# 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://compbio.soe.ucsc.edu/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
2gtdA	251	0.2152	c.55.1.13,c.55.1.13	135634,135635
2aa4A	289	0.6957	c.55.1.10,c.55.1.10	126465,126466
2ap1A	327	0.7611	c.55.1.10,c.55.1.10	127108,127109
2r6hA	290	1.475		
2ewsA	287	1.640	c.55.1.14	146991
2e2oA	299	1.709		
2h3gX	268	1.710		
3htvA	310	2.537		
1sz2A	332	3.318	c.55.1.7	112169
2gupA	292	4.171	c.55.1.10,c.55.1.10	135744,135745
2ch5A	347	5.291	c.55.1.5,c.55.1.5	130453,130454
3gg4A	554	5.340		
1zc6A	305	5.420	c.55.1.5,c.55.1.5	124888,124889
1zbsA	291	5.985	c.55.1.5,c.55.1.5	124870,124871
2qm1A	326	6.572		
3bexA	249	7.559	c.55.1.13,c.55.1.13	155198,155199
1xc3A	302	7.817	c.55.1.10,c.55.1.10	115102,115103
3lm2A	226	8.062		
2zf5O	497	12.45		
3l0qA	554	13.00		
2q8nA	460	13.05		
3flcO	518	14.79		
3bilA	348	15.49		
3hi0A	508	17.48		
1r59O	505	17.99	c.55.1.4,c.55.1.4	111697,111698
3gbtA	504	18.47		
3gybA	280	19.72		
3ll3A	504	25.63		
3ezwA	526	26.79		
2w40A	503	28.81		
3ifrA	508	29.37		
3d7eO	505	30.20		
2hoeA	380	30.87	a.4.5.63,c.55.1.10,c.55.1.10	136639,136640,136641
2uytA	489	30.94		
1woqA	267	31.00	c.55.1.10,c.55.1.10	109462,109463
3h46O	506	31.74		
3h3nO	506	31.79		
2d4wA	504	32.64		
2q01A	497	33.82		
3mcpA	366	34.54		
1glcG	501	34.86	c.55.1.4,c.55.1.4	33519,33520
2f9wA	271	35.07	c.55.1.13,c.55.1.13	133174,133175
2qdxA	257	36.15		
2itmA	484	37.90		
1xwfA	431	40.89	c.2.1.4,c.23.12.3	122392,122393
1u6zA	513	43.85	a.211.1.5,c.55.1.8,c.55.1.8	119608,119609,119610
2h88C	140	45.65		
3gv0A	288	46.31		
1hdmA	201	47.93	b.1.1.2,d.19.1.1	21583,38157
2q2rA	373	50.38		
1m1nB	522	54.37	c.92.2.3	78418
3epqA	302	57.62		
2bgiA	272	58.52		
1wuiS	267	60.01	e.19.1.1	121290
1rec	201	63.98		
1krhA	338	65.00	b.43.4.2,c.25.1.2,d.15.4.2	72891,72892,72893
1q1rA	431	65.98	c.3.1.5,c.3.1.5,d.87.1.1	95600,95601,95602
3lyuA	142	66.00		
1czaN	917	67.38	c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3	33463,33464,33465,33466
2eixA	243	69.27		
2qzsA	485	69.33		
2bmwA	304	70.08	b.43.4.2,c.25.1.1	128815,128816
2o56A	407	74.19		
3lrxA	158	74.91		
1a8pA	258	77.74	b.43.4.2,c.25.1.1	25654,31544
3brqA	296	78.23		
1vdeA	454	79.60	b.86.1.2,d.95.2.2,d.95.2.2	28378,40581,40582
3h6eA	482	81.25		
3c0bA	334	86.84		
2w9xA	366	89.22