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# Program: MUSTANG-Lite v0.1: A  Multiple structural alignment algorithm
# Authors: A. S. Konagurthu, A. M. Lesk, J. C. Whisstock, and P. J. Stuckey
# Rundate: Fri Jul 22 20:30:36 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/HCV_NS3.html
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#====================================
# Aligned_structures: 2
#   1: 1a1rb.pdb
#   2: 1jxpa.pdb
#
# Length:        200
# Identity:      169/200 ( 84.5%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    169/200 ( 84.5%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           11/200 (  5.5%)  (Calculated as the percentage of columns with atleast one gap.)

#===========================================ALIGNMENT START=========================================


1a1rb.pdb               1  PITAYAQQTRGLLGCIITSLTGRDKNQVEGEVQIVSTATQTFLATCINGVCWTVYHGAGT   60
1jxpa.pdb               1  -ITAYSQQTRGLLGCIITSLTGRDKNQVEGEVQVVSTATQSFLATCVNGVCWTVYHGAGS   59
                            ITAY QQTRGLLGCIITSLTGRDKNQVEGEVQ VSTATQ FLATC NGVCWTVYHGAG 

1a1rb.pdb              61  RTIASPKGPVIQMYTNVDQDLVGWPAPQGSRSLTPCTCGSSDLYLVTRHADVIPVRRRGD  120
1jxpa.pdb              60  KTLAGPKGPITQMYTNVDQDLVGWQAPPGARSLTPCTCGSSDLYLVTRHADVIPVRRRGD  119
                            T A PKGP  QMYTNVDQDLVGW AP G RSLTPCTCGSSDLYLVTRHADVIPVRRRGD

1a1rb.pdb             121  SRGSLLSPRPISYLKGSSGGPLLCPTGHAVGLFRAAVCTRGVAKAVDFIPVENLETTMRK  180
1jxpa.pdb             120  SRGSLLSPRPVSYLKGSSGGPLLCPSGHAVGIFRAAVCTRGVAKAVDFVPVESMETTM--  177
                           SRGSLLSPRP SYLKGSSGGPLLCP GHAVG FRAAVCTRGVAKAVDF PVE  ETTM  

1a1rb.pdb             181  GSVVIVGRIVLSGKPAIIPK  200
1jxpa.pdb             178  GSVVIVGRIILS--------  189
                           GSVVIVGRI LS        


#=========================================ALIGNMENT END=============================================
#LEGEND:
#
# Colours indicate the chemical nature of the amino acid;
# Red         = small hydrophobic including aromatic,{A,F,I,L,M,P,V,W}
# Blue        = Acidic,{D,E}
# Magenta     = Basic,{K,R} and
# Green       = Basic amino acids with hydroxyl groups and/or amine groups {C,G,H,N,Q,S,T,Y}.
#
# The "markup row" below each stretch of the multiple alignment is used to mark completely conserved
# residue (denoted in UPPERCASE) and semi-conserved reside ( denoted in lowercase) in a column of the alignment.
#
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