	133	36.85	b.34.13.3	114622
2gfaA	119	37.04	b.34.9.1,b.34.9.1	135089,135090
2gduA	504	42.95	b.71.1.1,c.1.8.1	135032,135033
2psoA	237	43.59		
2r6hA	290	44.40		
1xu1R	42	45.90	g.24.1.2	116036
2aqpA	164	46.39		
2j01E	206	47.38		
2f2lX	167	47.98	d.118.1.1	132844
1avqA	228	48.25	c.52.1.13	33326
1lla	628	48.88		
1n9eA	787	49.70	b.30.2.1,d.17.2.1,d.17.2.1	91708,91709,91710
1vqoB	338	50.85	b.43.3.2	120363
1pdqA	72	52.17	b.34.13.2	94590
1v0aA	178	52.62	b.18.1.30	119815
2h8gA	267	54.63		
1vecA	206	57.41	c.37.1.19	100575
1nnvA	110	58.18	d.17.7.1	92012
1cqmA	101	59.38	d.58.14.1	39321
1zxfA	155	60.30	d.129.3.5	125771
1vp2A	208	60.74	c.51.4.1	113933
1mi8A	158	61.82	b.86.1.2	91279
2ivwA	113	63.33		
1pyoB	105	63.35		
1oycA	400	64.13	c.1.4.1	28603
1jfxA	217	67.41	c.1.8.8	62943
1kt6A	183	67.62	b.60.1.1	84466
2aaaA	484	68.73	b.71.1.1,c.1.8.1	27777,28764
1w7cA	747	72.46		
2b3jA	159	81.37	c.97.1.2	127787
2arhA	203	83.07	d.108.1.9	127197
1vk1A	242	83.13	d.268.1.2	108634
1z3aA	168	84.74	c.97.1.2	124396
2f5kA	102	85.22	b.34.13.3	132995
1pfbA	55	85.71	b.34.13.2	94655
1ecrA	309	85.81	e.2.1.1	42678
1ehsA	48	88.87	g.2.1.1	43998
1snrA	341	89.42	b.6.1.3,b.6.1.3	105823,105824