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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 23:04:12 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/Ribosomal_L5_NC.html
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#====================================
# Aligned_structures: 2
#   1: 1iq4a.pdb
#   2: 1jj2d.pdb
#
# Length:        201
# Identity:       42/201 ( 20.9%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:     42/201 ( 20.9%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           83/201 ( 41.3%)  (Calculated as the percentage of columns with atleast one gap.)

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


1iq4a.pdb               1  MNRLKEKYLNEVVPALMSKFNYKSIMQVPKIEKIVINMGVGDAVQNPKALDSAVEELTLI   60
1jj2d.pdb               1  ----------------------FHEMREPRIEKVVVHMGIG-H------AN-AEDILGEI   30
                                                    M  P IEK V  MG G           A   L  I

1iq4a.pdb              61  AGQRPVVTRAKKSIAGFR-LRQGMPIGAKVTLRGERMYEFLDKLISVSLPRARDFR-GVS  118
1jj2d.pdb              31  TGQMPVRTKAKRTVGEF-DIREGDPIGAKVTLRDEMAEEFLQTALPL---------AELA   80
                            GQ PV T AK     F   R G PIGAKVTLR E   EFL                   

1iq4a.pdb             119  KKSFDGRGNYTLGIKEQLIFPEIDYDKVNKVRGMDIVIVTT-A-----------------  160
1jj2d.pdb              81  TSQFDDTGNFSFG--------------------LDVTVNLVRPGYRVAKRDKASRSIPTK  120
                              FD  GN   G                     D                         

1iq4a.pdb             161  --NTDEEARELLALLGMPFQK  179
1jj2d.pdb             121  HRLNPADAVAFIESTYDVEV-  140
                                  A             


#=========================================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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